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  • 1. Aad, G.
    et al.
    Grahn, Karl-Johan
    KTH, Skolan för teknikvetenskap (SCI), Fysik, Partikel- och astropartikelfysik.
    Lund-Jensen, Bengt
    KTH, Skolan för teknikvetenskap (SCI), Fysik, Partikel- och astropartikelfysik.
    Strandberg, Jonas
    University of Chicago.
    Zwalinski, L.
    Lafaye, Remi
    KTH, Skolan för teknikvetenskap (SCI), Fysik, Partikel- och astropartikelfysik.
    et, al
    Measurement of the inelastic proton-proton cross-section at root s=7 TeV with the ATLAS detector2011Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 2, s. 463-Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The dependence of the rate of proton-proton interactions on the centre-of-mass collision energy, root s, is of fundamental importance for both hadron collider physics and particle astrophysics. The dependence cannot yet be calculated from first principles; therefore, experimental measurements are needed. Here we present the first measurement of the inelastic proton-proton interaction cross-section at a centre-of-mass energy, root s, of 7 TeV using the ATLAS detector at the Large Hadron Collider. Events are selected by requiring hits on scintillation counters mounted in the forward region of the detector. An inelastic crosssection of 60.3 +/- 2.1 mb is measured for xi > 5x10(-6), where xi is calculated from the invariant mass, M(X), of hadrons selected using the largest rapidity gap in the event. For diffractive events, this corresponds to requiring at least one of the dissociation masses to be larger than 15.7 GeV.

  • 2. Aghion, S.
    et al.
    Ahlén, O.
    Amsler, C.
    Ariga, A.
    Ariga, T.
    Belov, A. S.
    Berggren, Karl
    Physics Department, European Organisation for Nuclear Research, Switzerland.
    Bonomi, G.
    Bräunig, P.
    Bremer, J.
    Brusa, R. S.
    Cabaret, L.
    Canali, C.
    Caravita, R.
    Castelli, F.
    Cerchiari, G.
    Cialdi, S.
    Comparat, D.
    Consolati, G.
    Derking, H.
    Di Domizio, S.
    Di Noto, L.
    Doser, M.
    Dudarev, A.
    Ereditato, A.
    Ferragut, R.
    Fontana, A.
    Genova, P.
    Giammarchi, M.
    Gligorova, A.
    Gninenko, S. N.
    Haider, S.
    Huse, T.
    Jordan, E.
    Jørgensen, L. V.
    Kaltenbacher, T.
    Kawada, J.
    Kellerbauer, A.
    Kimura, M.
    Knecht, A.
    Krasnický, D.
    Lagomarsino, V.
    Lehner, S.
    Magnani, A.
    Malbrunot, C.
    Mariazzi, S.
    Matveev, V. A.
    Moia, F.
    Nebbia, G.
    Nédélec, P.
    Oberthaler, M. K.
    Pacifico, N.
    Petràček, V.
    Pistillo, C.
    Prelz, F.
    Prevedelli, M.
    Regenfus, C.
    Riccardi, C.
    Røhne, O.
    Rotondi, A.
    Sandaker, H.
    Scampoli, P.
    Storey, J.
    Vasquez, M.A. Subieta
    Špaček, M.
    Testera, G.
    Vaccarone, R.
    Widmann, E.
    Zavatarelli, S.
    Zmeskal, J.
    A moiré deflectometer for antimatter2014Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 5, artikkel-id 2538Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The precise measurement of forces is one way to obtain deep insight into the fundamental interactions present in nature. In the context of neutral antimatter, the gravitational interaction is of high interest, potentially revealing new forces that violate the weak equivalence principle. Here we report on a successful extension of a tool from atom optics—the moiré deflectometer—for a measurement of the acceleration of slow antiprotons. The setup consists of two identical transmission gratings and a spatially resolving emulsion detector for antiproton annihilations. Absolute referencing of the observed antimatter pattern with a photon pattern experiencing no deflection allows the direct inference of forces present. The concept is also straightforwardly applicable to antihydrogen measurements as pursued by the AEgIS collaboration. The combination of these very different techniques from high energy and atomic physics opens a very promising route to the direct detection of the gravitational acceleration of neutral antimatter.

  • 3. Andersson, Sandra
    et al.
    Sundberg, Marten
    Pristovsek, Nusa
    Ibrahim, Ahmed
    KTH, Skolan för bioteknologi (BIO), Proteomik och nanobioteknologi. KTH, Centra, Science for Life Laboratory, SciLifeLab. Natl Res Ctr, Egypt.
    Jonsson, Philip
    Katona, Borbala
    Clausson, Carl-Magnus
    Zieba, Agata
    Ramstrom, Margareta
    Soderberg, Ola
    Williams, Cecilia
    KTH, Skolan för bioteknologi (BIO), Proteomik och nanobioteknologi. KTH, Centra, Science for Life Laboratory, SciLifeLab. Univ Houston, USA; Karolinska Inst, Sweden.
    Asplund, Anna
    Insufficient antibody validation challenges oestrogen receptor beta research2017Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 8, artikkel-id 15840Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The discovery of oestrogen receptor beta (ER beta/ESR2) was a landmark discovery. Its reported expression and homology with breast cancer pharmacological target ER alpha (ESR1) raised hopes for improved endocrine therapies. After 20 years of intense research, this has not materialized. We here perform a rigorous validation of 13 anti-ER beta antibodies, using well-characterized controls and a panel of validation methods. We conclude that only one antibody, the rarely used monoclonal PPZ0506, specifically targets ER beta in immunohistochemistry. Applying this antibody for protein expression profiling in 44 normal and 21 malignant human tissues, we detect ER beta protein in testis, ovary, lymphoid cells, granulosa cell tumours, and a subset of malignant melanoma and thyroid cancers. We do not find evidence of expression in normal or cancerous human breast. This expression pattern aligns well with RNA-seq data, but contradicts a multitude of studies. Our study highlights how inadequately validated antibodies can lead an exciting field astray.

  • 4. Arabi, A.
    et al.
    Ullah, K.
    Branca, R. M. M.
    Johansson, J.
    Bandarra, D.
    Haneklaus, M.
    Fu, J.
    Ariës, I.
    Nilsson, Peter
    KTH, Skolan för bioteknologi (BIO), Proteomik (stängd 20130101). KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Den Boer, M. L.
    Pokrovskaja, K.
    Grandér, D.
    Xiao, G.
    Rocha, S.
    Lehtiö, J.
    Sangfelt, O.
    Proteomic screen reveals Fbw7 as a modulator of the NF-kappa B pathway2012Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 3, s. 976-Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Fbw7 is a ubiquitin-ligase that targets several oncoproteins for proteolysis, but the full range of Fbw7 substrates is not known. Here we show that by performing quantitative proteomics combined with degron motif searches, we effectively screened for a more complete set of Fbw7 targets. We identify 89 putative Fbw7 substrates, including several disease-associated proteins. The transcription factor NF-κB2 (p100/p52) is one of the candidate Fbw7 substrates. We show that Fbw7 interacts with p100 via a conserved degron and that it promotes degradation of p100 in a GSK3 2 phosphorylation-dependent manner. Fbw7 inactivation increases p100 levels, which in the presence of NF-κB pathway stimuli, leads to increased p52 levels and activity. Accordingly, the apoptotic threshold can be increased by loss of Fbw7 in a p100-dependent manner. In conclusion, Fbw7-mediated destruction of p100 is a regulatory component restricting the response to NF-κB2 pathway stimulation.

  • 5. Bagnoud, Alexandre
    et al.
    Chourey, Karuna
    Hettich, Robert L.
    de Bruijn, Ino
    KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Andersson, Anders F.
    Leupin, Olivier X.
    Schwyn, Bernhard
    Bernier-Latmani, Rizlan
    Reconstructing a hydrogen-driven microbial metabolic network in Opalinus Clay rock2016Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 7, artikkel-id 12770Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The Opalinus Clay formation will host geological nuclear waste repositories in Switzerland. It is expected that gas pressure will build-up due to hydrogen production from steel corrosion, jeopardizing the integrity of the engineered barriers. In an in situ experiment located in the Mont Terri Underground Rock Laboratory, we demonstrate that hydrogen is consumed by microorganisms, fuelling a microbial community. Metagenomic binning and metaproteomic analysis of this deep subsurface community reveals a carbon cycle driven by autotrophic hydrogen oxidizers belonging to novel genera. Necromass is then processed by fermenters, followed by complete oxidation to carbon dioxide by heterotrophic sulfate-reducing bacteria, which closes the cycle. This microbial metabolic web can be integrated in the design of geological repositories to reduce pressure build-up. This study shows that Opalinus Clay harbours the potential for chemolithoautotrophic-based system, and provides a model of microbial carbon cycle in deep subsurface environments where hydrogen and sulfate are present.

  • 6.
    Belonoshko, Anatoly
    et al.
    KTH, Skolan för teknikvetenskap (SCI), Fysik, Kondenserade materiens teori.
    Fu, Jie
    Ningbo Univ, Dept Phys, Fac Sci, Ningbo 315211, Zhejiang, Peoples R China..
    Bryk, Taras
    Natl Acad Sci Ukraine, Inst Condensed Matter Phys, UA-79011 Lvov, Ukraine..
    Simak, Sergei, I
    Linkoping Univ, Dept Phys Chem & Biol IFM, SE-58183 Linkoping, Sweden..
    Mattesini, Maurizio
    Univ Complutense Madrid, Dept Earths Phys & Astrophys, E-28040 Madrid, Spain.;UCM, CSIC, Fac Ciencias Fis, Inst Geociencias, Plaza Ciencias 1, Madrid 28040, Spain..
    Low viscosity of the Earth's inner core2019Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 10, artikkel-id 2483Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The Earth's solid inner core is a highly attenuating medium. It consists mainly of iron. The high attenuation of sound wave propagation in the inner core is at odds with the widely accepted paradigm of hexagonal close-packed phase stability under inner core conditions, because sound waves propagate through the hexagonal iron without energy dissipation. Here we show by first-principles molecular dynamics that the body-centered cubic phase of iron, recently demonstrated to be thermodynamically stable under the inner core conditions, is considerably less elastic than the hexagonal phase. Being a crystalline phase, the body-centered cubic phase of iron possesses the viscosity close to that of a liquid iron. The high attenuation of sound in the inner core is due to the unique diffusion characteristic of the body-centered cubic phase. The low viscosity of iron in the inner core enables the convection and resolves a number of controversies.

  • 7. Belotelov, V. I.
    et al.
    Kreilkamp, L. E.
    Akimov, I. A.
    Kalish, A. N.
    Bykov, D. A.
    Kasture, S.
    Yallapragada, V. J.
    Gopal, Achanta Venu
    Grishin, Alexander M.
    KTH, Skolan för informations- och kommunikationsteknik (ICT), Integrerade komponenter och kretsar.
    Khartsev, Sergiy I.
    KTH, Skolan för informations- och kommunikationsteknik (ICT), Integrerade komponenter och kretsar.
    Nur-E-Alam, M.
    Vasiliev, M.
    Doskolovich, L. L.
    Yakovlev, D. R.
    Alameh, K.
    Zvezdin, A. K.
    Bayer, M.
    Plasmon-mediated magneto-optical transparency2013Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 4, s. 2128-Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Magnetic field control of light is among the most intriguing methods for modulation of light intensity and polarization on sub-nanosecond timescales. The implementation in nanostructured hybrid materials provides a remarkable increase of magneto-optical effects. However, so far only the enhancement of already known effects has been demonstrated in such materials. Here we postulate a novel magneto-optical phenomenon that originates solely from suitably designed nanostructured metal-dielectric material, the so-called magneto-plasmonic crystal. In this material, an incident light excites coupled plasmonic oscillations and a waveguide mode. An in-plane magnetic field allows excitation of an orthogonally polarized waveguide mode that modifies optical spectrum of the magneto-plasmonic crystal and increases its transparency. The experimentally achieved light intensity modulation reaches 24%. As the effect can potentially exceed 100%, it may have great importance for applied nanophotonics. Further, the effect allows manipulating and exciting waveguide modes by a magnetic field and light of proper polarization.

  • 8.
    Berglund, Emelie
    et al.
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Genteknologi.
    Maaskola, Jonas
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Genteknologi.
    Schultz, Niklas
    Friedrich, Stefanie
    Marklund, Maja
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Genteknologi.
    Bergenstrahle, Joseph
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Genteknologi.
    Tarish, Firas
    Tanoglidi, Anna
    Vickovic, Sanja
    KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Larsson, Ludvig
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Genteknologi.
    Salmén, Fredrik
    KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Ogris, Christoph
    Wallenborg, Karolina
    Lagergren, Jens
    KTH, Skolan för elektroteknik och datavetenskap (EECS), Beräkningsvetenskap och beräkningsteknik (CST).
    Ståhl, Patrik
    Sonnhammer, Erik
    Helleday, Thomas
    Lundeberg, Joakim
    KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Spatial maps of prostate cancer transcriptomes reveal an unexplored landscape of heterogeneity2018Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 9, artikkel-id 2419Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Intra-tumor heterogeneity is one of the biggest challenges in cancer treatment today. Here we investigate tissue-wide gene expression heterogeneity throughout a multifocal prostate cancer using the spatial transcriptomics (ST) technology. Utilizing a novel approach for deconvolution, we analyze the transcriptomes of nearly 6750 tissue regions and extract distinct expression profiles for the different tissue components, such as stroma, normal and PIN glands, immune cells and cancer. We distinguish healthy and diseased areas and thereby provide insight into gene expression changes during the progression of prostate cancer. Compared to pathologist annotations, we delineate the extent of cancer foci more accurately, interestingly without link to histological changes. We identify gene expression gradients in stroma adjacent to tumor regions that allow for re-stratification of the tumor microenvironment. The establishment of these profiles is the first step towards an unbiased view of prostate cancer and can serve as a dictionary for future studies.

  • 9.
    Biltmo, Anders
    et al.
    KTH, Skolan för teknikvetenskap (SCI), Teoretisk fysik.
    Henelius, Patrik
    KTH, Skolan för teknikvetenskap (SCI), Teoretisk fysik, Kondenserade materiens teori.
    Unreachable glass transition in dilute dipolar magnet2012Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 3, s. 857-Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    In magnetic systems the combined effects of disorder and frustration may cause the moments to freeze into a disordered state at a spin-glass transition. Recent experiments have shown that the rare earth compound LiHo0.045Y0.955F4 freezes, but that the transition is unreachable because of dynamics that are 10(7) times slower than in ordinary spin-glass materials. This conclusion refutes earlier investigations reporting a speed-up of the dynamics into an exotic anti-glass phase caused by entanglement of quantum dipoles. Here we present a theory, backed by numerical simulations, which describes the material in terms of classical dipoles governed by Glauber dynamics. The dipoles freeze and we find that the ultra-slow dynamics are caused by rare, strongly ordered clusters, which give rise to a previously predicted, but hitherto unobserved, Griffths phase between the paramagnetic and spin-glass phases. In addition, the hyperfine interaction creates a high energy barrier to flipping the electronic spin, resulting in a clear signature in the dynamic correlation function.

  • 10. Bonetti, Stefano
    et al.
    Kukreja, R
    Chen, Z
    Macià, F
    Hernàndez, J. M.
    Eklund, Anders
    KTH, Skolan för informations- och kommunikationsteknik (ICT), Integrerade komponenter och kretsar.
    Backes, D
    Frisch, J
    Katine, J
    Malm, Gunnar
    KTH, Skolan för informations- och kommunikationsteknik (ICT), Integrerade komponenter och kretsar.
    Urazhdin, S
    Kent, A. D.
    Stöhr, J.
    Ohldag, H.
    Dürr, H. A.
    Direct observation and imaging of a spin-wave soliton with p−like symmetry2015Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 6, artikkel-id 8889Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The prediction and realization of magnetic excitations driven by electrical currents via the spin transfer torque effect, enables novel magnetic nano-devices where spin-waves can be used to process and store information. The functional control of such devices relies on understanding the properties of non-linear spin-wave excitations. It has been demonstrated that spin waves can show both an itinerant character, but also appear as localized solitons. So far, it was assumed that localized solitons have essentially cylindrical, s−like symmetry. Using a newly developed high-sensitivity time-resolved magnetic x-ray microscopy, we instead observe the emergence of a novel localized soliton excitation with a nodal line, i.e. with p−like symmetry. Micromagnetic simulations identify the physical mechanism that controls the transition from s− to p−like solitons. Our results suggest a potential new pathway to design artificial atoms with tunable dynamical states using nanoscale magnetic devices.

  • 11.
    Borgström, Erik
    et al.
    KTH, Skolan för bioteknologi (BIO), Genteknologi. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Redin, David
    KTH, Skolan för bioteknologi (BIO), Genteknologi. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Lundin, Sverker
    KTH, Skolan för bioteknologi (BIO), Genteknologi. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Berglund, Emelie
    KTH, Skolan för bioteknologi (BIO), Genteknologi. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Andersson, Anders F.
    KTH, Skolan för bioteknologi (BIO), Genteknologi. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Ahmadian, Afshin
    KTH, Skolan för bioteknologi (BIO), Genteknologi. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Phasing of single DNA molecules by massively parallel barcoding2015Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 6, artikkel-id 7173Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    High-throughput sequencing platforms mainly produce short-read data, resulting in a loss of phasing information for many of the genetic variants analysed. For certain applications, it is vital to know which variant alleles are connected to each individual DNA molecule. Here we demonstrate a method for massively parallel barcoding and phasing of single DNA molecules. First, a primer library with millions of uniquely barcoded beads is generated. When compartmentalized with single DNA molecules, the beads can be used to amplify and tag any target sequences of interest, enabling coupling of the biological information from multiple loci. We apply the assay to bacterial 16S sequencing and up to 94% of the hypothesized phasing events are shown to originate from single molecules. The method enables use of widely available short-read-sequencing platforms to study long single molecules within a complex sample, without losing phase information.

  • 12. Bovo, L.
    et al.
    Twengström, Mikael
    KTH, Skolan för teknikvetenskap (SCI), Fysik.
    Petrenko, O. A.
    Fennell, T.
    Gingras, M. J. P.
    Bramwell, S. T.
    Henelius, Patrik
    KTH, Skolan för teknikvetenskap (SCI), Fysik.
    Special temperatures in frustrated ferromagnets2018Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 9, nr 1, artikkel-id 1999Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The description and detection of unconventional magnetic states, such as spin liquids, is a recurring topic in condensed matter physics. While much of the efforts have traditionally been directed at geometrically frustrated antiferromagnets, recent studies reveal that systems featuring competing antiferromagnetic and ferromagnetic interactions are also promising candidate materials. We find that this competition leads to the notion of special temperatures, analogous to those of gases, at which the competing interactions balance, and the system is quasi-ideal. Although induced by weak perturbing interactions, these special temperatures are surprisingly high and constitute an accessible experimental diagnostic of eventual order or spin-liquid properties. The well characterised Hamiltonian and extended low-temperature susceptibility measurement of the canonical frustrated ferromagnet Dy2Ti2O7 enables us to formulate both a phenomenological and microscopic theory of special temperatures for magnets. Other members of this class of magnets include kapellasite Cu3Zn(OH)6Cl2 and the spinel GeCo2O4.

  • 13. Brasko, Csilla
    et al.
    Smith, Kevin
    KTH, Skolan för datavetenskap och kommunikation (CSC), Beräkningsvetenskap och beräkningsteknik (CST). KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Molnar, Csaba
    Farago, Nora
    Hegedus, Lili
    Balind, Arpad
    Balassa, Tamas
    Szkalisity, Abel
    Sukosd, Farkas
    Kocsis, Katalin
    Balint, Balazs
    Paavolainen, Lassi
    Enyedi, Marton Z.
    Nagy, Istvan
    Puskas, Laszlo G.
    Haracska, Lajos
    Tamas, Gabor
    Horvath, Peter
    Intelligent image-based in situ single-cell isolation2018Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 9, artikkel-id 226Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Quantifying heterogeneities within cell populations is important for many fields including cancer research and neurobiology; however, techniques to isolate individual cells are limited. Here, we describe a high-throughput, non-disruptive, and cost-effective isolation method that is capable of capturing individually targeted cells using widely available techniques. Using high-resolution microscopy, laser microcapture microscopy, image analysis, and machine learning, our technology enables scalable molecular genetic analysis of single cells, targetable by morphology or location within the sample.

  • 14.
    C. Couto, Rafael
    et al.
    KTH, Skolan för bioteknologi (BIO), Teoretisk kemi och biologi.
    Vaz da Cruz, Vinícius
    KTH, Skolan för bioteknologi (BIO), Teoretisk kemi och biologi.
    Ertan, Emelie
    Eckert, Sebastian
    Fondell, Mattis
    Dantz, Marcus
    Kennedy, Brian
    Schmitt, Thorsten
    Pietzsch, Annette
    F. Guimarães, Freddy
    Ågren, Hans
    KTH, Skolan för bioteknologi (BIO), Teoretisk kemi och biologi.
    Gel’mukhanov, Faris
    KTH, Skolan för bioteknologi (BIO), Teoretisk kemi och biologi.
    Odelius, Michael
    Kimberg, Victor
    KTH, Skolan för bioteknologi (BIO), Teoretisk kemi och biologi.
    Föhlisch, Alexander
    Selective gating to vibrational modes through resonant X-ray scattering2017Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 8, s. 14165-1-14165-7Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The dynamics of fragmentation and vibration of molecular systems with a large number of coupled degrees of freedom are key aspects for understanding chemical reactivity and properties. Here we present a resonant inelastic X-ray scattering (RIXS) study to show how it is possible to break down such a complex multidimensional problem into elementary components. Local multimode nuclear wave packets created by X-ray excitation to different core-excited potential energy surfaces (PESs) will act as spatial gates to selectively probe the particular ground-state vibrational modes and, hence, the PES along these modes. We demonstrate this principle by combining ultra-high resolution RIXS measurements for gas-phase water with state-of-the-art simulations.

  • 15. Carreras-Puigvert, J.
    et al.
    Zitnik, M.
    Jemth, A. -S
    Carter, M.
    Unterlass, J. E.
    Hallström, Björn M.
    KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Loseva, O.
    Karem, Z.
    Calderón-Montanõ, J. M.
    Lindskog, C.
    Edqvist, P. -H
    Matuszewski, D. J.
    Ait Blal, Hammou
    KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Berntsson, R. P. A.
    Häggblad, M.
    Martens, U.
    Studham, M.
    Lundgren, B.
    Wählby, C.
    Sonnhammer, E. L. L.
    Lundberg, Emma
    KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Stenmark, P.
    Zupan, B.
    Helleday, T.
    A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family2017Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 8, nr 1, artikkel-id 1541Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The NUDIX enzymes are involved in cellular metabolism and homeostasis, as well as mRNA processing. Although highly conserved throughout all organisms, their biological roles and biochemical redundancies remain largely unclear. To address this, we globally resolve their individual properties and inter-relationships. We purify 18 of the human NUDIX proteins and screen 52 substrates, providing a substrate redundancy map. Using crystal structures, we generate sequence alignment analyses revealing four major structural classes. To a certain extent, their substrate preference redundancies correlate with structural classes, thus linking structure and activity relationships. To elucidate interdependence among the NUDIX hydrolases, we pairwise deplete them generating an epistatic interaction map, evaluate cell cycle perturbations upon knockdown in normal and cancer cells, and analyse their protein and mRNA expression in normal and cancer tissues. Using a novel FUSION algorithm, we integrate all data creating a comprehensive NUDIX enzyme profile map, which will prove fundamental to understanding their biological functionality.

  • 16. Chang, J.
    et al.
    Månsson, Martin
    KTH, Skolan för informations- och kommunikationsteknik (ICT), Material- och nanofysik, Materialfysik, MF.
    Pailhes, S.
    Claesson, Thomas
    KTH, Skolan för informations- och kommunikationsteknik (ICT), Material- och nanofysik, Materialfysik, MF.
    Lipscombe, O. J.
    Hayden, S. M.
    Patthey, L.
    Tjernberg, Oscar
    KTH, Skolan för informations- och kommunikationsteknik (ICT), Material- och nanofysik, Materialfysik, MF.
    Mesot, J.
    Anisotropic breakdown of Fermi liquid quasiparticle excitations in overdoped La2-xSrxCuO42013Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 4, s. 2559-Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    High-temperature superconductivity emerges from an un-conventional metallic state. This has stimulated strong efforts to understand exactly how Fermi liquids breakdown and evolve into an un-conventional metal. A fundamental question is how Fermi liquid quasiparticle excitations break down in momentum space. Here we show, using angle-resolved photoemission spectroscopy, that the Fermi liquid quasiparticle excitations of the overdoped superconducting cuprate La1.77Sr0.23CuO4 is highly anisotropic in momentum space. The quasiparticle scattering and residue behave differently along the Fermi surface and hence the Kadowaki-Wood's relation is not obeyed. This kind of Fermi liquid breakdown may apply to a wide range of strongly correlated metal systems where spin fluctuations are present.

  • 17. Chen, Gefei
    et al.
    Abelein, Axel
    Nilsson, Harriet E.
    KTH, Skolan för teknik och hälsa (STH), Medicinsk teknik, Strukturell bioteknik.
    Leppert, Axel
    Andrade-Talavera, Yuniesky
    Tambaro, Simone
    Hemmingsson, Lovisa
    Roshan, Firoz
    Landreh, Michael
    Biverstal, Henrik
    Koeck, Philip J. B.
    KTH, Skolan för teknik och hälsa (STH), Medicinsk teknik, Strukturell bioteknik.
    Presto, Jenny
    Hebert, Hans
    Fisahn, Andre
    Johansson, Jan
    Bri2 BRICHOS client specificity and chaperone activity are governed by assembly state2017Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 8, artikkel-id 2081Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    . Protein misfolding and aggregation is increasingly being recognized as a cause of disease. In Alzheimer's disease the amyloid-beta peptide (A beta) misfolds into neurotoxic oligomers and assembles into amyloid fibrils. The Bri2 protein associated with Familial British and Danish dementias contains a BRICHOS domain, which reduces A beta fibrillization as well as neurotoxicity in vitro and in a Drosophila model, but also rescues proteins from irreversible nonfibrillar aggregation. How these different activities are mediated is not known. Here we show that Bri2 BRICHOS monomers potently prevent neuronal network toxicity of A beta, while dimers strongly suppress A beta fibril formation. The dimers assemble into high-molecular-weight oligomers with an apparent two-fold symmetry, which are efficient inhibitors of non-fibrillar protein aggregation. These results indicate that Bri2 BRICHOS affects qualitatively different aspects of protein misfolding and toxicity via different quaternary structures, suggesting a means to generate molecular chaperone diversity.

  • 18.
    Chen, Shula
    et al.
    Linkoping Univ, Dept Phys Chem & Biol, SE-58183 Linkoping, Sweden..
    Huang, Yuqing
    Linkoping Univ, Dept Phys Chem & Biol, SE-58183 Linkoping, Sweden..
    Visser, Dennis
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik.
    Anand, Srinivasan
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik.
    Buyanova, Irina A.
    Linkoping Univ, Dept Phys Chem & Biol, SE-58183 Linkoping, Sweden..
    Chen, Weimin M.
    Linkoping Univ, Dept Phys Chem & Biol, SE-58183 Linkoping, Sweden..
    Room-temperature polarized spin-photon interface based on a semiconductor nanodisk-in-nanopillar structure driven by few defects2018Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 9, artikkel-id 3575Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Owing to their superior optical properties, semiconductor nanopillars/nanowires in one-dimensional (1D) geometry are building blocks for nano-photonics. They also hold potential for efficient polarized spin-light conversion in future spin nano-photonics. Unfortunately, spin generation in 1D systems so far remains inefficient at room temperature. Here we propose an approach that can significantly enhance the radiative efficiency of the electrons with the desired spin while suppressing that with the unwanted spin, which simultaneously ensures strong spin and light polarization. We demonstrate high optical polarization of 20%, inferring high electron spin polarization up to 60% at room temperature in a 1D system based on a GaNAs nanodisk-in-GaAs nanopillar structure, facilitated by spin-dependent recombination via merely 2-3 defects in each nanodisk. Our approach points to a promising direction for realization of an interface for efficient spin-photon quantum information transfer at room temperature-a key element for future spin-photonic applications.

  • 19. Cherifi-Hertel, S.
    et al.
    Bulou, H.
    Hertel, R.
    Taupier, G.
    Dorkenoo, K. D. H.
    Andreas, C.
    Guyonnet, J.
    Gaponenko, I.
    Gallo, Katia
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik, Kvantelektronik och -optik, QEO.
    Paruch, P.
    Non-Ising and chiral ferroelectric domain walls revealed by nonlinear optical microscopy2017Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 8, artikkel-id 15768Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The properties of ferroelectric domain walls can significantly differ from those of their parent material. Elucidating their internal structure is essential for the design of advanced devices exploiting nanoscale ferroicity and such localized functional properties. Here, we probe the internal structure of 180° ferroelectric domain walls in lead zirconate titanate (PZT) thin films and lithium tantalate bulk crystals by means of second-harmonic generation microscopy. In both systems, we detect a pronounced second-harmonic signal at the walls. Local polarimetry analysis of this signal combined with numerical modelling reveals the existence of a planar polarization within the walls, with Néel and Bloch-like configurations in PZT and lithium tantalate, respectively. Moreover, we find domain wall chirality reversal at line defects crossing lithium tantalate crystals. Our results demonstrate a clear deviation from the ideal Ising configuration that is traditionally expected in uniaxial ferroelectrics, corroborating recent theoretical predictions of a more complex, often chiral structure.

  • 20.
    Chung, Sunjae
    et al.
    KTH, Skolan för informations- och kommunikationsteknik (ICT), Material- och nanofysik, Materialfysik, MF. Univ Gothenburg, Sweden.
    Eklund, Anders
    KTH, Skolan för informations- och kommunikationsteknik (ICT), Integrerade komponenter och kretsar.
    Iacocca, Ezio
    Mohseni, Seyed Majid
    Sani, Sohrab R.
    KTH, Skolan för informations- och kommunikationsteknik (ICT), Material- och nanofysik.
    Bookman, Lake
    Hoefer, Mark A.
    Dumas, Randy K.
    Åkerman, Johan
    KTH, Skolan för informations- och kommunikationsteknik (ICT), Material- och nanofysik. Univ Gothenburg, Sweden.
    Magnetic droplet nucleation boundary in orthogonal spin-torque nano-oscillators2016Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 7, artikkel-id 11209Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Static and dynamic magnetic solitons play a critical role in applied nanomagnetism. Magnetic droplets, a type of non-topological dissipative soliton, can be nucleated and sustained in nanocontact spin-torque oscillators with perpendicular magnetic anisotropy free layers. Here, we perform a detailed experimental determination of the full droplet nucleation boundary in the current-field plane for a wide range of nanocontact sizes and demonstrate its excellent agreement with an analytical expression originating from a stability analysis. Our results reconcile recent contradicting reports of the field dependence of the droplet nucleation. Furthermore, our analytical model both highlights the relation between the fixed layer material and the droplet nucleation current magnitude, and provides an accurate method to experimentally determine the spin transfer torque asymmetry of each device.

  • 21. Coucheron, David A.
    et al.
    Fokine, Michael
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik.
    Patil, Nilesh
    Breiby, Dag Werner
    Buset, Ole Tore
    Healy, Noel
    Peacock, Anna C.
    Hawkins, Thomas
    Jones, Max
    Ballato, John
    Gibson, Ursula J.
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik.
    Laser recrystallization and inscription of compositional microstructures in crystalline SiGe-core fibres2016Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 7, artikkel-id 13265Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Glass fibres with silicon cores have emerged as a versatile platform for all-optical processing, sensing and microscale optoelectronic devices. Using SiGe in the core extends the accessible wavelength range and potential optical functionality because the bandgap and optical properties can be tuned by changing the composition. However, silicon and germanium segregate unevenly during non-equilibrium solidification, presenting new fabrication challenges, and requiring detailed studies of the alloy crystallization dynamics in the fibre geometry. We report the fabrication of SiGe-core optical fibres, and the use of CO2 laser irradiation to heat the glass cladding and recrystallize the core, improving optical transmission. We observe the ramifications of the classic models of solidification at the microscale, and demonstrate suppression of constitutional undercooling at high solidification velocities. Tailoring the recrystallization conditions allows formation of long single crystals with uniform composition, as well as fabrication of compositional microstructures, such as gratings, within the fibre core.

  • 22.
    da Cruz, Vinicius Vaz
    et al.
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Teoretisk kemi och biologi.
    Gel'mukhanov, Faris
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Teoretisk kemi och biologi. Siberian Fed Univ, Lab Nonlinear Opt & Spect, Krasnoyarsk 660041, Russia.
    Eckert, Sebastian
    Univ Potsdam, Inst Phys & Astron, Karl Liebknecht Str 24-25, D-14476 Potsdam, Germany..
    Iannuzzi, Marcella
    Univ Zurich, Phys Chem Inst, CH-8057 Zurich, Switzerland..
    Ertan, Emelie
    Stockholm Univ, Dept Phys, AlbaNova Univ Ctr, S-10691 Stockholm, Sweden..
    Pietzsch, Annette
    Helmholtz Zentrum Berlin Mat & Energie, Inst Methods & Instrumentat Synchrotron Radiat Re, Albert Einstein Str 15, D-12489 Berlin, Germany..
    Couto, Rafael C.
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Teoretisk kemi och biologi.
    Niskanen, Johannes
    Helmholtz Zentrum Berlin Mat & Energie, Inst Methods & Instrumentat Synchrotron Radiat Re, Albert Einstein Str 15, D-12489 Berlin, Germany.;Univ Turku, Dept Phys & Astron, FI-20014 Turunyliopisto, Finland..
    Fondell, Mattis
    Helmholtz Zentrum Berlin Mat & Energie, Inst Methods & Instrumentat Synchrotron Radiat Re, Albert Einstein Str 15, D-12489 Berlin, Germany..
    Dantz, Marcus
    Paul Scherrer Inst, Photon Sci Div, CH-5232 Villigen, Switzerland..
    Schmitt, Thorsten
    Paul Scherrer Inst, Photon Sci Div, CH-5232 Villigen, Switzerland..
    Lu, Xingye
    Paul Scherrer Inst, Photon Sci Div, CH-5232 Villigen, Switzerland..
    McNally, Daniel
    Paul Scherrer Inst, Photon Sci Div, CH-5232 Villigen, Switzerland..
    Jay, Raphael M.
    Univ Potsdam, Inst Phys & Astron, Karl Liebknecht Str 24-25, D-14476 Potsdam, Germany..
    Kimberg, Victor
    Foehlisch, Alexander
    Univ Potsdam, Inst Phys & Astron, Karl Liebknecht Str 24-25, D-14476 Potsdam, Germany.;Helmholtz Zentrum Berlin Mat & Energie, Inst Methods & Instrumentat Synchrotron Radiat Re, Albert Einstein Str 15, D-12489 Berlin, Germany..
    Odelius, Michael
    Stockholm Univ, Dept Phys, AlbaNova Univ Ctr, S-10691 Stockholm, Sweden..
    Probing hydrogen bond strength in liquid water by resonant inelastic X-ray scattering2019Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 10, artikkel-id 1013Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Local probes of the electronic ground state are essential for understanding hydrogen bonding in aqueous environments. When tuned to the dissociative core-excited state at the O1s pre-edge of water, resonant inelastic X-ray scattering back to the electronic ground state exhibits a long vibrational progression due to ultrafast nuclear dynamics. We show how the coherent evolution of the OH bonds around the core-excited oxygen provides access to high vibrational levels in liquid water. The OH bonds stretch into the long-range part of the potential energy curve, which makes the X-ray probe more sensitive than infra-red spectroscopy to the local environment. We exploit this property to effectively probe hydrogen bond strength via the distribution of intramolecular OH potentials derived from measurements. In contrast, the dynamical splitting in the spectral feature of the lowest valence-excited state arises from the short-range part of the OH potential curve and is rather insensitive to hydrogen bonding.

  • 23. Das, Tanmoy
    et al.
    Balatsky, Alexander V.
    KTH, Centra, Nordic Institute for Theoretical Physics NORDITA.
    Engineering three-dimensional topological insulators in Rashba-type spin-orbit coupled heterostructures2013Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 4, s. 1972-Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Topological insulators represent a new class of quantum phase defined by invariant symmetries and spin-orbit coupling that guarantees metallic Dirac excitations at its surface. The discoveries of these states have sparked the hope of realizing non-trivial excitations and novel effects such as a magnetoelectric effect and topological Majorana excitations. Here we develop a theoretical formalism to show that a three-dimensional topological insulator can be designed artificially via stacking bilayers of two-dimensional Fermi gases with opposite Rashba-type spin-orbit coupling on adjacent layers, and with interlayer quantum tunneling. We demonstrate that in the stack of bilayers grown along a (001)-direction, a non-trivial topological phase transition occurs above a critical number of Rashba bilayers. In the topological phase, we find the formation of a single spin-polarized Dirac cone at the G-point. This approach offers an accessible way to design artificial topological insulators in a set up that takes full advantage of the atomic layer deposition approach. This design principle is tunable and also allows us to bypass limitations imposed by bulk crystal geometry.

  • 24.
    Dellantonio, Luca
    et al.
    Univ Copenhagen, Niels Bohr Inst, Blegdamsvej 17, DK-2100 Copenhagen O, Denmark.;Univ Copenhagen, Niels Bohr Inst, Ctr Hybrid Quantum Networks Hy Q, Blegdamsvej 17, DK-2100 Copenhagen O, Denmark..
    Kyriienko, Oleksandr
    KTH, Centra, Nordic Institute for Theoretical Physics NORDITA. Univ Copenhagen, Niels Bohr Inst, Blegdamsvej 17, DK-2100 Copenhagen O, Denmark..
    Marquardt, Florian
    Univ Erlangen Nurnberg, Inst Theoret Phys, Staudstr 7, D-91058 Erlangen, Germany.;Max Planck Inst Sci Light, Gunther Scharowsky Str 1, D-91058 Erlangen, Germany..
    Sorensen, Anders S.
    Univ Copenhagen, Niels Bohr Inst, Blegdamsvej 17, DK-2100 Copenhagen O, Denmark.;Univ Copenhagen, Niels Bohr Inst, Ctr Hybrid Quantum Networks Hy Q, Blegdamsvej 17, DK-2100 Copenhagen O, Denmark..
    Quantum nondemolition measurement of mechanical motion quanta2018Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 9, artikkel-id 3621Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The fields of optomechanics and electromechanics have facilitated numerous advances in the areas of precision measurement and sensing, ultimately driving the studies of mechanical systems into the quantum regime. To date, however, the quantization of the mechanical motion and the associated quantum jumps between phonon states remains elusive. For optomechanical systems, the coupling to the environment was shown to make the detection of the mechanical mode occupation difficult, typically requiring the single-photon strong coupling regime. Here, we propose and analyse an electromechanical setup, which allows us to overcome this limitation and resolve the energy levels of a mechanical oscillator. We found that the heating of the membrane, caused by the interaction with the environment and unwanted couplings, can be suppressed for carefully designed electromechanical systems. The results suggest that phonon number measurement is within reach for modern electromechanical setups.

  • 25.
    Dreier, Jes
    et al.
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Castello, Marco
    Ist Italiano Tecnol, Mol Microscopy & Spect, Via Morego 30, I-16136 Genoa, Italy..
    Coceano, Giovanna
    KTH, Centra, Science for Life Laboratory, SciLifeLab. KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik.
    Caceres, Rodrigo
    PSL Res Univ, CNRS, Inst Curie, Lab Phys Chim Curie, F-75005 Paris, France.;Sorbonne Univ, F-75005 Paris, France.;Univ Paris 05, F-75005 Paris, France..
    Plastino, Julie
    PSL Res Univ, CNRS, Inst Curie, Lab Phys Chim Curie, F-75005 Paris, France.;Sorbonne Univ, F-75005 Paris, France..
    Vicidomini, Giuseppe
    Ist Italiano Tecnol, Mol Microscopy & Spect, Via Morego 30, I-16136 Genoa, Italy..
    Testa, Ilaria
    KTH, Centra, Science for Life Laboratory, SciLifeLab. KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik.
    Smart scanning for low-illumination and fast RESOLFT nanoscopy in vivo2019Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 10, artikkel-id 556Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    RESOLFT fluorescence nanoscopy can nowadays image details far beyond the diffraction limit. However, signal to noise ratio (SNR) and temporal resolution are still a concern, especially deep inside living cells and organisms. In this work, we developed a non-deterministic scanning approach based on a real-time feedback system which speeds up the acquisition up to 6-fold and decreases the light dose by 70-90% for in vivo imaging. Also, we extended the information content of the images by acquiring the complete temporal evolution of the fluorescence generated by reversible switchable fluorescent proteins. This generates a series of images with different spatial resolution and SNR, from conventional to RESOLFT images, which combined through a multi-image deconvolution algorithm further enhances the effective resolution. We reported nanoscale imaging of organelles up to 35 Hz and actin dynamics during an invasion process at a depth of 20-30 mu m inside a living Caenorhabditis elegans worm.

  • 26.
    Dubois, Valentin J.
    et al.
    KTH, Skolan för elektroteknik och datavetenskap (EECS), Mikro- och nanosystemteknik.
    Raja, Shyamprasad Natarajan
    KTH, Skolan för elektroteknik och datavetenskap (EECS), Mikro- och nanosystemteknik.
    Gehring, Pascal
    Delft Univ Technol, Kavli Inst Nanosci, Lorentzweg 1, NL-2628 CJ Delft, Netherlands..
    Caneva, Sabina
    Delft Univ Technol, Kavli Inst Nanosci, Lorentzweg 1, NL-2628 CJ Delft, Netherlands..
    van der Zant, Herre S. J.
    Delft Univ Technol, Kavli Inst Nanosci, Lorentzweg 1, NL-2628 CJ Delft, Netherlands..
    Niklaus, Frank
    KTH, Skolan för elektroteknik och datavetenskap (EECS), Mikro- och nanosystemteknik.
    Stemme, Göran
    KTH, Skolan för elektroteknik och datavetenskap (EECS), Mikro- och nanosystemteknik.
    Massively parallel fabrication of crack-defined gold break junctions featuring sub-3 nm gaps for molecular devices2018Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 9, artikkel-id 3433Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Break junctions provide tip-shaped contact electrodes that are fundamental components of nano and molecular electronics. However, the fabrication of break junctions remains notoriously time-consuming and difficult to parallelize. Here we demonstrate true parallel fabrication of gold break junctions featuring sub-3 nm gaps on the wafer-scale, by relying on a novel self-breaking mechanism based on controlled crack formation in notched bridge structures. We achieve fabrication densities as high as 7 million junctions per cm(2), with fabrication yields of around 7% for obtaining crack-defined break junctions with sub-3 nm gaps of fixed gap width that exhibit electron tunneling. We also form molecular junctions using dithiol-terminated oligo(phenylene ethynylene) (OPE3) to demonstrate the feasibility of our approach for electrical probing of molecules down to liquid helium temperatures. Our technology opens a whole new range of experimental opportunities for nano and molecular electronics applications, by enabling very large-scale fabrication of solid-state break junctions.

  • 27.
    Edfors, Fredrik
    et al.
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Hober, Andreas
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Linderbäck, Klas
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Maddalo, Gianluca
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Azimi, Alireza
    Karolinska Inst, Karolinska Univ Hosp, Dept Oncol Pathol, SE-17177 Stockholm, Sweden..
    Sivertsson, Åsa
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Tegel, Hanna
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Hober, Sophia
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Al-Khalili Szigyarto, Cristina
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Fagerberg, Linn
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    von Feilitzen, Kalle
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Oksvold, Per
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Lindskog, Cecilia
    Uppsala Univ, Dept Immunol Genet & Pathol, SE-75185 Uppsala, Sweden..
    Forsström, Björn
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Uhlén, Mathias
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap. KTH, Centra, Science for Life Laboratory, SciLifeLab. Biosustainabil, DK-2970 Horsholm, Denmark..
    Enhanced validation of antibodies for research applications2018Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 9, artikkel-id 4130Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    There is a need for standardized validation methods for antibody specificity and selectivity. Recently, five alternative validation pillars were proposed to explore the specificity of research antibodies using methods with no need for prior knowledge about the protein target. Here, we show that these principles can be used in a streamlined manner for enhanced validation of research antibodies in Western blot applications. More than 6,000 antibodies were validated with at least one of these strategies involving orthogonal methods, genetic knockdown, recombinant expression, independent antibodies, and capture mass spectrometry analysis. The results show a path forward for efforts to validate antibodies in an application-specific manner suitable for both providers and users.

  • 28.
    Elshaari, Ali W.
    et al.
    KTH, Skolan för elektro- och systemteknik (EES).
    Zadeh, Iman Esmaeil
    Fognini, Andreas
    Reimer, Michael E.
    Dalacu, Dan
    Poole, Philip J.
    Zwiller, Val
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik. KTH, Skolan för elektro- och systemteknik (EES).
    Jöns, Klaus D.
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik, Kvantnanofotonik.
    On-chip single photon filtering and multiplexing in hybrid quantum photonic circuits2017Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 8, artikkel-id 379Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Quantum light plays a pivotal role in modern science and future photonic applications. Since the advent of integrated quantum nanophotonics different material platforms based on III-V nanostructures-, colour centers-, and nonlinear waveguides as on-chip light sources have been investigated. Each platform has unique advantages and limitations; however, all implementations face major challenges with filtering of individual quantum states, scalable integration, deterministic multiplexing of selected quantum emitters, and on-chip excitation suppression. Here we overcome all of these challenges with a hybrid and scalable approach, where single III-V quantum emitters are positioned and deterministically integrated in a complementary metal-oxide-semiconductor-compatible photonic circuit. We demonstrate reconfigurable on-chip single-photon filtering and wavelength division multiplexing with a foot print one million times smaller than similar table-top approaches, while offering excitation suppression of more than 95 dB and efficient routing of single photons over a bandwidth of 40 nm. Our work marks an important step to harvest quantum optical technologies' full potential.

  • 29.
    Etcheverry, Sebastian
    et al.
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik.
    Faridi, Muhammad Asim
    KTH. mafaridi@kth.se.
    Ramachandraiah, Harisha
    KTH, Skolan för bioteknologi (BIO), Proteomik och nanobioteknologi.
    Margulis, Walter
    Laurell, Fredrik
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik.
    Russom, Aman
    KTH, Skolan för bioteknologi (BIO), Proteomik och nanobioteknologi.
    Optical Fiber inertial focusing based micro FlowcytometerInngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Flow cytometry is a powerful method for analysis of cells and particles. Fueled by the need for point of care diagnostic applications, a significant effort has been made to miniaturize flow cytometry. However, despite recent advances, current microflow cytometers remain less versatile and much slower than their large-scale counterparts. Here, we present a portable all-silica optofluidic device that integrates particle focusing in flow through cylindrical silica capillaries and light delivery in optical fibers to simultaneously measure fluorescence and scattering from cells and particles at a rate of 2500 particles/s – a throughput comparable to conventional cytometers. Precise 3D cell focusing and ordering is accomplished using extended elasto-inertial focusing (EEF), a key enabler for eliminating the sheath fluid commonly employed in flow cytometry with maintained high throughput. We demonstrate simultaneously two-color fluorescence and scattering measurement of different sized particles and cells. This robust and low-cost optofluidic device, assembled without the need of clean-room facilities, is ideal suited for point of care applications.

  • 30.
    Fan, Ke
    et al.
    KTH, Skolan för kemivetenskap (CHE), Kemi, Organisk kemi.
    Chen, Hong
    KTH, Skolan för kemivetenskap (CHE), Kemi, Organisk kemi.
    Ji, Yongfei
    Huang, Hui
    Claesson, Per Martin
    Daniel, Quentin
    KTH, Skolan för kemivetenskap (CHE), Kemi, Organisk kemi.
    Philippe, Bertrand
    Rensmo, Hakan
    Li, Fusheng
    Luo, Yi
    Sun, Licheng
    KTH, Skolan för kemivetenskap (CHE), Kemi, Organisk kemi.
    Nickel-vanadium monolayer double hydroxide for efficient electrochemical water oxidation2016Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 7, artikkel-id 11981Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Highly active and low-cost electrocatalysts for water oxidation are required due to the demands on sustainable solar fuels; however, developing highly efficient catalysts to meet industrial requirements remains a challenge. Herein, we report a monolayer of nickel-vanadium-layered double hydroxide that shows a current density of 27 mA cm(-2) (57 mA cm(-2) after ohmic-drop correction) at an overpotential of 350 mV for water oxidation. Such performance is comparable to those of the best-performing nickel-iron-layered double hydroxides for water oxidation in alkaline media. Mechanistic studies indicate that the nickel-vanadium-layered double hydroxides can provide high intrinsic catalytic activity, mainly due to enhanced conductivity, facile electron transfer and abundant active sites. This work may expand the scope of cost-effective electrocatalysts for water splitting.

  • 31.
    Forchheimer, Daniel
    et al.
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik, Nanostrukturfysik.
    Forchheimer, Robert
    Linköping University.
    Haviland, David B.
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik, Nanostrukturfysik.
    Improving image contrast and material discrimination with nonlinear response in bimodal atomic force microscopy2015Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 6, artikkel-id 6270Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Atomic force microscopy has recently been extented to bimodal operation, where increased image contrast is achieved through excitation and measurement of two cantilever eigenmodes. This enhanced material contrast is advantageous in analysis of complex heterogeneous materials with phase separation on the micro or nanometre scale. Here we show that much greater image contrast results from analysis of nonlinear response to the bimodal drive, at harmonics and mixing frequencies. The amplitude and phase of up to 17 frequencies are simultaneously measured in a single scan. Using a machine-learning algorithm we demonstrate almost threefold improvement in the ability to separate material components of a polymer blend when including this nonlinear response. Beyond the statistical analysis performed here, analysis of nonlinear response could be used to obtain quantitative material properties at high speeds and with enhanced resolution.

  • 32. Frye, M.
    et al.
    Taddei, A.
    Dierkes, C.
    Martinez-Corral, I.
    Fielden, Matthew
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik.
    Ortsäter, H.
    Kazenwadel, J.
    Calado, D. P.
    Ostergaard, P.
    Salminen, M.
    He, L.
    Harvey, N. L.
    Kiefer, F.
    Mäkinen, T.
    Matrix stiffness controls lymphatic vessel formation through regulation of a GATA2-dependent transcriptional program2018Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 9, nr 1, artikkel-id 1511Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Tissue and vessel wall stiffening alters endothelial cell properties and contributes to vascular dysfunction. However, whether extracellular matrix (ECM) stiffness impacts vascular development is not known. Here we show that matrix stiffness controls lymphatic vascular morphogenesis. Atomic force microscopy measurements in mouse embryos reveal that venous lymphatic endothelial cell (LEC) progenitors experience a decrease in substrate stiffness upon migration out of the cardinal vein, which induces a GATA2-dependent transcriptional program required to form the first lymphatic vessels. Transcriptome analysis shows that LECs grown on a soft matrix exhibit increased GATA2 expression and a GATA2-dependent upregulation of genes involved in cell migration and lymphangiogenesis, including VEGFR3. Analyses of mouse models demonstrate a cell-autonomous function of GATA2 in regulating LEC responsiveness to VEGF-C and in controlling LEC migration and sprouting in vivo. Our study thus uncovers a mechanism by which ECM stiffness dictates the migratory behavior of LECs during early lymphatic development.

  • 33.
    Gandini, Rosaria
    et al.
    KTH, Skolan för bioteknologi (BIO), Industriell bioteknologi.
    Reichenbach, Tom
    KTH, Skolan för bioteknologi (BIO), Industriell bioteknologi.
    Tan, Tien-Chye
    KTH, Skolan för bioteknologi (BIO), Industriell bioteknologi.
    Divne, Christina
    KTH, Skolan för bioteknologi (BIO), Industriell bioteknologi.
    Structural basis for dolichylphosphate mannose biosynthesis2017Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 8, nr 1, artikkel-id 120Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Protein glycosylation is a critical protein modification. In biogenic membranes of eukaryotes and archaea, these reactions require activated mannose in the form of the lipid conjugate dolichylphosphate mannose (Dol-P-Man). The membrane protein dolichylphosphate mannose synthase (DPMS) catalyzes the reaction whereby mannose is transferred from GDP-mannose to the dolichol carrier Dol-P, to yield Dol-P-Man. Failure to produce or utilize Dol-P-Man compromises organism viability, and in humans, several mutations in the human dpm1 gene lead to congenital disorders of glycosylation (CDG). Here, we report three high-resolution crystal structures of archaeal DPMS from Pyrococcus furiosus, in complex with nucleotide, donor, and glycolipid product. The structures offer snapshots along the catalytic cycle, and reveal how lipid binding couples to movements of interface helices, metal binding, and acceptor loop dynamics to control critical events leading to Dol-P-Man synthesis. The structures also rationalize the loss of dolichylphosphate mannose synthase function in dpm1-associated CDG.The generation of glycolipid dolichylphosphate mannose (Dol-P-Man) is a critical step for protein glycosylation and GPI anchor synthesis. Here the authors report the structure of dolichylphosphate mannose synthase in complex with bound nucleotide and donor to provide insight into the mechanism of Dol-P-Man synthesis.

  • 34. Haidar, Mohammad
    et al.
    Awad, Ahmad A.
    Dvornik, Mykola
    Khymyn, Roman
    Houshang, Afshin
    Åkerman, Johan
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik, Material- och nanofysik.
    A single layer spin-orbit torque nano-oscillator2019Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 10, artikkel-id 2362Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Spin torque and spin Hall effect nano-oscillators generate high intensity spin wave auto-oscillations on the nanoscale enabling novel microwave applications in spintronics, magnonics, and neuromorphic computing. For their operation, these devices require externally generated spin currents either from an additional ferromagnetic layer or a material with a high spin Hall angle. Here we demonstrate highly coherent field and current tunable microwave signals from nano-constrictions in single 15-20 nm thick permalloy layers with oxide interfaces. Using a combination of spin torque ferromagnetic resonance measurements, scanning micro-Brillouin light scattering microscopy, and micromagnetic simulations, we identify the auto-oscillations as emanating from a localized edge mode of the nano-constriction driven by spin-orbit torques. Our results pave the way for greatly simplified designs of auto-oscillating nano-magnetic systems only requiring single ferromagnetic layers with oxide interfaces.

  • 35.
    Horio, M.
    et al.
    Univ Zurich, Phys Inst, Winterthurerstr 190, CH-8057 Zurich, Switzerland..
    Matt, C. E.
    Univ Zurich, Phys Inst, Winterthurerstr 190, CH-8057 Zurich, Switzerland.;Paul Scherrer Inst, Swiss Light Source, CH-5232 Villigen, Switzerland.;Harvard Univ, Dept Phys, Cambridge, MA 02138 USA..
    Kramer, K.
    Univ Zurich, Phys Inst, Winterthurerstr 190, CH-8057 Zurich, Switzerland..
    Sutter, D.
    Univ Zurich, Phys Inst, Winterthurerstr 190, CH-8057 Zurich, Switzerland..
    Cook, A. M.
    Univ Zurich, Phys Inst, Winterthurerstr 190, CH-8057 Zurich, Switzerland..
    Sassa, Y.
    Uppsala Univ, Dept Phys & Astron, SE-75121 Uppsala, Sweden..
    Hauser, K.
    Univ Zurich, Phys Inst, Winterthurerstr 190, CH-8057 Zurich, Switzerland..
    Månsson, Martin
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik.
    Plumb, N. C.
    Paul Scherrer Inst, Swiss Light Source, CH-5232 Villigen, Switzerland..
    Shi, M.
    Paul Scherrer Inst, Swiss Light Source, CH-5232 Villigen, Switzerland..
    Lipscombe, O. J.
    Univ Bristol, HH Wills Phys Lab, Bristol BS8 1TL, Avon, England..
    Hayden, S. M.
    Univ Bristol, HH Wills Phys Lab, Bristol BS8 1TL, Avon, England..
    Neupert, T.
    Univ Zurich, Phys Inst, Winterthurerstr 190, CH-8057 Zurich, Switzerland..
    Chang, J.
    Univ Zurich, Phys Inst, Winterthurerstr 190, CH-8057 Zurich, Switzerland..
    Two-dimensional type-II Dirac fermions in layered oxides2018Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 9, artikkel-id 3252Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Relativistic massless Dirac fermions can be probed with high-energy physics experiments, but appear also as low-energy quasi-particle excitations in electronic band structures. In condensed matter systems, their massless nature can be protected by crystal symmetries. Classification of such symmetry-protected relativistic band degeneracies has been fruitful, although many of the predicted quasi-particles still await their experimental discovery. Here we reveal, using angle-resolved photoemission spectroscopy, the existence of two-dimensional type-II Dirac fermions in the high-temperature superconductor La1.77Sr0.23CuO4. The Dirac point, constituting the crossing of d(x2-y2) and d(z2) bands, is found approximately one electronvolt below the Fermi level (E-F) and is protected by mirror symmetry. If spin-orbit coupling is considered, the Dirac point degeneracy is lifted and the bands acquire a topologically non-trivial character. In certain nickelate systems, band structure calculations suggest that the same type-II Dirac fermions can be realised near EF.

  • 36.
    Houshangh, A.
    et al.
    Univ Gothenburg, Phys Dept, S-41296 Gothenburg, Sweden.;NanOsc AB, S-16440 Kista, Sweden..
    Khymyn, R.
    Univ Gothenburg, Phys Dept, S-41296 Gothenburg, Sweden..
    Fulara, H.
    Univ Gothenburg, Phys Dept, S-41296 Gothenburg, Sweden..
    Gangwar, A.
    Univ Gothenburg, Phys Dept, S-41296 Gothenburg, Sweden..
    Haidar, M.
    Univ Gothenburg, Phys Dept, S-41296 Gothenburg, Sweden..
    Etesami, S. R.
    Univ Gothenburg, Phys Dept, S-41296 Gothenburg, Sweden..
    Ferreira, R.
    Int Iberian Nanotechnol Lab, P-4715330 Braga, Portugal..
    Freitas, P. P.
    Int Iberian Nanotechnol Lab, P-4715330 Braga, Portugal..
    Dvornik, M.
    Univ Gothenburg, Phys Dept, S-41296 Gothenburg, Sweden..
    Dumas, R. K.
    Univ Gothenburg, Phys Dept, S-41296 Gothenburg, Sweden..
    Åkerman, Johan
    KTH, Skolan för industriell teknik och management (ITM), Materialvetenskap, Teknisk materialfysik. Univ Gothenburg, Phys Dept, S-41296 Gothenburg, Sweden.;NanOsc AB, S-16440 Kista, Sweden..
    Spin transfer torque driven higher-order propagating spin waves in nano-contact magnetic tunnel junctions2018Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 9, artikkel-id 4374Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Short wavelength exchange-dominated propagating spin waves will enable magnonic devices to operate at higher frequencies and higher data transmission rates. While giant magnetoresistance (GMR)-based magnetic nanocontacts are efficient injectors of propagating spin waves, the generated wavelengths are 2.6 times the nano-contact diameter, and the electrical signal strength remains too weak for applications. Here we demonstrate nano-contact-based spin wave generation in magnetic tunnel junctions and observe large-frequency steps consistent with the hitherto ignored possibility of second-and third-order propagating spin waves with wavelengths of 120 and 74 nm, i.e., much smaller than the 150-nm nanocontact. Mutual synchronization is also observed on all three propagating modes. These higher-order propagating spin waves will enable magnonic devices to operate at much higher frequencies and greatly increase their transmission rates and spin wave propagating lengths, both proportional to the much higher group velocity.

  • 37. Huang, M.
    et al.
    Bao, J.
    Hallström, Björn M.
    KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Petranovic, D.
    Nielsen, Jens
    KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Efficient protein production by yeast requires global tuning of metabolism2017Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 8, nr 1, artikkel-id 1131Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The biotech industry relies on cell factories for production of pharmaceutical proteins, of which several are among the top-selling medicines. There is, therefore, considerable interest in improving the efficiency of protein production by cell factories. Protein secretion involves numerous intracellular processes with many underlying mechanisms still remaining unclear. Here, we use RNA-seq to study the genome-wide transcriptional response to protein secretion in mutant yeast strains. We find that many cellular processes have to be attuned to support efficient protein secretion. In particular, altered energy metabolism resulting in reduced respiration and increased fermentation, as well as balancing of amino-acid biosynthesis and reduced thiamine biosynthesis seem to be particularly important. We confirm our findings by inverse engineering and physiological characterization and show that by tuning metabolism cells are able to efficiently secrete recombinant proteins. Our findings provide increased understanding of which cellular regulations and pathways are associated with efficient protein secretion.

  • 38.
    Huang, Shuo
    et al.
    KTH, Skolan för industriell teknik och management (ITM), Materialvetenskap, Tillämpad materialfysik.
    Huang, He
    KTH, Skolan för industriell teknik och management (ITM), Materialvetenskap, Tillämpad materialfysik. Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang, 621900, PR China.
    Li, Wei
    Department of Physics and Astronomy, Division of Materials Theory, Uppsala University, SE-75120, Uppsala, Sweden.
    Kim, Dongyoo
    KTH, Skolan för industriell teknik och management (ITM), Materialvetenskap, Tillämpad materialfysik. Department of Physics, Pukyung National University, Busan, 608-737, Republic of Korea.
    Lu, Song
    KTH, Skolan för industriell teknik och management (ITM), Materialvetenskap, Tillämpad materialfysik.
    Li, Xiaoqing
    KTH, Skolan för industriell teknik och management (ITM), Materialvetenskap, Tillämpad materialfysik.
    Holmström, E.
    Kwon, S. K.
    Vitos, Levente
    KTH, Skolan för industriell teknik och management (ITM), Materialvetenskap, Tillämpad materialfysik.
    Twinning in metastable high-entropy alloys2018Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 9, nr 1, artikkel-id 2381Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Twinning is a fundamental mechanism behind the simultaneous increase of strength and ductility in medium- and high-entropy alloys, but its operation is not yet well understood, which limits their exploitation. Since many high-entropy alloys showing outstanding mechanical properties are actually thermodynamically unstable at ambient and cryogenic conditions, the observed twinning challenges the existing phenomenological and theoretical plasticity models. Here, we adopt a transparent approach based on effective energy barriers in combination with first-principle calculations to shed light on the origin of twinning in high-entropy alloys. We demonstrate that twinning can be the primary deformation mode in metastable face-centered cubic alloys with a fraction that surpasses the previously established upper limit. The present advance in plasticity of metals opens opportunities for tailoring the mechanical response in engineering materials by optimizing metastable twinning in high-entropy alloys. 

  • 39.
    Håkansson, Karl
    et al.
    KTH, Skolan för teknikvetenskap (SCI), Mekanik. KTH, Skolan för kemivetenskap (CHE), Centra, Wallenberg Wood Science Center. KTH, Skolan för teknikvetenskap (SCI), Centra, Linné Flow Center, FLOW.
    Fall, Andreas
    KTH, Skolan för kemivetenskap (CHE), Fiber- och polymerteknik, Fiberteknologi. KTH, Skolan för kemivetenskap (CHE), Centra, Wallenberg Wood Science Center.
    Lundell, Fredrik
    KTH, Skolan för teknikvetenskap (SCI), Mekanik. KTH, Skolan för kemivetenskap (CHE), Centra, Wallenberg Wood Science Center. KTH, Skolan för teknikvetenskap (SCI), Centra, Linné Flow Center, FLOW.
    Yu, Sun
    DESY, Hamburg Germany.
    Krywka, Christina
    Institute of experimental and applied physics. Kiel Germany.
    Roth, Stephan
    DESY, Hamburg Germany.
    Santoro, Gonzalo
    DESY, Hamburg Germany.
    Kvick, Mathias
    KTH, Skolan för teknikvetenskap (SCI), Mekanik. KTH, Skolan för kemivetenskap (CHE), Centra, Wallenberg Wood Science Center. KTH, Skolan för teknikvetenskap (SCI), Centra, Linné Flow Center, FLOW.
    Prahl Wittberg, Lisa
    KTH, Skolan för teknikvetenskap (SCI), Mekanik. KTH, Skolan för kemivetenskap (CHE), Centra, Wallenberg Wood Science Center. KTH, Skolan för teknikvetenskap (SCI), Centra, Linné Flow Center, FLOW.
    Wågberg, Lars
    KTH, Skolan för kemivetenskap (CHE), Fiber- och polymerteknik, Fiberteknologi. KTH, Skolan för kemivetenskap (CHE), Centra, Wallenberg Wood Science Center.
    Söderberg, Daniel
    KTH, Skolan för teknikvetenskap (SCI), Mekanik. KTH, Skolan för kemivetenskap (CHE), Centra, Wallenberg Wood Science Center. KTH, Skolan för teknikvetenskap (SCI), Centra, Linné Flow Center, FLOW. Innventia AB, Stockholm Sweden.
    Hydrodynamic alignment and assembly of nanofibrils resulting in strong cellulose filaments2014Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 5, s. 4018-Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Cellulose nanofibrils can be obtained from trees and have considerable potential as a building block for biobased materials. In order to achieve good properties of these materials, the nanostructure must be controlled. Here we present a process combining hydrodynamic alignment with a dispersion-gel transition that produces homogeneous and smooth filaments from a low-concentration dispersion of cellulose nanofibrils in water. The preferential fibril orientation along the filament direction can be controlled by the process parameters. The specific ultimate strength is considerably higher than previously reported filaments made of cellulose nanofibrils. The strength is even in line with the strongest cellulose pulp fibres extracted from wood with the same degree of fibril alignment. Successful nanoscale alignment before gelation demands a proper separation of the timescales involved. Somewhat surprisingly, the device must not be too small if this is to be achieved.

  • 40. Jin, Chiming
    et al.
    Li, Zi-An
    Kovacs, Andras
    Caron, Jan
    Zheng, Fengshan
    Rybakov, Filipp N.
    KTH, Skolan för teknikvetenskap (SCI), Fysik, Statistisk fysik. Ural federal university, Russian Federation.
    Kiselev, Nikolai S.
    Du, Haifeng
    Bluegel, Stefan
    Tian, Mingliang
    Zhang, Yuheng
    Farle, Michael
    Dunin-Borkowski, Rafal E.
    Control of morphology and formation of highly geometrically confined magnetic skyrmions2017Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 8, artikkel-id 15569Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The ability to controllably manipulate magnetic skyrmions, small magnetic whirls with particle-like properties, in nanostructured elements is a prerequisite for incorporating them into spintronic devices. Here, we use state-of-the-art electron holographic imaging to directly visualize the morphology and nucleation of magnetic skyrmions in a wedge-shaped FeGe nanostripe that has a width in the range of 45-150 nm. We find that geometrically-confined skyrmions are able to adopt a wide range of sizes and ellipticities in a nanostripe that are absent in both thin films and bulk materials and can be created from a helical magnetic state with a distorted edge twist in a simple and efficient manner. We perform a theoretical analysis based on a three-dimensional general model of isotropic chiral magnets to confirm our experimental results. The flexibility and ease of formation of geometrically confined magnetic skyrmions may help to optimize the design of skyrmion-based memory devices.

  • 41.
    Johansson, Henrik J.
    et al.
    Karolinska Inst, Dept Oncol Pathol, Sci Life Lab, S-17121 Solna, Sweden..
    Socciarelli, Fabio
    Karolinska Inst, Dept Oncol Pathol, Sci Life Lab, S-17121 Solna, Sweden..
    Vacanti, Nathaniel M.
    Karolinska Inst, Dept Oncol Pathol, Sci Life Lab, S-17121 Solna, Sweden.;Cornell Univ, Div Nutrit Sci, Ithaca, NY 14853 USA..
    Haugen, Mads H.
    Oslo Univ Hosp, Inst Canc Res, Dept Tumor Biol, N-0424 Oslo, Norway.;Oslo Univ Hosp, Inst Canc Res, Dept Canc Genet, N-0424 Oslo, Norway..
    Zhu, Yafeng
    Karolinska Inst, Dept Oncol Pathol, Sci Life Lab, S-17121 Solna, Sweden..
    Siavelis, Ioannis
    Karolinska Inst, Dept Oncol Pathol, Sci Life Lab, S-17121 Solna, Sweden..
    Fernandez-Woodbridge, Alejandro
    Karolinska Inst, Dept Oncol Pathol, Sci Life Lab, S-17121 Solna, Sweden..
    Aure, Miriam R.
    Oslo Univ Hosp, Inst Canc Res, Dept Canc Genet, N-0424 Oslo, Norway..
    Sennblad, Bengt
    Uppsala Univ, Sci Life Lab, Dept Cell & Mol Biol, Natl Bioinformat Infrastruct Sweden, S-75237 Uppsala, Sweden..
    Vesterlund, Mattias
    Karolinska Inst, Dept Oncol Pathol, Sci Life Lab, S-17121 Solna, Sweden..
    Branca, Rui M.
    Karolinska Inst, Dept Oncol Pathol, Sci Life Lab, S-17121 Solna, Sweden..
    Orre, Lukas M.
    Karolinska Inst, Dept Oncol Pathol, Sci Life Lab, S-17121 Solna, Sweden..
    Huss, Mikael
    Stockholm Univ, Sci Life Lab, Dept Biochem & Biophys, Natl Bioinformat Infrastruct Sweden, S-17121 Solna, Sweden..
    Fredlund, Erik
    Karolinska Inst, Dept Oncol Pathol, Sci Life Lab, S-17121 Solna, Sweden..
    Beraki, Elsa
    Oslo Univ Hosp, Dept Pathol, N-0424 Oslo, Norway..
    Garred, Oystein
    Oslo Univ Hosp, Dept Pathol, N-0424 Oslo, Norway..
    Boekel, Jorrit
    Karolinska Inst, Dept Oncol Pathol, Sci Life Lab, S-17121 Solna, Sweden..
    Sauer, Torill
    Akershus Univ Hosp, Dept Pathol, N-1478 Lorenskog, Norway.;Univ Oslo, Inst Clin Med, N-0318 Oslo, Norway..
    Zhao, Wei
    Univ Texas MD Anderson Canc Ctr, Dept Syst Biol, Houston, TX 77230 USA..
    Nord, Silje
    Oslo Univ Hosp, Inst Canc Res, Dept Canc Genet, N-0424 Oslo, Norway..
    Hoglander, Elen K.
    Oslo Univ Hosp, Inst Canc Res, Dept Canc Genet, N-0424 Oslo, Norway..
    Jans, Daniel C.
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik.
    Brismar, Hjalmar
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik. Karolinska Inst, Dept Womenss & Childrens Hlth, S-17121 Solna, Sweden..
    Haukaas, Tonje H.
    Norwegian Univ Sci & Technol NTNU, Dept Circulat & Med Imaging, N-7491 Trondheim, Norway..
    Bathen, Tone F.
    Norwegian Univ Sci & Technol NTNU, Dept Circulat & Med Imaging, N-7491 Trondheim, Norway..
    Schlichting, Ellen
    Oslo Univ Hosp, Dept Canc, Sect Breast & Endocrine Surg, Div Surg Canc & Transplantat Med, N-0424 Oslo, Norway..
    Naume, Bjorn
    Univ Oslo, Inst Clin Med, N-0318 Oslo, Norway.;Oslo Univ Hosp, Div Surg & Canc & Transplantat Med, Dept Oncol, N-0424 Oslo, Norway..
    Geisler, Juergen
    Univ Oslo, Inst Clin Med, N-0318 Oslo, Norway.;Akershus Univ Hosp, Dept Oncol, N-1478 Lorenskog, Norway.;Akershus Univ Hosp, Div Med, N-1478 Lorenskog, Norway..
    Hofvind, Solveig
    Canc Registry Norway, N-0379 Oslo, Norway.;Oslo & Akershus Univ, Coll Appl Sci, Fac Hlth Sci, N-0130 Oslo, Norway..
    Engebraten, Olav
    Univ Oslo, Inst Clin Med, N-0318 Oslo, Norway.;Oslo Univ Hosp, Div Surg & Canc & Transplantat Med, Dept Oncol, N-0424 Oslo, Norway.;Oslo Univ Hosp, Inst Canc Res, Dept Tumor Biol, N-0379 Oslo, Norway..
    Geitvik, Gry Aarum
    Oslo Univ Hosp, Norwegian Radium Hosp, Inst Canc Res, Dept Canc Genet, N-0379 Oslo, Norway..
    Langerod, Anita
    Oslo Univ Hosp, Norwegian Radium Hosp, Inst Canc Res, Dept Canc Genet, N-0379 Oslo, Norway..
    Karesen, Rolf
    Univ Oslo, Inst Clin Med, N-0318 Oslo, Norway.;Oslo Univ Hosp, Div Surg Canc & Transplantat, Dept Breast & Endocrine Surg, N-0379 Oslo, Norway..
    Maelandsmo, Gunhild Mari
    Oslo Univ Hosp, Inst Canc Res, Dept Tumor Biol, N-0379 Oslo, Norway.;Univ Tromso, Fac Hlth Sci, Dept Pharm, N-9010 Tromso, Norway..
    Sorlie, Therese
    Oslo Univ Hosp, Norwegian Radium Hosp, Inst Canc Res, Dept Canc Genet, N-0379 Oslo, Norway..
    Skjerven, Helle Kristine
    Vestre Viken Hosp Trust, Dept Breast & Endocrine Surg, Breast & Endocrine Surg, N-3004 Drammen, Norway..
    Park, Daehoon
    Vestre Viken Hosp Trust, Dept Pathol, N-3004 Drammen, Norway..
    Hartman-Johnsen, Olaf-Johan
    Ostfold Hosp, N-1714 Ostfold, Norway..
    Luders, Torben
    Univ Oslo, Inst Clin Med, N-0318 Oslo, Norway.;Akershus Univ Hosp, Div Med, Dept Clin Mol Biol & Lab Sci EpiGen, N-1478 Lorenskog, Norway..
    Borgen, Elin
    Oslo Univ Hosp, Dept Pathol, N-0424 Oslo, Norway..
    Kristensen, Vessela N.
    Oslo Univ Hosp, Inst Canc Res, Dept Canc Genet, N-0424 Oslo, Norway.;Univ Oslo, Inst Clin Med, N-0318 Oslo, Norway.;Akershus Univ Hosp, Div Med, Dept Clin Mol Biol & Lab Sci EpiGen, N-1478 Lorenskog, Norway..
    Russnes, Hege G.
    Oslo Univ Hosp, Inst Canc Res, Dept Canc Genet, N-0424 Oslo, Norway..
    Lingjaerde, Ole Christian
    Oslo Univ Hosp, Inst Canc Res, Dept Canc Genet, N-0424 Oslo, Norway.;Univ Oslo, Ctr Canc Biomed, N-0424 Oslo, Norway..
    Mills, Gordon B.
    Univ Texas MD Anderson Canc Ctr, Dept Syst Biol, Houston, TX 77230 USA..
    Sahlberg, Kristine K.
    Oslo Univ Hosp, Inst Canc Res, Dept Canc Genet, N-0424 Oslo, Norway.;Vestre Viken Hosp Trust, Dept Res, N-3004 Drammen, Norway..
    Borresen-Dale, Anne-Lise
    Oslo Univ Hosp, Inst Canc Res, Dept Canc Genet, N-0424 Oslo, Norway.;Univ Oslo, Inst Clin Med, N-0318 Oslo, Norway..
    Lehtio, Janne
    Karolinska Inst, Dept Oncol Pathol, Sci Life Lab, S-17121 Solna, Sweden..
    Breast cancer quantitative proteome and proteogenomic landscape2019Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 10, artikkel-id 1600Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    In the preceding decades, molecular characterization has revolutionized breast cancer (BC) research and therapeutic approaches. Presented herein, an unbiased analysis of breast tumor proteomes, inclusive of 9995 proteins quantified across all tumors, for the first time recapitulates BC subtypes. Additionally, poor-prognosis basal-like and luminal B tumors are further subdivided by immune component infiltration, suggesting the current classification is incomplete. Proteome-based networks distinguish functional protein modules for breast tumor groups, with co-expression of EGFR and MET marking ductal carcinoma in situ regions of normal-like tumors and lending to a more accurate classification of this poorly defined subtype. Genes included within prognostic mRNA panels have significantly higher than average mRNA-protein correlations, and gene copy number alterations are dampened at the protein-level; underscoring the value of proteome quantification for prognostication and phenotypic classification. Furthermore, protein products mapping to non-coding genomic regions are identified; highlighting a potential new class of tumor-specific immunotherapeutic targets.

  • 42.
    Kazemzadeh, Amin
    et al.
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap, Nanobioteknologi. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Eriksson, Anders
    KTH, Skolan för teknikvetenskap (SCI), Mekanik.
    Madou, Marc
    Univ Calif Irvine, Dept Mech & Aerosp Engn, Irvine, CA 92697 USA..
    Russom, Aman
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Proteinvetenskap, Nanobioteknologi. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    A micro-dispenser for long-term storage and controlled release of liquids2019Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 10, nr 1, artikkel-id 189Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The success of lab-on-a-chip systems may depend on a low-cost device that incorporates on-chip storage and fluidic operations. To date many different methods have been developed that cope separately with on-chip storage and fluidic operations e. g., hydrophobic and capillary valves pneumatic pumping and blister storage packages. The blister packages seem difficult to miniaturize and none of the existing liquid handling techniques despite their variety are capable of proportional repeatable dispensing. We report here on an inexpensive robust and scalable micro-dispenser that incorporates long-term storage and aliquoting of reagents on different microfluidics platforms. It provides long-term shelf-life for different liquids enables precise dispensing on lab-on-a-disc platforms and less accurate but proportional dispensing when operated by finger pressure. Based on this technology we introduce a method for automation of blood plasma separation and multi-step bioassay procedures. This micro-dispenser intends to facilitate affordable portable diagnostic devices and accelerate the commercialization of lab-on-a-chip devices.

  • 43. Kronqvist, Nina
    et al.
    Otikovs, Martins
    Chmyrov, Volodymyr
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik, Experimentell biomolekylär fysik.
    Chen, Gefei
    Andersson, Marlene
    Nordling, Kerstin
    Landreh, Michael
    Sarr, Médoune
    Jörnvall, Hans
    Wennmalm, Stefan
    Widengren, Jerker
    KTH, Skolan för teknikvetenskap (SCI), Tillämpad fysik, Experimentell biomolekylär fysik.
    Meng, Qing
    Rising, Anna
    Otzen, Daniel Erik Rik
    Knight, Stefan
    Jaudzems, Kristaps
    Johansson, Jan Ove
    Sequential pH-driven dimerization and stabilization of the N-terminal domain enables rapid spider silk formation2014Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 5, s. 3254-Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    The mechanisms controlling the conversion of spider silk proteins into insoluble fibres, which happens in a fraction of a second and in a defined region of the silk glands, are still unresolved. The N-terminal domain changes conformation and forms a homodimer when pH is lowered from 7 to 6; however, the molecular details still remain to be determined. Here we investigate site-directed mutants of the N-terminal domain from Euprosthenops australis major ampullate spidroin 1 and find that the charged residues D40, R60 and K65 mediate intersubunit electrostatic interactions. Protonation of E79 and E119 is required for structural conversions of the subunits into a dimer conformation, and subsequent protonation of E84 around pH 5.7 leads to the formation of a fully stable dimer. These residues are highly conserved, indicating that the now proposed three-step mechanism prevents premature aggregation of spidroins and enables fast formation of spider silk fibres in general.

  • 44. Kronqvist, Nina
    et al.
    Sarr, Medoune
    Lindqvist, Anton
    Nordling, Kerstin
    Otikovs, Martins
    Venturi, Luca
    Pioselli, Barbara
    Purhonen, Pasi
    Landreh, Michael
    Biverstal, Henrik
    Toleikis, Zigmantas
    Sjöberg, Lisa
    Robinson, Carol V.
    Pelizzi, Nicola
    Jornvall, Hans
    Hebert, Hans
    KTH, Skolan för teknik och hälsa (STH), Naturvetenskap och biomedicin, Strukturell bioteknik. Karolinska Institutet, Sverige.
    Jaudzems, Kristaps
    Curstedt, Tore
    Rising, Anna
    Johansson, Jan
    Efficient protein production inspired by how spiders make silk2017Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 8, artikkel-id 15504Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Membrane proteins are targets of most available pharmaceuticals, but they are difficult to produce recombinantly, like many other aggregation-prone proteins. Spiders can produce silk proteins at huge concentrations by sequestering their aggregation-prone regions in micellar structures, where the very soluble N-terminal domain (NT) forms the shell. We hypothesize that fusion to NT could similarly solubilize non-spidroin proteins, and design a charge-reversed mutant (NT star) that is pH insensitive, stabilized and hypersoluble compared to wildtype NT. NT star-transmembrane protein fusions yield up to eight times more of soluble protein in Escherichia coli than fusions with several conventional tags. NT star enables transmembrane peptide purification to homogeneity without chromatography and manufacture of low-cost synthetic lung surfactant that works in an animal model of respiratory disease. NT star also allows efficient expression and purification of non-transmembrane proteins, which are otherwise refractory to recombinant production, and offers a new tool for reluctant proteins in general.

  • 45.
    Lacis, Ugis
    et al.
    KTH, Skolan för teknikvetenskap (SCI), Mekanik, Stabilitet, Transition, Kontroll. KTH, Skolan för teknikvetenskap (SCI), Centra, Linné Flow Center, FLOW.
    Brosse, Nicolas
    KTH, Skolan för teknikvetenskap (SCI), Hållfasthetslära (Inst.). KTH, Skolan för teknikvetenskap (SCI), Centra, Linné Flow Center, FLOW.
    Ingremeau, F.
    Mazzino, A.
    Lundell, Fredrik
    KTH, Skolan för teknikvetenskap (SCI), Mekanik. KTH, Skolan för teknikvetenskap (SCI), Centra, Linné Flow Center, FLOW.
    Kellay, H.
    Bagheri, Shervin
    KTH, Skolan för teknikvetenskap (SCI), Mekanik, Stabilitet, Transition, Kontroll. KTH, Skolan för teknikvetenskap (SCI), Centra, Linné Flow Center, FLOW.
    Passive appendages generate drift through symmetry breaking2014Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 5, s. 5310-Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Plants and animals use plumes, barbs, tails, feathers, hairs and fins to aid locomotion. Many of these appendages are not actively controlled, instead they have to interact passively with the surrounding fluid to generate motion. Here, we use theory, experiments and numerical simulations to show that an object with a protrusion in a separated flow drifts sideways by exploiting a symmetry-breaking instability similar to the instability of an inverted pendulum. Our model explains why the straight position of an appendage in a fluid flow is unstable and how it stabilizes either to the left or right of the incoming flow direction. It is plausible that organisms with appendages in a separated flow use this newly discovered mechanism for locomotion; examples include the drift of plumed seeds without wind and the passive reorientation of motile animals.

  • 46.
    Li, Xuping
    et al.
    Fudan Univ, Dept Macromol Sci, State Key Lab Mol Engn Polymers, Shanghai 200438, Peoples R China..
    Baryshnikov, Gleb V.
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Teoretisk kemi och biologi.
    Deng, Chao
    Zhejiang Univ, Dept Polymer Sci & Engn, MOE Key Lab Macromol Synth & Functionalizat, Hangzhou 310027, Zhejiang, Peoples R China..
    Bao, Xiaoyan
    Fudan Univ, Dept Macromol Sci, State Key Lab Mol Engn Polymers, Shanghai 200438, Peoples R China..
    Wu, Bin
    Fudan Univ, Dept Macromol Sci, State Key Lab Mol Engn Polymers, Shanghai 200438, Peoples R China..
    Zhou, Yunyun
    Fudan Univ, Dept Macromol Sci, State Key Lab Mol Engn Polymers, Shanghai 200438, Peoples R China..
    Ågren, Hans
    KTH, Skolan för kemi, bioteknologi och hälsa (CBH), Teoretisk kemi och biologi.
    Zhu, Liangliang
    Fudan Univ, Dept Macromol Sci, State Key Lab Mol Engn Polymers, Shanghai 200438, Peoples R China..
    A three-dimensional ratiometric sensing strategy on unimolecular fluorescence-thermally activated delayed fluorescence dual emission2019Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 10, artikkel-id 731Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Visualized sensing through fluorescence signals is a powerful method for chemical and physical detection. However, the utilization of fluorescent molecular probes still suffers from lack of precise signal self-calibration in practical use. Here we show that fluorescence and thermally activated delayed fluorescence can be simultaneously produced at the single-molecular level. The thermally activated delayed fluorescence serves as a sensing signal with its wavelength and lifetime both altered correlating to polarity, whereas the fluorescence always remains unchanged as an internal reference. Upon the establishment of a three-dimensional working curve upon the ratiometric wavelength and photoluminescence lifetime vs. polarity, disturbance factors during a relevant sensing process can be largely minimized by such a multiple self-calibration. This strategy was further applied into a precise detection of the microenvironmental polarity variation in complex phospholipid systems, towards providing new insights for convenient and accurate diagnosis of membrane lesions.

  • 47. Li, Y.
    et al.
    Zakharov, D.
    Zhao, S.
    Tappero, R.
    Jung, U.
    Elsen, A.
    Baumann, Ph.
    Nuzzo, Ralph G.
    KTH, Skolan för kemivetenskap (CHE), Kemi, Yt- och korrosionsvetenskap.
    Stach, E. A.
    Frenkel, A. I.
    Complex structural dynamics of nanocatalysts revealed in Operando conditions by correlated imaging and spectroscopy probes2015Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 6, artikkel-id 7583Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Understanding how heterogeneous catalysts change size, shape and structure during chemical reactions is limited by the paucity of methods for studying catalytic ensembles in working state, that is, in operando conditions. Here by a correlated use of synchrotron X-ray absorption spectroscopy and scanning transmission electron microscopy in operando conditions, we quantitatively describe the complex structural dynamics of supported Pt catalysts exhibited during an exemplary catalytic reaction-ethylene hydrogenation. This work exploits a microfabricated catalytic reactor compatible with both probes. The results demonstrate dynamic transformations of the ensemble of Pt clusters that spans a broad size range throughout changing reaction conditions. This method is generalizable to quantitative operando studies of complex systems using a wide variety of X-ray and electron-based experimental probes.

  • 48. Lundqvist, Mikael
    et al.
    Herman, Pawel
    KTH, Skolan för elektroteknik och datavetenskap (EECS), Beräkningsvetenskap och beräkningsteknik (CST).
    Warden, Melissa R.
    Brincat, Scott L.
    Miller, Earl K.
    Gamma and beta bursts during working memory readout suggest roles in its volitional control2018Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 9, artikkel-id 394Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Working memory (WM) activity is not as stationary or sustained as previously thought. There are brief bursts of gamma (similar to 50-120 Hz) and beta (similar to 20-35 Hz) oscillations, the former linked to stimulus information in spiking. We examined these dynamics in relation to readout and control mechanisms of WM. Monkeys held sequences of two objects in WM to match to subsequent sequences. Changes in beta and gamma bursting suggested their distinct roles. In anticipation of having to use an object for the match decision, there was an increase in gamma and spiking information about that object and reduced beta bursting. This readout signal was only seen before relevant test objects, and was related to premotor activity. When the objects were no longer needed, beta increased and gamma decreased together with object spiking information. Deviations from these dynamics predicted behavioral errors. Thus, beta could regulate gamma and the information in WM.

  • 49. Maccaferri, Nicolo
    et al.
    Gregorczyk, Keith E.
    de Oliveira, Thales V. A. G.
    Kataja, Mikko
    van Dijken, Sebastiaan
    Pirzadeh, Zhaleh
    Dmitriev, Alexandre
    Akerman, Johan
    KTH, Skolan för informations- och kommunikationsteknik (ICT), Material- och nanofysik, Materialfysik, MF. Department of Physics, University of Gothenburg, Sweden .
    Knez, Mato
    Vavassori, Paolo
    Ultrasensitive and label-free molecular-level detection enabled by light phase control in magnetoplasmonic nanoantennas2015Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 6, artikkel-id 6150Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Systems allowing label-free molecular detection are expected to have enormous impact on biochemical sciences. Research focuses on materials and technologies based on exploiting localized surface plasmon resonances in metallic nanostructures. The reason for this focused attention is their suitability for single-molecule sensing, arising from intrinsically nanoscopic sensing volume and the high sensitivity to the local environment. Here we propose an alternative route, which enables radically improved sensitivity compared with recently reported plasmon-based sensors. Such high sensitivity is achieved by exploiting the control of the phase of light in magnetoplasmonic nanoantennas. We demonstrate a manifold improvement of refractometric sensing figure-of-merit. Most remarkably, we show a raw surface sensitivity (that is, without applying fitting procedures) of two orders of magnitude higher than the current values reported for nanoplasmonic sensors. Such sensitivity corresponds to a mass of similar to 0.8 ag per nanoantenna of polyamide-6.6 (n = 1.51), which is representative for a large variety of polymers, peptides and proteins.

  • 50. Mardinoglu, Adil
    et al.
    Ågren, Rasmus
    Kampf, Caroline
    Asplund, Anna
    Uhlén, Mathias
    KTH, Skolan för bioteknologi (BIO), Proteomik och nanobioteknologi. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Nielsen, Jens
    KTH, Skolan för bioteknologi (BIO), Genteknologi. KTH, Centra, Science for Life Laboratory, SciLifeLab.
    Genome-scale metabolic modelling of hepatocytes reveals serine deficiency in patients with non-alcoholic fatty liver disease2014Inngår i: Nature Communications, ISSN 2041-1723, E-ISSN 2041-1723, Vol. 5, s. 3083-Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Several liver disorders result from perturbations in the metabolism of hepatocytes, and their underlying mechanisms can be outlined through the use of genome-scale metabolic models (GEMs). Here we reconstruct a consensus GEM for hepatocytes, which we call iHepatocytes2322, that extends previous models by including an extensive description of lipid metabolism. We build iHepatocytes2322 using Human Metabolic Reaction 2.0 database and proteomics data in Human Protein Atlas, which experimentally validates the incorporated reactions. The reconstruction process enables improved annotation of the proteomics data using the network centric view of iHepatocytes2322. We then use iHepatocytes2322 to analyse transcriptomics data obtained from patients with non-alcoholic fatty liver disease. We show that blood concentrations of chondroitin and heparan sulphates are suitable for diagnosing non-alcoholic steatohepatitis and for the staging of non-alcoholic fatty liver disease. Furthermore, we observe serine deficiency in patients with NASH and identify PSPH, SHMT1 and BCAT1 as potential therapeutic targets for the treatment of non-alcoholic steatohepatitis.

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