kth.sePublications
Change search
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf
Enabling automated and reproducible spatially resolved transcriptomics at scale
KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Gene Technology. KTH, Centres, Science for Life Laboratory, SciLifeLab.ORCID iD: 0000-0002-0210-7886
KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Gene Technology.ORCID iD: 0000-0001-7198-5116
KTH, Centres, Science for Life Laboratory, SciLifeLab. KTH, School of Engineering Sciences in Chemistry, Biotechnology and Health (CBH), Gene Technology. (KTH Royal Inst Technol, Div Gene Technol, Sci Life Lab, Stockholm, Sweden.)ORCID iD: 0000-0003-0738-1574
2022 (English)In: Heliyon, E-ISSN 2405-8440, Vol. 8, no 6, p. e09651-, article id e09651Article in journal (Refereed) Published
Abstract [en]

Spatial information of tissues is an essential component to reach a holistic overview of gene expression mecha-nisms. The sequencing-based Spatial transcriptomics approach allows to spatially barcode the whole tran-scriptome of tissue sections using microarray glass slides. However, manual preparation of high-quality tissue sequencing libraries is time-consuming and subjected to technical variability. Here, we present an automated adaptation of the 10x Genomics Visium library construction on the widely used Agilent Bravo Liquid Handling Platform. Compared to the manual Visium library preparation, our automated approach reduces hands-on time by over 80% and provides higher throughput and robustness. Our automated Visium library preparation protocol provides a new strategy to standardize spatially resolved transcriptomics analysis of tissues at scale.

Place, publisher, year, edition, pages
Elsevier BV , 2022. Vol. 8, no 6, p. e09651-, article id e09651
Keywords [en]
Spatial transcriptomics, Visium, Automation, RNA-sequencing, High-throughput, Library preparation
National Category
Medical Biotechnology
Identifiers
URN: urn:nbn:se:kth:diva-316241DOI: 10.1016/j.heliyon.2022.e09651ISI: 000830207200004PubMedID: 35756107Scopus ID: 2-s2.0-85132315436OAI: oai:DiVA.org:kth-316241DiVA, id: diva2:1688664
Note

Not duplicate with DiVA 1639901QC 20220819

Available from: 2022-08-19 Created: 2022-08-19 Last updated: 2022-08-19Bibliographically approved

Open Access in DiVA

No full text in DiVA

Other links

Publisher's full textPubMedScopus

Authority records

Stenbeck, LinneaTaborsak-Lines, FannyGiacomello, Stefania

Search in DiVA

By author/editor
Stenbeck, LinneaTaborsak-Lines, FannyGiacomello, Stefania
By organisation
Gene TechnologyScience for Life Laboratory, SciLifeLab
In the same journal
Heliyon
Medical Biotechnology

Search outside of DiVA

GoogleGoogle Scholar

doi
pubmed
urn-nbn

Altmetric score

doi
pubmed
urn-nbn
Total: 58 hits
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf