In Situ Sequencing (ISS) (13 publications)

Publications

SciLifeLab Infrastructure Unit Since 2019.

Started: 2019

Ended: Current

13 publications

Year 2020

PubMed DOI Crossref

Distinct oligodendrocyte populations have spatial preference and different responses to spinal cord injury.

Floriddia EM, Lourenço T, Zhang S, ..., Nilsson M, Castelo-Branco G

pii: 10.1038/s41467-020-19453-x pmc: PMC7673029

Nat Commun 11 (1) 5860 [2020-11-17; online 2020-11-17]

Bioinformatics Compute and Storage [Service] Eukaryotic Single Cell Genomics (ESCG) In Situ Sequencing (ISS) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

DOI Crossref

Hybridization-based in situ sequencing (HybISS) for spatially resolved transcriptomics in human and mouse brain tissue

Gyllborg D, Langseth CM, Qian X, ..., Lein ES, Nilsson M

- 48 (19) e112-e112 [2020-11-04; online 2020-09-29]

Bioinformatics Compute and Storage [Service] In Situ Sequencing (ISS) [Technology development]

DOI Crossref

Probabilistic cell typing enables fine mapping of closely related cell types in situ

Qian X, Harris KD, Hauling T, ..., Hjerling-Leffler J, Nilsson M

Nat Methods 17 (1) 101-106 [2020-01-00; online 2019-11-18]

Bioinformatics Compute and Storage [Service] In Situ Sequencing (ISS) [Service]

DOI Crossref

In Situ Sequencing: A High-Throughput, Multi-Targeted Gene Expression Profiling Technique for Cell Typing in Tissue Sections

Hilscher MM, Gyllborg D, Yokota C, Nilsson M

Methods Mol. Biol. - (-) 313-329 [2020-00-00; online 2020-05-12]

Bioinformatics Compute and Storage [Service] In Situ Sequencing (ISS) [Collaborative]

Year 2019

PubMed DOI Crossref

A Spatiotemporal Organ-Wide Gene Expression and Cell Atlas of the Developing Human Heart.

Asp M, Giacomello S, Larsson L, ..., Sylvén C, Lundeberg J

pii: S0092-8674(19)31282-6

Cell 179 (7) 1647-1660.e19 [2019-12-12; online 2019-12-14]

Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Eukaryotic Single Cell Genomics (ESCG) [Service] In Situ Sequencing (ISS) [Technology development] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

DOI Crossref

A microfluidic platform towards automated multiplexed in situ sequencing

Maïno N, Hauling T, Cappi G, ..., Dupouy DG, Nilsson M

Sci Rep 9 (1) - [2019-12-00; online 2019-03-05]

In Situ Sequencing (ISS) [Technology development]

DOI Crossref

Spatial and temporal localization of immune transcripts defines hallmarks and diversity in the tuberculosis granuloma

Carow B, Hauling T, Qian X, ..., Nilsson M, Rottenberg ME

Nat Commun 10 (1) - [2019-12-00; online 2019-04-23]

In Situ Sequencing (ISS) [Collaborative]

DOI Crossref

Single-cell RNA sequencing reveals midbrain dopamine neuron diversity emerging during mouse brain development

Tiklová K, Björklund ÅK, Lahti L, ..., Parmar M, Perlmann T

GEO: GSE116138

Nat Commun 10 (1) - [2019-12-00; online 2019-02-04]

DOI Crossref

Generation of in situ sequencing based OncoMaps to spatially resolve gene expression profiles of diagnostic and prognostic markers in breast cancer

Svedlund J, Strell C, Qian X, ..., Sieuwerts AM, Nilsson M

EBioMedicine 48 (-) 212-223 [2019-10-00; online 2019-10-00]

In Situ Sequencing (ISS) [Technology development]

PubMed DOI Crossref

Spatiotemporal structure of cell fate decisions in murine neural crest

Soldatov R, Kaucka M, Kastriti ME, ..., Kharchenko PV, Adameyko I

Science 364 (6444) eaas9536 [2019-06-07; online 2019-06-06]

Eukaryotic Single Cell Genomics (ESCG) [Service] In Situ Sequencing (ISS) [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

DOI Crossref

Placing RNA in context and space – methods for spatially resolved transcriptomics

Strell C, Hilscher MM, Laxman N, ..., Yokota C, Nilsson M

FEBS J 286 (8) 1468-1481 [2019-04-00; online 2018-03-31]

In Situ Sequencing (ISS) [Technology development]

Year 2018

PubMed DOI Crossref

RollFISH achieves robust quantification of single-molecule RNA biomarkers in paraffin-embedded tumor tissue samples.

Wu C, Simonetti M, Rossell C, ..., Crosetto N, Nilsson M

pii: 218 pmc: PMC6262000

Commun Biol 1 (-) 209 [2018-11-28; online 2018-11-28]

Advanced FISH Technologies [Technology development] In Situ Sequencing (ISS) [Technology development]

PubMed DOI Crossref

Expression profiling and in situ screening of circular RNAs in human tissues.

Zaghlool A, Ameur A, Wu C, ..., Nilsson M, Feuk L

pii: 10.1038/s41598-018-35001-6

Sci Rep 8 (1) 16953 [2018-11-16; online 2018-11-16]

Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] In Situ Sequencing (ISS) [Technology development] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]