NGI Single cell (15 publications)

Reconstructing clonal tree for phylo-phenotypic characterization of cancer using single-cell transcriptomics.

Jun S, Toosi H, Mold J, ..., Roth A, Lagergren J

Nat Commun 14 (1) 982 [2023-02-22; online 2023-02-22]

NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

A topographic atlas defines developmental origins of cell heterogeneity in the human embryonic lung.

Sountoulidis A, Marco Salas S, Braun E, ..., Nilsson M, Samakovlis C

Nat Cell Biol 25 (2) 351-365 [2023-02-00; online 2023-01-16]

NGI Short read [Service] NGI Single cell [Service] NGI Spatial omics [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Inversions maintain differences between migratory phenotypes of a songbird.

Lundberg M, Mackintosh A, Petri A, Bensch S

Nat Commun 14 (1) 452 [2023-01-27; online 2023-01-27]

NGI Single cell [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Single-cell transcriptomics reveals correct developmental dynamics and high-quality midbrain cell types by improved hESC differentiation.

Nishimura K, Yang S, Lee KW, ..., Linnarsson S, Arenas E

Stem Cell Reports 18 (1) 337-353 [2023-01-10; online 2022-11-17]

NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Dormant SOX9-positive cells facilitate MYC-driven recurrence of medulloblastoma.

Borgenvik A, Holmberg KO, Bolin S, ..., Weishaupt H, Swartling FJ

Cancer Res. - (-) - [2022-10-11; online 2022-10-11]

Bioinformatics Compute and Storage [Service] NGI Single cell [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Characterization of hemocytes and hematopoietic cells of a freshwater crayfish based on single-cell transcriptome analysis.

Söderhäll I, Fasterius E, Ekblom C, Söderhäll K

iScience 25 (8) 104850 [2022-08-19; online 2022-08-02]

Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Single cell [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Dynamical Systems Model of RNA Velocity Improves Inference of Single-cell Trajectory, Pseudo-time and Gene Regulation.

Liu R, Pisco AO, Braun E, Linnarsson S, Zou J

J. Mol. Biol. 434 (15) 167606 [2022-08-15; online 2022-04-27]

NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Single-cell multi-omics of human preimplantation embryos shows susceptibility to glucocorticoids.

Zhao C, Biondic S, Vandal K, ..., Reik W, Petropoulos S

Genome Res. 32 (9) 1627-1641 [2022-08-10; online 2022-08-10]

Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Single cell [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Single-cell transcriptional pharmacodynamics of trifluridine in a tumor-immune model.

Selvin T, Fasterius E, Jarvius M, ..., Larsson R, Andersson CR

Sci Rep 12 (1) 11960 [2022-07-13; online 2022-07-13]

Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Single cell [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Single-cell RNA-sequencing analysis of the developing mouse inner ear identifies molecular logic of auditory neuron diversification.

Petitpré C, Faure L, Uhl P, ..., Hadjab S, Lallemend F

Nat Commun 13 (1) 3878 [2022-07-05; online 2022-07-05]

NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Developmental landscape of human forebrain at a single-cell level identifies early waves of oligodendrogenesis.

van Bruggen D, Pohl F, Langseth CM, ..., Sundström E, Castelo-Branco G

Dev. Cell 57 (11) 1421-1436.e5 [2022-06-06; online 2022-05-05]

Bioinformatics Compute and Storage [Service] In Situ Sequencing (ISS) [Collaborative] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

scSPLAT, a scalable plate-based protocol for single cell WGBS library preparation.

Raine A, Lundmark A, Annett A, ..., Bergin C, Nordlund J

Sci Rep 12 (1) 5772 [2022-04-06; online 2022-04-06]

Bioinformatics Compute and Storage [Service] Microbial Single Cell Genomics NGI Single cell [Technology development] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]

PubMed DOI Crossref

Uterine fluid microRNAs are dysregulated in women with recurrent implantation failure.

von Grothusen C, Frisendahl C, Modhukur V, ..., Boggavarapu NR, Gemzell-Danielsson K

Hum. Reprod. 37 (4) 734-746 [2022-04-01; online 2022-02-12]

Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Identification of a discrete subpopulation of spinal cord ependymal cells with neural stem cell properties.

Stenudd M, Sabelström H, Llorens-Bobadilla E, ..., Barnabé-Heider F, Frisén J

Cell Rep 38 (9) 110440 [2022-03-01; online 2022-03-03]

Bioinformatics Compute and Storage [Service] Integrated Microscopy Technologies Stockholm [Collaborative] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Clonal relations in the mouse brain revealed by single-cell and spatial transcriptomics.

Ratz M, von Berlin L, Larsson L, ..., Lundeberg J, Frisén J

Nat. Neurosci. 25 (3) 285-294 [2022-03-00; online 2022-02-24]

Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Single cell [Service] NGI Spatial omics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

NGI Single cell

Year 2023

Year 2022