Revealing Allele-level Regulation and Dynamics using Single-cell Gene Expression Analyses

Project Information

Allelic Regulation

Grant agreement ID: 648842

DOI

10.3030/648842

Project closed

EC signature date 26 June 2015

Start date 1 July 2015

End date 31 December 2020

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost

€ 1 923 060,00

EU contribution

€ 1 923 060,00

Coordinated by

KAROLINSKA INSTITUTET
Sweden

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Publications

Peer reviewed articles (10)

Single-cell RNA counting at allele and isoform resolution using Smart-seq3

Author(s): Michael Hagemann-Jensen, Christoph Ziegenhain, Ping Chen, Daniel Ramsköld, Gert-Jan Hendriks, Anton J. M. Larsson, Omid R. Faridani, Rickard Sandberg
Published in: Nature Biotechnology, Issue 38/6, 2020, Page(s) 708-714, ISSN 1087-0156
Publisher: Nature Publishing Group
DOI: 10.1038/s41587-020-0497-0

Genomic encoding of transcriptional burst kinetics

Author(s): Anton J. M. Larsson, Per Johnsson, Michael Hagemann-Jensen, Leonard Hartmanis, Omid R. Faridani, Björn Reinius, Åsa Segerstolpe, Chloe M. Rivera, Bing Ren, Rickard Sandberg
Published in: Nature, Issue 565/7738, 2019, Page(s) 251-254, ISSN 0028-0836
Publisher: Nature Publishing Group
DOI: 10.1038/s41586-018-0836-1

NASC-seq monitors RNA synthesis in single cells

Author(s): Gert-Jan Hendriks, Lisa A. Jung, Anton J. M. Larsson, Michael Lidschreiber, Oscar Andersson Forsman, Katja Lidschreiber, Patrick Cramer, Rickard Sandberg
Published in: Nature Communications, Issue 10/1, 2019, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-019-11028-9

Single-Cell Transcriptome Profiling of Human Pancreatic Islets in Health and Type 2 Diabetes

Author(s): Åsa Segerstolpe, Athanasia Palasantza, Pernilla Eliasson, Eva-Marie Andersson, Anne-Christine Andréasson, Xiaoyan Sun, Simone Picelli, Alan Sabirsh, Maryam Clausen, Magnus K. Bjursell, David M. Smith, Maria Kasper, Carina Ämmälä, Rickard Sandberg
Published in: Cell Metabolism, Issue 24/4, 2016, Page(s) 593-607, ISSN 1550-4131
Publisher: Cell Press
DOI: 10.1016/j.cmet.2016.08.020

Single-cell sequencing of the small-RNA transcriptome

Author(s): Omid R Faridani, Ilgar Abdullayev, Michael Hagemann-Jensen, John P Schell, Fredrik Lanner, Rickard Sandberg
Published in: Nature Biotechnology, Issue 34/12, 2016, Page(s) 1264-1266, ISSN 1087-0156
Publisher: Nature Publishing Group
DOI: 10.1038/nbt.3701

Analysis of allelic expression patterns in clonal somatic cells by single-cell RNA–seq

Author(s): Björn Reinius, Jeff E Mold, Daniel Ramsköld, Qiaolin Deng, Per Johnsson, Jakob Michaëlsson, Jonas Frisén, Rickard Sandberg
Published in: Nature Genetics, Issue 48/11, 2016, Page(s) 1430-1435, ISSN 1061-4036
Publisher: Nature Publishing Group
DOI: 10.1038/ng.3678

Random monoallelic expression of autosomal genes: stochastic transcription and allele-level regulation

Author(s): Björn Reinius, Rickard Sandberg
Published in: Nature Reviews Genetics, Issue 16/11, 2015, Page(s) 653-664, ISSN 1471-0056
Publisher: Nature Publishing Group
DOI: 10.1038/nrg3888

Single-Cell RNA-Seq Reveals Lineage and X Chromosome Dynamics in Human Preimplantation Embryos

Author(s): Sophie Petropoulos, Daniel Edsgärd, Björn Reinius, Qiaolin Deng, Sarita Pauliina Panula, Simone Codeluppi, Alvaro Plaza Reyes, Sten Linnarsson, Rickard Sandberg, Fredrik Lanner
Published in: Cell, Issue 165/4, 2016, Page(s) 1012-1026, ISSN 0092-8674
Publisher: Cell Press
DOI: 10.1016/j.cell.2016.03.023

scphaser: haplotype inference using single-cell RNA-seq data

Author(s): Daniel Edsgärd, Björn Reinius, Rickard Sandberg
Published in: Bioinformatics, Issue 32/19, 2016, Page(s) 3038-3040, ISSN 1367-4803
Publisher: Oxford University Press
DOI: 10.1093/bioinformatics/btw484

Identification of spatial expression trends in single-cell gene expression data

Author(s): Daniel Edsgärd, Per Johnsson, Rickard Sandberg
Published in: Nature Methods, Issue 15/5, 2018, Page(s) 339-342, ISSN 1548-7091
Publisher: Nature Publishing Group
DOI: 10.1038/nmeth.4634