Publications by authors named "Sarah A Teichmann"

100Publications

Single-Cell Sequencing of Developing Human Gut Reveals Transcriptional Links to Childhood Crohn's Disease.

Dev Cell 2020 Dec 7;55(6):771-783.e5. Epub 2020 Dec 7.

Wellcome Trust, MRC Cambridge Stem Cell Institute, University of Cambridge, Cambridge CB2 0SZ, UK; Department of Paediatrics, University of Cambridge, Cambridge CB2 0QQ, UK; Department of Paediatric Gastroenterology, Hepatology and Nutrition, Cambridge University Hospitals Trust, Cambridge CB2 0QQ, UK. Electronic address:

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December 2020

Gene signatures from scRNA-seq accurately quantify mast cells in biopsies in asthma.

Clin Exp Allergy 2020 Dec 23;50(12):1428-1431. Epub 2020 Sep 23.

Department of Pulmonology, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands.

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December 2020

Single cell transcriptomics comes of age.

Nat Commun 2020 08 27;11(1):4307. Epub 2020 Aug 27.

Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, CB1 1SA, UK.

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August 2020

Single-Cell RNA Sequencing Reveals a Dynamic Stromal Niche That Supports Tumor Growth.

Cell Rep 2020 05;31(7):107628

Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SA, UK; Cavendish Laboratory, University of Cambridge, JJ Thomson Ave, Cambridge CB3 0HE, UK. Electronic address:

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May 2020

Putative cell type discovery from single-cell gene expression data.

Nat Methods 2020 06 18;17(6):621-628. Epub 2020 May 18.

Wellcome Sanger Institute, Wellcome Genome Campus, Cambridge, United Kingdom.

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June 2020

Prenatal development of human immunity.

Science 2020 05;368(6491):600-603

Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SA, UK.

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May 2020

Cell Atlas technologies and insights into tissue architecture.

Biochem J 2020 04;477(8):1427-1442

Wellcome Sanger Institute, Cambridge, U.K.

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April 2020

Suppresses Immunity to Infection through Promoting Expression of Maf and IL-10 in Th Cells.

J Immunol 2020 Jun 22;204(11):2949-2960. Epub 2020 Apr 22.

York Biomedical Research Institute, University of York, York, YO10 5DD Yorkshire, United Kingdom;

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June 2020

Integrated scRNA-Seq Identifies Human Postnatal Thymus Seeding Progenitors and Regulatory Dynamics of Differentiating Immature Thymocytes.

Immunity 2020 Jun 17;52(6):1088-1104.e6. Epub 2020 Apr 17.

Faculty of Medicine and Health Sciences, Department of Diagnostic Sciences, Ghent University, C. Heymanslaan 10, MRB2, Entrance 38, 9000 Ghent, Belgium; Cancer Research Institute Ghent (CRIG), Ghent University, Ghent, Belgium. Electronic address:

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June 2020

CellPhoneDB: inferring cell-cell communication from combined expression of multi-subunit ligand-receptor complexes.

Nat Protoc 2020 04 26;15(4):1484-1506. Epub 2020 Feb 26.

Wellcome Sanger Institute, Wellcome Genome Campus, Cambridge, UK.

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April 2020

Immunology in the Era of Single-Cell Technologies.

Annu Rev Immunol 2020 04 19;38:727-757. Epub 2020 Feb 19.

Wellcome Sanger Institute, Hinxton, Cambridgeshire CB10 1SA, United Kingdom; email:

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April 2020

Nasal DNA methylation profiling of asthma and rhinitis.

J Allergy Clin Immunol 2020 Jun 14;145(6):1655-1663. Epub 2020 Jan 14.

Department of Pediatric Pulmonology and Pediatric Allergy, Beatrix Children's Hospital, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands; Gronigen Research Institute for Asthma and COPD, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands. Electronic address:

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June 2020

Computational methods for single-cell omics across modalities.

Nat Methods 2020 01;17(1):14-17

Wellcome Sanger Institute, Wellcome Genome Campus, Cambridge, UK.

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January 2020

Re-evaluation of human BDCA-2+ DC during acute sterile skin inflammation.

J Exp Med 2020 03;217(3)

Medical Research Council Human Immunology Unit, Radcliffe Department of Medicine, Oxford National Institute for Health Research Biomedical Research Centre, Medical Research Council Weatherall Institute of Molecular Medicine, University of Oxford, Oxford, UK.

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March 2020

Deciphering immunity at high plexity and resolution.

Nat Rev Immunol 2020 02;20(2):77-78

Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.

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February 2020

Immunology Driven by Large-Scale Single-Cell Sequencing.

Trends Immunol 2019 11 20;40(11):1011-1021. Epub 2019 Oct 20.

Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, UK; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, UK.

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November 2019

BBKNN: fast batch alignment of single cell transcriptomes.

Bioinformatics 2020 02;36(3):964-965

Cellular Genetics, Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK.

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February 2020

In conversation with Sarah Teichmann.

FEBS J 2019 04;286(8):1445-1450

Wellcome Sanger Institute, Hinxton, UK.

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April 2019

Single-Cell Transcriptomics of Regulatory T Cells Reveals Trajectories of Tissue Adaptation.

Immunity 2019 02 5;50(2):493-504.e7. Epub 2019 Feb 5.

Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, UK; Theory of Condensed Matter, Cavendish Laboratory, Department of Physics, University of Cambridge, Cambridge, UK; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, UK. Electronic address:

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February 2019

Genome-wide CRISPR Screens in T Helper Cells Reveal Pervasive Crosstalk between Activation and Differentiation.

Cell 2019 02 10;176(4):882-896.e18. Epub 2019 Jan 10.

Wellcome Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK; EMBL-European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK; Theory of Condensed Matter, Cavendish Laboratory, 19 JJ Thomson Ave, Cambridge CB3 0HE, UK. Electronic address:

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February 2019

A test metric for assessing single-cell RNA-seq batch correction.

Nat Methods 2019 01 20;16(1):43-49. Epub 2018 Dec 20.

Helmholtz Zentrum München-German Research Center for Environmental Health, Institute of Computational Biology, Neuherberg, Germany.

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January 2019

A rapid and robust method for single cell chromatin accessibility profiling.

Nat Commun 2018 12 17;9(1):5345. Epub 2018 Dec 17.

Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SA, UK.

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December 2018

Editorial overview: Sequences and topology: Dynamic sequences and topologies of proteins.

Curr Opin Struct Biol 2018 06;50:vii-viii

Wellcome Trust Sanger Institute, Wellcome Genome Campus, Cambridge CB10 1SA, UK. Electronic address:

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June 2018

SpatialDE: identification of spatially variable genes.

Nat Methods 2018 05 19;15(5):343-346. Epub 2018 Mar 19.

European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, UK.

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May 2018

Exponential scaling of single-cell RNA-seq in the past decade.

Nat Protoc 2018 04 1;13(4):599-604. Epub 2018 Mar 1.

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Hinxton, Cambridge, UK.

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April 2018

Mapping human development at single-cell resolution.

Development 2018 02 8;145(3). Epub 2018 Feb 8.

Institute of Cellular Medicine, Newcastle University, Newcastle upon Tyne NE2 4HH, UK

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February 2018

Single-cell transcriptomics to explore the immune system in health and disease.

Science 2017 10;358(6359):58-63

Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SA, UK.

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October 2017

A practical guide to single-cell RNA-sequencing for biomedical research and clinical applications.

Genome Med 2017 08 18;9(1):75. Epub 2017 Aug 18.

Turku Centre for Biotechnology, University of Turku and Åbo Akademi University, FI-20520, Turku, Finland.

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August 2017

Circulating and Tissue-Resident CD4 T Cells With Reactivity to Intestinal Microbiota Are Abundant in Healthy Individuals and Function Is Altered During Inflammation.

Gastroenterology 2017 11 4;153(5):1320-1337.e16. Epub 2017 Aug 4.

Translational Gastroenterology Unit, Nuffield Department of Clinical Medicine, Experimental Medicine Division, John Radcliffe Hospital, University of Oxford, United Kingdom; Kennedy Institute of Rheumatology, Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, University of Oxford, United Kingdom. Electronic address:

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November 2017

Single cell transcriptomics of pluripotent stem cells: reprogramming and differentiation.

Curr Opin Genet Dev 2017 Oct 1;46:66-76. Epub 2017 Jul 1.

Wellcome Trust Sanger Institute, Wellcome Genome Campus, Cambridge, UK; European Bioinformatics Institute, Wellcome Genome Campus, Cambridge, UK.

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October 2017

Flipping between Polycomb repressed and active transcriptional states introduces noise in gene expression.

Nat Commun 2017 06 26;8(1):36. Epub 2017 Jun 26.

European Molecular Biology Laboratory-European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.

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June 2017

Computational approaches for interpreting scRNA-seq data.

FEBS Lett 2017 08 12;591(15):2213-2225. Epub 2017 Jun 12.

The European Bioinformatics Institute (EMBL-EBI), Cambridge, UK.

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August 2017

Wounding induces dedifferentiation of epidermal Gata6 cells and acquisition of stem cell properties.

Nat Cell Biol 2017 Jun 15;19(6):603-613. Epub 2017 May 15.

King's College London Centre for Stem Cells and Regenerative Medicine, 28th Floor, Tower Wing, Guy's Campus, Great Maze Pond, London SE1 9RT, UK.

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June 2017

Are cells from a snowman realistic? Cryopreserved tissues as a source for single-cell RNA-sequencing experiments.

Genome Biol 2017 03 24;18(1):54. Epub 2017 Mar 24.

Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SA, UK.

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March 2017

Power analysis of single-cell RNA-sequencing experiments.

Nat Methods 2017 Apr 6;14(4):381-387. Epub 2017 Mar 6.

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.

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April 2017

Intrinsic transcriptional heterogeneity in B cells controls early class switching to IgE.

J Exp Med 2017 01 19;214(1):183-196. Epub 2016 Dec 19.

Medical Research Council Laboratory of Molecular Biology, Cambridge CB2 0QH, England, UK

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January 2017

Regulation, evolution and consequences of cotranslational protein complex assembly.

Curr Opin Struct Biol 2017 02 12;42:90-97. Epub 2016 Dec 12.

MRC Human Genetics Unit, Institute of Genetics and Molecular Medicine, University of Edinburgh, Edinburgh EH4 2XU, UK. Electronic address:

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February 2017

MERVL/Zscan4 Network Activation Results in Transient Genome-wide DNA Demethylation of mESCs.

Cell Rep 2016 09;17(1):179-192

Epigenetics Programme, Babraham Institute, Cambridge CB22 3AT, UK; Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SA, UK. Electronic address:

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September 2016

Data on publications, structural analyses, and queries used to build and utilize the AlloRep database.

Data Brief 2016 Sep 9;8:948-57. Epub 2016 Jul 9.

The Department of Biochemistry and Molecular Biology, The University of Kansas Medical Center, Kansas City, KS 66160, USA.

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September 2016

Genetics and immunity in the era of single-cell genomics.

Hum Mol Genet 2016 Oct 12;25(R2):R141-R148. Epub 2016 Jul 12.

Wellcome Trust Sanger Institute

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October 2016

Single-cell genomics: coming of age.

Genome Biol 2016 May 10;17:97. Epub 2016 May 10.

Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, CB10 1SD, UK.

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May 2016

T cell fate and clonality inference from single-cell transcriptomes.

Nat Methods 2016 Apr 7;13(4):329-332. Epub 2016 Mar 7.

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Cambridge, UK.

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April 2016

Classification of low quality cells from single-cell RNA-seq data.

Genome Biol 2016 Feb 17;17:29. Epub 2016 Feb 17.

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.

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February 2016

Single-Cell RNA-Sequencing Reveals a Continuous Spectrum of Differentiation in Hematopoietic Cells.

Cell Rep 2016 Feb 21;14(4):966-977. Epub 2016 Jan 21.

Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1HH, UK; Department of Haematology, University of Cambridge, Cambridge CB2 0PT, UK; Wellcome Trust - Medical Research Council Cambridge Stem Cell Institute, Cambridge CB2 1QR, UK. Electronic address:

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February 2016

Principles of assembly reveal a periodic table of protein complexes.

Science 2015 Dec;350(6266):aaa2245

Theory of Condensed Matter Group, Cavendish Laboratory, University of Cambridge, JJ Thomson Avenue, Cambridge CB3 0HE, UK. European Molecular Biology Laboratory-European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK. Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK.

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December 2015

Characterizing noise structure in single-cell RNA-seq distinguishes genuine from technical stochastic allelic expression.

Nat Commun 2015 Oct 22;6:8687. Epub 2015 Oct 22.

European Molecular Biology Laboratory-European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Cambridge CB10 1SD, UK.

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October 2015

Single Cell RNA-Sequencing of Pluripotent States Unlocks Modular Transcriptional Variation.

Cell Stem Cell 2015 Oct;17(4):471-85

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK; Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK. Electronic address:

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October 2015

AlloRep: A Repository of Sequence, Structural and Mutagenesis Data for the LacI/GalR Transcription Regulators.

J Mol Biol 2016 Feb 25;428(4):671-678. Epub 2015 Sep 25.

Department of Biochemistry and Molecular Biology, University of Kansas Medical Center, Kansas City, KS 66160, USA. Electronic address:

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February 2016

Computational assignment of cell-cycle stage from single-cell transcriptome data.

Methods 2015 Sep 2;85:54-61. Epub 2015 Jul 2.

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK; Institute of Computational Biology, Helmholtz Zentrum München, Ingolstädter Landstr. 1, 85764 Neuherberg, Germany. Electronic address:

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September 2015

The technology and biology of single-cell RNA sequencing.

Mol Cell 2015 May;58(4):610-20

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK; Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK. Electronic address:

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May 2015

An atlas of mouse CD4(+) T cell transcriptomes.

Biol Direct 2015 Apr 3;10:14. Epub 2015 Apr 3.

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.

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April 2015

Structural and evolutionary versatility in protein complexes with uneven stoichiometry.

Nat Commun 2015 Mar 16;6:6394. Epub 2015 Mar 16.

1] European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK [2] Theory of Condensed Matter, Cavendish Laboratory, University of Cambridge, JJ Thomson Avenue, Cambridge CB3 0HE, UK [3] Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK.

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March 2015

Computational and analytical challenges in single-cell transcriptomics.

Nat Rev Genet 2015 Mar 28;16(3):133-45. Epub 2015 Jan 28.

1] European Molecular Biology Laboratory European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. [2] Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK.

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March 2015

Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells.

Nat Biotechnol 2015 Feb 19;33(2):155-60. Epub 2015 Jan 19.

European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.

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February 2015

Structure, dynamics, assembly, and evolution of protein complexes.

Annu Rev Biochem 2015 8;84:551-75. Epub 2014 Dec 8.

Medical Research Council Human Genetics Unit, Institute of Genetics and Molecular Medicine, University of Edinburgh, Western General Hospital, Edinburgh EH4 2XU, United Kingdom; email:

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December 2015