Teichmann Group | Gene expression genomics

Teichmann Group | Gene expression genomics

Teichmann Group

teichman_faculty_9.jpgSanger Institute, Genome Research Limited
Teichmann Group

Our Research and Approach

Our group seeks to elucidate the principles of protein structure evolution, higher order protein structure and protein folding, and the principles underlying protein complex formation and organization. We have a longstanding interest in understanding gene expression regulation, and in our wetlab at the Sanger Institute use mouse T helper cells as a model of cell differentiation.

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Dr Sarah Teichmann, FMedSci
Group Leader

Sarah's research uses genomic approaches to study global regulation of gene expression in the mouse immune system.

Andrew, Tracey

Andrew, Tracey
Tracey Andrew
Executive Administrator Human Cell Atlas
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Key Projects, Collaborations, Tools & Data

Research Programmes

Partners and Funders

Internal Partners


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

    Kolodziejczyk AA, Kim JK, Tsang JC, Ilicic T, Henriksson J et al.

    Cell stem cell 2015;17;4;471-85

  • Evolution of oligomeric state through allosteric pathways that mimic ligand binding.

    Perica T, Kondo Y, Tiwari SP, McLaughlin SH, Kemplen KR et al.

    Science (New York, N.Y.) 2014;346;6216;1254346

  • Single-cell RNA sequencing reveals T helper cells synthesizing steroids de novo to contribute to immune homeostasis.

    Mahata B, Zhang X, Kolodziejczyk AA, Proserpio V, Haim-Vilmovsky L et al.

    Cell reports 2014;7;4;1130-42

  • DNA sequence preferences of transcriptional activators correlate more strongly than repressors with nucleosomes.

    Charoensawan V, Janga SC, Bulyk ML, Babu MM and Teichmann SA

    Molecular cell 2012;47;2;183-92

  • EpiChIP: gene-by-gene quantification of epigenetic modification levels.

    Hebenstreit D, Gu M, Haider S, Turner DJ, Liò P and Teichmann SA

    Nucleic acids research 2011;39;5;e27

  • RNA sequencing reveals two major classes of gene expression levels in metazoan cells.

    Hebenstreit D, Fang M, Gu M, Charoensawan V, van Oudenaarden A and Teichmann SA

    Molecular systems biology 2011;7;497

  • The impact of gene expression regulation on evolution of extracellular signaling pathways.

    Charoensawan V, Adryan B, Martin S, Söllner C, Thisse B et al.

    Molecular & cellular proteomics : MCP 2010;9;12;2666-77

  • Assembly reflects evolution of protein complexes.

    Levy ED, Boeri Erba E, Robinson CV and Teichmann SA

    Nature 2008;453;7199;1262-5

  • DBD--taxonomically broad transcription factor predictions: new content and functionality.

    Wilson D, Charoensawan V, Kummerfeld SK and Teichmann SA

    Nucleic acids research 2008;36;Database issue;D88-92

  • Gene regulatory network growth by duplication.

    Teichmann SA and Babu MM

    Nature genetics 2004;36;5;492-6

  • Domain combinations in archaeal, eubacterial and eukaryotic proteomes.

    Apic G, Gough J and Teichmann SA

    Journal of molecular biology 2001;310;2;311-25

  • Advances in structural genomics.

    Teichmann SA, Chothia C and Gerstein M

    Current opinion in structural biology 1999;9;3;390-9

  • Structural assignments to the Mycoplasma genitalium proteins show extensive gene duplications and domain rearrangements.

    Teichmann SA, Park J and Chothia C

    Proceedings of the National Academy of Sciences of the United States of America 1998;95;25;14658-63

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

    Svensson V, Vento-Tormo R and Teichmann SA

    Nature protocols 2018;13;4;599-604

  • SpatialDE: identification of spatially variable genes.

    Svensson V, Teichmann SA and Stegle O

    Nature methods 2018

  • Cotranslational protein assembly imposes evolutionary constraints on homomeric proteins.

    Natan E, Endoh T, Haim-Vilmovsky L, Flock T, Chalancon G et al.

    Nature structural & molecular biology 2018

  • Mapping human development at single-cell resolution.

    Behjati S, Lindsay S, Teichmann SA and Haniffa M

    Development (Cambridge, England) 2018;145;3

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

    Hegazy AN, West NR, Stubbington MJT, Wendt E, Suijker KIM et al.

    Gastroenterology 2017;153;5;1320-1337.e16

  • Establishment of mouse expanded potential stem cells.

    Yang J, Ryan DJ, Wang W, Tsang JC, Lan G et al.

    Nature 2017;550;7676;393-397

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

    Natarajan KN, Teichmann SA and Kolodziejczyk AA

    Current opinion in genetics & development 2017;46;66-76

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

    Haque A, Engel J, Teichmann SA and Lönnberg T

    Genome medicine 2017;9;1;75

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

    Kar G, Kim JK, Kolodziejczyk AA, Natarajan KN, Torlai Triglia E et al.

    Nature communications 2017;8;1;36

  • Computational approaches for interpreting scRNA-seq data.

    Rostom R, Svensson V, Teichmann SA and Kar G

    FEBS letters 2017

  • Wounding induces dedifferentiation of epidermal Gata6(+) cells and acquisition of stem cell properties.

    Donati G, Rognoni E, Hiratsuka T, Liakath-Ali K, Hoste E et al.

    Nature cell biology 2017

  • Aging increases cell-to-cell transcriptional variability upon immune stimulation.

    Martinez-Jimenez CP, Eling N, Chen HC, Vallejos CA, Kolodziejczyk AA et al.

    Science (New York, N.Y.) 2017;355;6332;1433-1436

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

    Vieira Braga FA, Teichmann SA and Stubbington MJ

    Genome biology 2017;18;1;54

  • Power analysis of single-cell RNA-sequencing experiments.

    Svensson V, Natarajan KN, Ly LH, Miragaia RJ, Labalette C et al.

    Nature methods 2017

  • Single-cell RNA-seq and computational analysis using temporal mixture modelling resolves Th1/Tfh fate bifurcation in malaria.

    Lönnberg T, Svensson V, James KR, Fernandez-Ruiz D, Sebina I et al.

    Science immunology 2017;2;9

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

    Wu YL, Stubbington MJ, Daly M, Teichmann SA and Rada C

    The Journal of experimental medicine 2017;214;1;183-196

  • Regulation, evolution and consequences of cotranslational protein complex assembly.

    Natan E, Wells JN, Teichmann SA and Marsh JA

    Current opinion in structural biology 2016;42;90-97

  • Single-cell analysis at the threshold.

    Chen X, Love JC, Navin NE, Pachter L, Stubbington MJ et al.

    Nature biotechnology 2016;34;11;1111-1118

  • Single-cell RNA-seq identifies a PD-1<sup>hi</sup> ILC progenitor and defines its development pathway.

    Yu Y, Tsang JC, Wang C, Clare S, Wang J et al.

    Nature 2016;539;7627;102-106

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

    Eckersley-Maslin MA, Svensson V, Krueger C, Stubbs TM, Giehr P et al.

    Cell reports 2016;17;1;179-92

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

    Sousa FL, Parente DJ, Hessman JA, Chazelle A, Teichmann SA and Swint-Kruse L

    Data in brief 2016;8;948-57

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

    Vieira Braga FA, Teichmann SA and Chen X

    Human molecular genetics 2016

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

    Stubbington MJT, Lönnberg T, Proserpio V, Clare S, Speak AO et al.

    Nature methods 2016;13;4;329-332

  • Voices of biotech.

    Amit I, Baker D, Barker R, Berger B, Bertozzi C et al.

    Nature biotechnology 2016;34;3;270-5

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

    Sousa FL, Parente DJ, Shis DL, Hessman JA, Chazelle A et al.

    Journal of molecular biology 2016;428;4;671-8

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

    Ilicic T, Kim JK, Kolodziejczyk AA, Bagger FO, McCarthy DJ et al.

    Genome biology 2016;17;29

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

    Macaulay IC, Svensson V, Labalette C, Ferreira L, Hamey F et al.

    Cell reports 2016;14;4;966-977

  • Principles of assembly reveal a periodic table of protein complexes.

    Ahnert SE, Marsh JA, Hernández H, Robinson CV and Teichmann SA

    Science (New York, N.Y.) 2015;350;6266;aaa2245

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

    Kolodziejczyk AA, Kim JK, Tsang JC, Ilicic T, Henriksson J et al.

    Cell stem cell 2015;17;4;471-85

  • Single-cell transcriptomic reconstruction reveals cell cycle and multi-lineage differentiation defects in Bcl11a-deficient hematopoietic stem cells.

    Tsang JC, Yu Y, Burke S, Buettner F, Wang C et al.

    Genome biology 2015;16;178

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

    Scialdone A, Natarajan KN, Saraiva LR, Proserpio V, Teichmann SA et al.

    Methods (San Diego, Calif.) 2015;85;54-61

  • Structural and evolutionary versatility in protein complexes with uneven stoichiometry.

    Marsh JA, Rees HA, Ahnert SE and Teichmann SA

    Nature communications 2015;6;6394

  • Computational and analytical challenges in single-cell transcriptomics.

    Stegle O, Teichmann SA and Marioni JC

    Nature reviews. Genetics 2015;16;3;133-45

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

    Buettner F, Natarajan KN, Casale FP, Proserpio V, Scialdone A et al.

    Nature biotechnology 2015;33;2;155-60

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

    Marsh JA and Teichmann SA

    Annual review of biochemistry 2015;84;551-75

  • Single-cell RNA sequencing reveals T helper cells synthesizing steroids de novo to contribute to immune homeostasis.

    Mahata B, Zhang X, Kolodziejczyk AA, Proserpio V, Haim-Vilmovsky L et al.

    Cell reports 2014;7;4;1130-42

  • Parallel dynamics and evolution: Protein conformational fluctuations and assembly reflect evolutionary changes in sequence and structure.

    Marsh JA and Teichmann SA

    BioEssays : news and reviews in molecular, cellular and developmental biology 2014;36;2;209-18