Papers in bold were led or co-led by members of the Teschendorff lab. This is a selected list of papers. For full up-to-date list, please check pubmed or google-scholar.

2023
A meta-analysis of immune-cell fractions at high resolution reveals novel associations with common phenotypes and health outcomes

Luo Q, Dwaraka VB, Chen Q, Tong H, Zhu T, Seale K, Raffaele JM, Zheng SC, Mendez TL, Chen Y, Carreras N, Begum S, Mendez K, Voisin S, Eynon N, Lasky-Su JA, Smith R, Teschendorff AE

Genome Medicine 2023

Cell-attribute aware community detection improves differential abundance testing from single-cell RNA-Seq data

Alok K Maity, Andrew E Teschendorff

Nature Communications 2023

2022
Inference of age-associated transcription factor regulatory activity changes in single cells

Alok K Maity, Xue Hu, Tianyu Zhu, Andrew E Teschendorff

Nature Aging 2022

Computational identification of preneoplastic cells displaying high stemness and risk of cancer progression

Liu T, Zhao X, Lin Y, Luo Q, Zhang S, Xi Y, Chen Y, Lin L, Fan W, Yang J, Ma Y, Maity AK, Huang Y, Wang J, Chang J, Lin D, Teschendorff AE, Wu C.

Cancer Research 2022, May 10th

Making sense of the ageing methylome

Kirsten Seale, Steve Horvath, Andrew Teschendorff, Nir Eynon, Sarah Voisin

Nat Rev Genet 2022

A pan-tissue DNA methylation atlas enables in silico decomposition of human tissue methylomes at cell-type resolution

Tianyu Zhu, Jacklyn Liu, Stephan Beck, Sun Pan, David Capper, Matt Lechner, Chrissie Thirlwell, Charles E Breeze, Andrew E Teschendorff

Nature Methods 2022, vol.19, pages296–306

Cell-type heterogeneity: Why we should adjust for it in epigenome and biomarker studies

Luo Qi, Andrew E Teschendorff

Clinical Epigenetics 2022, vo.14, Article number: 31

Novel epigenetic network biomarkers for early detection of esophageal cancer

Alok K. Maity, Timothy C. Stone, Vanessa Ward, Amy P. Webster, Zhen Yang, Aine Hogan, Hazel McBain, Margaraet Duku, Kai Man Alexander Ho, Paul Wolfson, David G. Graham, SPIT Study Group, Stephan Beck, Andrew E. Teschendorff & Laurence B. Lovat

Clinical Epigenetics 2022

Distance covariance entropy reveals primed states and bifurcation dynamics in single-cell RNA-Seq data

Qi Luo, Alok K. Maity, Andrew E. Teschendorff

iScience 2022

2021
A comparison of epithelial cell content of oral samples estimated using cytology and DNA methylation

Yen Ting Wong，Michael A Tayeb，Timothy C. Stone，Laurence B. Lovat，Andrew E. Teschendorff，Rafal Iwasiow，Jeffrey M Craig

Epigenetics 2021 Jul 13

Pan-cancer characterization of long non-coding RNA and DNA methylation mediated transcriptional dysregulation

Zhen Yang, Feng Xu, Haizhou Wang, Andrew E Teschendorff, Feng Xie, Yungang He

EBioMedicine 2021 May 24

Statistical mechanics meets single-cell biology

Andrew E Teschendorff, Andrew P. Feinberg

Nat Rev Genet 2021

2020
Ultra-fast scalable estimation of single-cell differentiation potency from scRNA-Seq data

Andrew E Teschendorff, Alok K Maity, Xue Hu, Chen Weiyan, Matthias Lechner.

BIOINFORMATICS 2020

A cell-type deconvolution meta-analysis of whole blood EWAS reveals lineage-specific smoking-associated DNA methylation changes

Chenglong You, Sijie Wu, Shijie C. Zheng, Tianyu Zhu, Han Jing, Ken Flagg, Guangyu Wang, Li Jin, Sijia Wang, Andrew E. Teschendorff.

Nature Communications 2020

EPISCORE: cell type deconvolution of bulk tissue DNA methylomes from single-cell RNA-Seq data

Andrew E. Teschendorff,Tianyu Zhu,Charles E. Breeze,Stephan Beck.

Genome Biology 2020

A comparison of epigenetic mitotic-like clocks for cancer risk prediction

Andrew E. Teschendorff

Genome Medicine 2020

2019
DNA methylation aging clocks: challenges and recommendations

Christopher G. Bell, Robert Lowe, Peter D. Adams, Andrea A. Baccarelli, Stephan Beck, Jordana T. Bell, Brock C. Christensen, Vadim N. Gladyshev, Bastiaan T. Heijmans, Steve Horvath, Trey Ideker, Jean-Pierre J. Issa, Karl T. Kelsey, Riccardo E. Marioni, Wolf Reik, Caroline L. Relton, Leonard C. Schalkwyk, Andrew E. Teschendorff, Wolfgang Wagner, Kang Zhang & Vardhman K. Rakyan.

Genome Biology 2019

EpiDISH web server: Epigenetic Dissection of Intra-Sample-Heterogeneity with online GUI

Zheng SC, Breeze CE, Beck S, Dong D, Zhu T, Ma L, Ye W, Zhang G, Teschendorff AE

Bioinformatics 2019

Appraising the causal relevance of DNA methylation for risk of lung cancer

Battram T, Richmond RC, Baglietto L, Haycock PC, Perduca V, Bojesen SE, Gaunt TR, Hemani G, Guida F, Carreras-Torres R, Hung R, Amos CI, Freeman JR, Sandanger TM, Nøst TH, Nordestgaard BG, Teschendorff AE, Polidoro S, Vineis P, Severi G, Hodge AM, Giles GG, Grankvist K, Johansson MB, Johansson M, Davey Smith G, Relton CL.

International Journal of Epidemiology 2019 Sep 24

Single-cell landscape in mammary epithelium reveals bipotent-like cells associated with breast cancer risk and outcome

Chen W, Morabito SJ, Kessenbrock K, Enver T, Meyer KB, Teschendorff AE.

Communications Biology 2019

eFORGE v2.0: updated analysis of cell type-specific signal in epigenomic data

Breeze CE, Reynolds AP, van Dongen J, Dunham I, Lazar J, Neph S, Vierstra J, Bourque G, Teschendorff AE, Stamatoyannopoulos JA, Beck S.

Bioinformatics 2019

Avoiding common pitfalls in machine learning omic data science

Teschendorff AE.

Nat Materials 2019

Estimating Differentiation Potency of Single Cells Using Single-Cell Entropy (SCENT)

Chen W, Teschendorff AE.

Methods Mol Biol 2019

ebGSEA: An improved Gene Set Enrichment Analysis method for Epigenome-Wide-Association Studies the article

Dong D, Tian Y, Zheng SC, Teschendorff AE.

Bioinformatics 2019 January 31

Accounting for differential variability in detecting differentially methylated regions

Wang Y, Teschendorff AE, Widschwendter M, Wang S.

Brief Bioinform 2019 January 18

Detection of epigenetic field defects using a weighted epigenetic distance-based method

Wang Y, Qian M, Ruan P, Teschendorff AE, Wang S.

Nucleic Acids Res 2019 January 10

2018
Identification of differentially methylated cell types in epigenome-wide association studies

Zheng SC, Breeze CE, Beck S, Teschendorff AE.

Nat Methods 2018 Nov 30

Cell and tissue type independent age-associated DNA methylation changes are not rare but common

Zhu T, Zheng SC, Paul DS, Horvath S, Teschendorff AE.

Aging (Albany NY) 2018 Nov 27

Quantifying Waddington's epigenetic landscape: a comparison of single-cell potency measures

Shi J, Teschendorff AE, Chen W, Chen L, Li T.

Brief Bioinform 2018 Oct 5

Epigenetic clocks galore: a new improved clock predicts age-acceleration in Hutchinson Gilford Progeria Syndrome patients

Teschendorff AE.

Aging (Albany NY) 2018 Aug 21

A novel cell-type deconvolution algorithm reveals substantial contamination by immune cells in saliva, buccal and cervix

Zheng SC, Webster AP, Dong D, Feber A, Graham DG, Sullivan R, Jevons S, Lovat LB, Beck S, Widschwendter M, Teschendorff AE.

Epigenomics 2018 Jul

Tensorial blind source separation for improved analysis of multi-omic data

Teschendorff AE*, Jing H*, Paul DS, Virta J, Nordhausen K.

Genome Biol 2018 Jun 8

DNA Methylation Patterns in Normal Tissue Correlate more Strongly with Breast Cancer Status than Copy-Number Variants

Gao Y, Widschwendter M, Teschendorff AE.

EBioMedicine 2018 May

Statistical and integrative system-level analysis of DNA methylation data

Teschendorff AE, Relton CL.

Nat Rev Genet 2018 Mar

Roadmap for investigating epigenome deregulation and environmental origins of cancer

Herceg Z, Ghantous A, Wild CP, Sklias A, Casati L, Duthie SJ, Fry R, Issa JP, Kellermayer R, Koturbash I, Kondo Y, Lepeule J, Lima SCS, Marsit CJ, Rakyan V, Saffery R, Taylor JA, Teschendorff AE, Ushijima T, Vineis P, Walker CL, Waterland RA, Wiemels J, Ambatipudi S, Degli Esposti D, Hernandez-Vargas H.

Int J Cancer 2018 Mar 1

Tumor Origin Detection with Tissue-Specific miRNA and DNA methylation Markers

Tang W, Wan S, Yang Z, Teschendorff AE, Zou Q.

Bioinformatics 2018 Feb 1

2017
Systems-epigenomics inference of transcription factor activity implicates aryl-hydrocarbon-receptor inactivation as a key event in lung cancer development

Chen Y, Widschwendter M, Teschendorff AE. 2017 Dec 20

Genome Biol

The potential of circulating tumor DNA methylation analysis for the early detection and management of ovarian cancer

Widschwendter M, Zikan M, Wahl B, Lempiäinen H, Paprotka T, Evans I, Jones A, Ghazali S, Reisel D, Eichner J, Rujan T, Yang Z, Teschendorff AE, Ryan A, Cibula D, Menon U, Wittenberger T. 2017 Dec 22

Genome Med

Are objective measures of physical capability related to accelerated epigenetic age? Findings from a British birth cohort

Simpkin AJ, Cooper R, Howe LD, Relton CL, Davey Smith G, Teschendorff A, Widschwendter M, Wong A, Kuh D, Hardy R. 2017 Nov 1

BMJ Open

Cell-type deconvolution in epigenome-wide association studies: a review and recommendations

Teschendorff AE, Zheng SC. 2017 May

Epigenomics

DNA methylome analysis reveals distinct epigenetic patterns of ascending aortic dissection and bicuspid aortic valve

Pan S, Lai H, Shen Y, Breeze C, Beck S, Hong T, Wang C, Teschendorff AE. 2017 May 1

Cardiovasc Res

Aberrant regulation of RANKL/OPG in women at high risk of developing breast cancer

Kiechl S, Schramek D, Widschwendter M, Fourkala EO, Zaikin A, Jones A, Jaeger B, Rack B, Janni W, Scholz C, Willeit J, Weger S, Mayr A, Teschendorff A, Rosenthal A, Fraser L, Philpott S, Dubeau L, Keshtgar M, Roylance R, Jacobs IJ, Menon U, Schett G, Penninger JM. 2017 Jan 17

Oncotarget

ChAMP: Updated Methylation Analysis Pipeline for Illumina BeadChips

Yuan Tian, Tiffany J Morris, Amy P Webster, Zhen Yang, Stephan Beck, Andrew Feber, Andrew E Teschendorff. 2017

Bioinformatics

Single-cell entropy for accurate estimation of differentiation potency from a cell's transcriptome

Teschendorff AE, Enver T. 2017 Jun 1

Nat Commun

Correcting for cell-type heterogeneity in epigenome-wide association studies: revisiting previous analyses

Zheng SC, Beck S, Jaffe AE, Koestler DC, Hansen KD, Houseman AE, Irizarry RA, Teschendorff AE. 2017 Feb 28

Nat Methods

A comparison of reference-based algorithms for correcting cell-type heterogeneity in Epigenome-Wide Association Studies

Teschendorff AE, Breeze CE, Zheng SC, Beck S. 2017 Feb 13

BMC Bioinformatics

2016
dbDEMC 2.0: updated database of differentially expressed miRNAs in human cancers

Yang Z, Wu L, Wang A, Tang W, Zhao Y, Zhao H, Teschendorff AE. 2016 Nov 28

Nucleic Acids Res

Epigenetic and genetic deregulation in cancer target distinct signaling pathway domains

Gao Y, Teschendorff AE. 2016 Nov 29

Nucleic Acids Res

Increased DNA methylation variability in type 1 diabetes across three immune effector cell types

Paul DS, Teschendorff AE, Dang MA, Lowe R, Hawa MI, Ecker S, Beyan H,Cunningham S, Fouts AR, Ramelius A, Burden F, Farrow S, Rowlston S, Rehnstrom K,Frontini M, Downes K, Busche S, Cheung WA, Ge B, Simon MM, Bujold D, Kwan T, Bourque G, Datta A, Lowy E, Clarke L, Flicek P, Libertini E, Heath S, Gut M,Gut IG, Ouwehand WH, Pastinen T, Soranzo N, Hofer SE, Karges B, Meissner T, Boehm BO, Cilio C, Elding Larsson H, Lernmark Å, Steck AK, Rakyan VK, Beck S, Leslie RD. 2016 Nov 29

Nat Commun

eFORGE: A Tool for Identifying Cell Type-Specific Signal in Epigenomic Data

Breeze CE, Paul DS, van Dongen J, Butcher LM, Ambrose JC, Barrett JE, Lowe R, Rakyan VK, Iotchkova V, Frontini M, Downes K, Ouwehand WH, Laperle J, Jacques PÉ, Bourque G, Bergmann AK, Siebert R, Vellenga E, Saeed S, Matarese F, Martens JH, Stunnenberg HG, Teschendorff AE, Herrero J, Birney E, Dunham I, Beck S. 2016 Nov 15

Cell Rep

Correlation of an epigenetic mitotic clock with cancer risk

Yang Z, Wong A, Kuh D, Paul DS, Rakyan VK, Leslie RD, Zheng SC, Widschwendter M, Beck S, Teschendorff AE. 2016 Oct 3

Genome Biol

The lncRNA HOTAIR impacts on mesenchymal stem cells via triple helix formation

Marie Kalwa, Sonja Hänzelmann, Sabrina Otto, Chao-Chung Kuo, Julia Franzen, Sylvia Joussen, Eduardo Fernandez-Rebollo, Björn Rath, Carmen Koch, Andrea Hofmann, Shih-Han Lee, Andrew E.Teschendorff, Bernd Denecke, Qiong Lin, Martin Widschwendter, Elmar Weinhold, Ivan G.Costa, and Wolfgang Wagner. Nucleic Acids Res

Nucleic Acids Research

The multi-omic landscape of transcription factor inactivation in cancer

Teschendorff AE, Zheng SC, Feber A, Yang Z, Beck S, Widschwendter M. 2016 Aug 25

Genome Med

Menopause accelerates biological aging

Morgan E.Levine, Ake T.Lu, Brian H.Chen, Dena G.Hernandez, Andrew B.Singleton, Luigi Ferrucci, Stefania Bandinelli, Elias Salfati, JoAnn E.Manson, Austin Quach, Cynthia D.J.Kusters, Diana Kuh, Andrew Wong, Andrew E.Teschendorff, Martin Widschwendter, Beate R.Ritz, Devin Absher, Themistocles L.Assimes, and Steve Horvath. 2016 Aug

PNAS

DNA Methylation Signatures in Vaginal Fluid Samples for Detection of Cervical and Endometrial Cancer

Doufekas K, Zheng SC, Ghazali S, Wong M, Mohamed Y, Jones A, Reisel D, Mould T, Olaitan A, Macdonald N, Teschendorff AE, Widschwendter M. 2016 Jun 2

Int J Gynecol Cancer

Epigenetic drift, epigenetic clocks and cancer risk

Zheng SC, Widschwendter M, Teschendorff AE. 2016 Apr 22

Epigenomics

Stochastic epigenetic outliers can define field defects in cancer

Teschendorff AE, Jones A, Widschwendter M. 2016 Apr 22

BMC Bioinformatics

Tissue-independent and tissue-specific patterns of DNA methylation alteration in cancer

Chen Y, Breeze CE, Zhen S, Beck S, Teschendorff AE. 2016 Mar 8

Epigenetics Chromatin

DNA methylation outliers in normal breast tissue identify field defects that are enriched in cancer

Andrew E Teschendorff, Yang Gao, Allison Jones, Matthias Ruebner, Matthias W.Beckmann, David L.Wachter, Peter A.Fasching & Martin Widschwendter. 2016

Nature Communications

2015
The integrative epigenomic-transcriptomic landscape of ER positive breast cancer

Yang Gao, Allison Jones, Peter A Fasching, Matthias Ruebner, Matthias W Beckmann, Martin Widschwendter and Andrew E Teschendorff. 2015

Clinical Epigenetics

HOTAIR and its surrogate DNA methylation signature indicate carboplatin resistance in ovarian cancer

Teschendorff AE, Lee SH, Jones A, Fiegl H, Kalwa M, Wagner W, Chindera K,Evans I, Dubeau L, Orjalo A, Horlings HM, Niederreiter L, Kaser A, Yang W, Goode EL, Fridley BL, Jenner RG, Berns EM, Wik E, Salvesen HB, Wisman GB, van der Zee AG, Davidson B, Trope CG, Lambrechts S, Vergote I, Calvert H, Jacobs IJ, Widschwendter M. 2015 Oct 24

Genome Med

Expression profiling of nuclear receptors in breast cancer identifies TLX as a mediator of growth and invasion in triple-negative breast cancer

Lin ML, Patel H, Remenyi J, Banerji CR, Lai CF, Periyasamy M, Lombardo Y, Busonero C, Ottaviani S, Passey A, Quinlan PR, Purdie CA, Jordan LB, Thompson AM, Finn RS, Rueda OM, Caldas C, Gil J, Coombes RC, Fuller-Pace FV, Teschendorff AE, Buluwela L, Ali S. 2015 May 13

Oncotarget

Variational Bayesian Matrix Factorization for Bounded Support Data

Zhanyu Ma, Teschendorff AE, Leijon A, Yuanyuan Qiao, Honggang Zhang, Jun Guo. 2015 Apr

IEEE Trans Pattern Anal Mach Intell

Correlation of Smoking-Associated DNA Methylation Changes in Buccal Cells With DNA Methylation Changes in Epithelial Cancer

Teschendorff AE, Yang Z, Wong A, Pipinikas CP, Jiao Y, Jones A, Anjum S, Hardy R, Salvesen HB, Thirlwell C, Janes SM, Kuh D, Widschwendter M. 2015 Jul 1

JAMA Oncol

An integrative pan-cancer-wide analysis of epigenetic enzymes reveals universal patterns of epigenomic deregulation in cancer

Yang Z, Jones A, Widschwendter M, Teschendorff AE. 2015 Jul 14

Genome Biol

Increased signaling entropy in cancer requires the scale-free property of protein interaction networks

Teschendorff AE, Banerji CR, Severini S, Kuehn R, Sollich P. 2015 Apr 28

Sci Rep

Denoising perturbation signatures reveals an actionable AKT-signaling gene module underlying a poor clinical outcome in endocrine treated ER+ breast cancer

Teschendorff AE, Li L, Yang Z. 2015

Genome Biology

Intra-Tumour Signalling Entropy Determines Clinical Outcome in Breast and Lung Cancer

Banerji CR, Severini S, Caldas C, Teschendorff AE. 2015

PLoS Comput Biol

An Integrative Multi-scale Analysis of the Dynamic DNA Methylation Landscape in Aging

Yuan T, Jiao Y, de Jong S, Ophoff RA, Beck S, Teschendorff AE. 2015

PLoS Genet

β-Catenin is central to DUX4-driven network rewiring in facioscapulohumeral muscular dystrophy

Banerji CRS, Knopp P, Moyle LA, Severini S, Orrell RW, Teschendorff AE, Zammit PS. 2015 Jan 06

Journal of the Royal Society, Interface / the Royal Society

2014
Biomedical data integration, modeling, and simulation in the era of big data and translational medicine

Shen B, Teschendorff AE, Zhi D, Xia J. 2014 July 24

Biomed Res Int

A BRCA1-mutation associated DNA methylation signature in blood cells predicts sporadic breast cancer incidence and survival

Anjum S, Fourkala EO, Zikan M, Wong A, Gentry-Maharaj A, Jones A, Hardy R, Cibula D, Kuh D, Jacobs IJ, Teschendorff AE, Menon U, Widschwendter M. 2014 Jun 27

Genome Med

Data integration in the era of omics: current and future challenges

Gomez-Cabrero D, Abugessaisa I, Maier D, Teschendorff A, Merkenschlager M, Gisel A, Ballestar E, Bongcam-Rudloff E, Conesa A, Tegnér J. 2014 Mar 13

BMC Syst Biol

The dynamics of DNA methylation covariation patterns in carcinogenesis

Teschendorff AE, Liu X, Caren H, Pollard SM, Beck S, Widschwendter M, Chen L. 2014 Jul 10

PLoS Comput Biol

Comparisons of non-Gaussian statistical models in DNA methylation analysis

Ma Z, Teschendorff AE, Yu H, Taghia J, Guo J. 2014 Jun 16

Int J Mol Sci

A systems-level integrative framework for genome-wide DNA methylation and gene expression data identifies differential gene expression modules under epigenetic control

Jiao Y, Widschwendter M, Teschendorff AE. 2014 Aug 15

Bioinformatics

Genome-wide age-related changes in DNA methylation and gene expression in human PBMCs

Steegenga WT, Boekschoten MV, Lute C, Hooiveld GJ, de Groot PJ, Morris TJ, Teschendorff AE, Butcher LM, Beck S, Müller M. 2014 Jun

Age (Dordr)

Signalling entropy: A novel network-theoretical framework for systems analysis and interpretation of functional omic data

Teschendorff AE, Sollich P, Kuehn R. 2014 Jun 1

Methods

JAK2-centered interactome hotspot identified by an integrative network algorithm in acute Stanford type A aortic dissection

Pan S, Wu D, Teschendorff AE, Hong T, Wang L, Qian M, Wang C, Wang X. 2014 Feb 24

PLoS One

Using high-density DNA methylation arrays to profile copy number alterations

Feber A, Guilhamon P, Lechner M, Fenton T, Wilson GA, Thirlwell C, Morris TJ, Flanagan AM, Teschendorff AE, Kelly JD, Beck S. 2014 Feb 3

Genome Biol

ChAMP: 450k Chip Analysis Methylation Pipeline

Morris TJ, Butcher LM, Feber A, Teschendorff AE, Chakravarthy AR, Wojdacz TK, Beck S. 2014 Feb 1

Bioinformatics

2013
Role of DNA methylation and epigenetic silencing of HAND2 in endometrial cancer development

Jones A, Teschendorff AE, Li Q, Hayward JD, Kannan A, Mould T, West J, Zikan M, Cibula D, Fiegl H, Lee SH, Wik E, Hadwin R, Arora R, Lemech C, Turunen H, Pakarinen P, Jacobs IJ, Salvesen HB, Bagchi MK, Bagchi IC, Widschwendter M. 2013 Nov

PLoS Med

Cellular network entropy as the energy potential in Waddington's differentiation landscape

Banerji CR, Miranda-Saavedra D, Severini S, Widschwendter M, Enver T, Zhou JX, Teschendorff AE. 2013 Oct 24

Sci Rep

Epigenetic aging: insights from network biology

Teschendorff AE. 2013 Oct

Aging (Albany NY)

Distinctive topology of age-associated epigenetic drift in the human interactome

West J, Widschwendter M, Teschendorff AE. 2013 Aug 27

PANS

Age-associated epigenetic drift: implications, and a case of epigenetic thrift?

Teschendorff AE, West J, Beck S. 2013 Oct 15

Hum Mol Genet

Meta-analysis of IDH-mutant cancers identifies EBF1 as an interaction partner for TET2

Guilhamon P, Eskandarpour M, Halai D, Wilson GA, Feber A, Teschendorff AE, Gomez V, Hergovich A, Tirabosco R, Fernanda Amary M, Baumhoer D, Jundt G, Ross MT, Flanagan AM, Beck S. 2013

Nat Commun

An integrative network algorithm identifies age-associated differential methylation interactome hotspots targeting stem-cell differentiation pathways

West J, Beck S, Wang X, Teschendorff AE. 2013

Sci Rep

A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data

Teschendorff AE, Marabita F, Lechner M, Bartlett T, Tegner J, Gomez-Cabrero D, Beck S. 2013 Jan 15

Bioinformatics