Works matching AU Teschendorff, Andrew E.

Results: 93

An improved reference library and method for accurate cell-type deconvolution of bulk-tissue miRNA data.

Published in:

Nature Communications, 2025, v. 16, n. 1, p. 1, doi. 10.1038/s41467-025-60521-x

By:

Zhu, Shaoying;
Yang, Hui;
Liu, Jun;
Fu, Qingsheng;
Huang, Wei;
Chen, Qi;
Teschendorff, Andrew E.;
He, Yungang;
Yang, Zhen

Publication type:

Article

Allele-Specific Up-Regulation of FGFR2 Increases Susceptibility to Breast Cancer.

Published in:

PLoS Biology, 2008, v. 6, n. 5, p. e108, doi. 10.1371/journal.pbio.0060108

By:

Meyer, Kerstin B.;
Maia, Ana-Teresa;
O'Reilly, Martin;
Teschendorff, Andrew E.;
Suet-Feung Chin;
Caldas, Carlos;
Ponder, Bruce A. J.

Publication type:

Article

Universal penalized regression (Elastic-net) model with differentially methylated promoters for oral cancer prediction.

Published in:

European Journal of Medical Research, 2024, v. 29, n. 1, p. 1, doi. 10.1186/s40001-024-02047-4

By:

Das, Shantanab;
Karuri, Saikat;
Chakraborty, Joyeeta;
Basu, Baidehi;
Chandra, Aditi;
Aravindan, S.;
Chakraborty, Anirvan;
Paul, Debashis;
Ray, Jay Gopal;
Lechner, Matt;
Beck, Stephan;
Teschendorff, E. Andrew;
Chatterjee, Raghunath

Publication type:

Article

Publisher Correction: Interpretable deep learning of single-cell and epigenetic data reveals novel molecular insights in aging.

Published in:

2025

By:

Li, Zhi-Peng;
Du, Zhaozhen;
Huang, De-Shuang;
Teschendorff, Andrew E.

Publication type:

Correction Notice

Interpretable deep learning of single-cell and epigenetic data reveals novel molecular insights in aging.

Published in:

Scientific Reports, 2025, v. 15, n. 1, p. 1, doi. 10.1038/s41598-025-89646-1

By:

Li, Zhi-Peng;
Du, Zhaozhen;
Huang, De-Shuang;
Teschendorff, Andrew E.

Publication type:

Article

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

Published in:

Scientific Reports, 2013, p. 1, doi. 10.1038/srep03039

By:

Banerji, Christopher R. S.;
Diego Miranda-Saavedra;
Severini, Simone;
Widschwendter, Martin;
Enver, Tariq;
Zhou, Joseph X.;
Teschendorff, Andrew E.

Publication type:

Article

Genomic Architecture Characterizes Tumor Progression Paths and Fate in Breast Cancer Patients.

Published in:

Science Translational Medicine, 2010, v. 2, n. 38, p. 1, doi. 10.1126/scitranslmed.3000611

By:

Russnes, Hege G.;
Moen Vollan, Hans Kristian;
Lingjærde, Ole Christian;
Krasnitz, Alexander;
Lundin, Pär;
Naume, Bjørn;
Sørlie, Therese;
Borgen, Elin;
Rye, Inga H.;
Langerød, Anita;
Suet-Feung Chin;
Teschendorff, Andrew E.;
Stephens, Philip J.;
Månér, Susanne;
Schlichting, Ellen;
Baumbusch, Lars O.;
Kåresen, Rolf;
Stratton, Michael P.;
Wigler, Michael;
Caldas, Carlos

Publication type:

Article

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

Published in:

Genome Biology, 2020, v. 21, n. 1, p. N.PAG, doi. 10.1186/s13059-020-02126-9

By:

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

Publication type:

Article

DNA methylation aging clocks: challenges and recommendations.

Published in:

Genome Biology, 2019, v. 20, n. 1, p. N.PAG, doi. 10.1186/s13059-019-1824-y

By:

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

Publication type:

Article

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

Published in:

Epigenetics & Chromatin, 2016, v. 9, p. 1, doi. 10.1186/s13072-016-0058-4

By:

Yuting Chen;
Breeze, Charles E.;
Shao Zhen;
Beck, Stephan;
Teschendorff, Andrew E.

Publication type:

Article

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

Published in:

Bioinformatics, 2021, v. 37, n. 11, p. 1528, doi. 10.1093/bioinformatics/btaa987

By:

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

Publication type:

Article

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

Published in:

Genome Biology, 2018, v. 19, n. 1, p. N.PAG, doi. 10.1186/s13059-018-1455-8

By:

Teschendorff, Andrew E.;
Jing, Han;
Paul, Dirk S.;
Virta, Joni;
Nordhausen, Klaus

Publication type:

Article

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

Published in:

Genome Biology, 2017, v. 18, p. 1, doi. 10.1186/s13059-017-1366-0

By:

Yuting Chen;
Widschwendter, Martin;
Teschendorff, Andrew E.

Publication type:

Article

Comments on: Interpretation of genome-wide infinium methylation data from ligated DNA in formalin-fixed paraffin-embedded paired tumor and normal tissue.

Published in:

BMC Research Notes, 2012, v. 5, n. 1, p. 631, doi. 10.1186/1756-0500-5-631

By:

Thirlwell, Christina;
Feber, Andrew;
Lechner, Matthias;
Teschendorff, Andrew E.;
Beck, Stephan

Publication type:

Article

ESR1 gene amplification in breast cancer: a common phenomenon?

Published in:

2008

By:

Brown, Lindsay A.;
Hoog, Jeremy;
Suet-Feung Chin;
Yu Tao;
Zayed, Abd Alnaser;
Koei Chin;
Teschendorff, Andrew E.;
Quackenbush, John F.;
Marioni, John C.;
Leung, Samuel;
Perou, Charles M.;
Neilsen, Torsten O.;
Ellis, Matthew;
Gray, Joe W.;
Bernard, Philip S.;
Huntsman, David G.;
Caldas, Carlos

Publication type:

Letter

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

Published in:

PLoS Genetics, 2015, v. 11, n. 2, p. 1, doi. 10.1371/journal.pgen.1004996

By:

Yuan, Tian;
Jiao, Yinming;
de Jong, Simone;
Ophoff, Roel A.;
Beck, Stephan;
Teschendorff, Andrew E.

Publication type:

Article

The Dynamics and Prognostic Potential of DNA Methylation Changes at Stem Cell Gene Loci in Women's Cancer.

Published in:

PLoS Genetics, 2012, v. 8, n. 2, p. 1, doi. 10.1371/journal.pgen.1002517

By:

Zhuang, Joanna;
Jones, Allison;
Shih-Han Lee;
Ng, Esther;
Fiegl, Heidi;
Zikan, Michal;
Cibula, David;
Sargent, Alexandra;
Salvesen, Helga B.;
Jacobs, Ian J.;
Kitchener, Henry C.;
Teschendorff, Andrew E.;
Widschwendter, Martin

Publication type:

Article

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

Published in:

2013

By:

Jones, Allison;
Teschendorff, Andrew E;
Li, Quanxi;
Hayward, Jane D;
Kannan, Athilakshmi;
Mould, Tim;
West, James;
Zikan, Michal;
Cibula, David;
Fiegl, Heidi;
Lee, Shih-Han;
Wik, Elisabeth;
Hadwin, Richard;
Arora, Rupali;
Lemech, Charlotte;
Turunen, Henna;
Pakarinen, Päivi;
Jacobs, Ian J;
Salvesen, Helga B;
Bagchi, Milan K

Publication type:

journal article

Role of DNA Methylation and Epigenetic Silencing of <i>HAND2</i> in Endometrial Cancer Development.

Published in:

PLoS Medicine, 2013, v. 10, n. 11, p. 1, doi. 10.1371/journal.pmed.1001551

By:

Jones, Allison;
Teschendorff, Andrew E.;
Li, Quanxi;
Hayward, Jane D.;
Kannan, Athilakshmi;
Mould, Tim;
West, James;
Zikan, Michal;
Cibula, David;
Fiegl, Heidi;
Lee, Shih-Han;
Wik, Elisabeth;
Hadwin, Richard;
Arora, Rupali;
Lemech, Charlotte;
Turunen, Henna;
Pakarinen, Päivi;
Jacobs, Ian J.;
Salvesen, Helga B.;
Bagchi, Milan K.

Publication type:

Article

PACK: Profile Analysis using Clustering and Kurtosis to find molecular classifiers in cancer.

Published in:

Bioinformatics, 2006, v. 22, n. 18, p. 2269, doi. 10.1093/bioinformatics/btl174

By:

Andrew E. Teschendorff;
Ali Naderi;
Nuno L. Barbosa-Morais;
Carlos Caldas

Publication type:

Article

A variational Bayesian mixture modelling framework for cluster analysis of gene-expression data.

Published in:

Bioinformatics, 2005, v. 21, n. 13, p. 3025

By:

Andrew E. Teschendorff

Publication type:

Article

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

Published in:

Communications Biology, 2019, v. 2, n. 1, p. N.PAG, doi. 10.1038/s42003-019-0554-8

By:

Chen, Weiyan;
Morabito, Samuel J.;
Kessenbrock, Kai;
Enver, Tariq;
Meyer, Kerstin B.;
Teschendorff, Andrew E.

Publication type:

Article

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

Published in:

Cardiovascular Research, 2017, v. 113, n. 6, p. 692, doi. 10.1093/cvr/cvx050

By:

Sun Pan;
Hao Lai;
Yiru Shen;
Charles Breeze;
Beck, Stephan;
Tao Hong;
Chunsheng Wang;
Teschendorff, Andrew E.

Publication type:

Article

Comparisons of Non-Gaussian Statistical Models in DNA Methylation Analysis.

Published in:

International Journal of Molecular Sciences, 2014, v. 15, n. 6, p. 10835, doi. 10.3390/ijms150610835

By:

Zhanyu Ma;
Teschendorff, Andrew E.;
Hong Yu;
Taghia, Jalil;
Jun Guo

Publication type:

Article

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

Published in:

Briefings in Bioinformatics, 2020, v. 21, n. 1, p. 248, doi. 10.1093/bib/bby093

By:

Shi, Jifan;
Teschendorff, Andrew E;
Chen, Weiyan;
Chen, Luonan;
Li, Tiejun

Publication type:

Article

Accounting for differential variability in detecting differentially methylated regions.

Published in:

Briefings in Bioinformatics, 2019, v. 20, n. 1, p. 47, doi. 10.1093/bib/bbx097

By:

Wang, Ya;
Teschendorff, Andrew E;
Widschwendter, Martin;
Wang, Shuang

Publication type:

Article

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

Published in:

2019

By:

Battram, Thomas;
Richmond, Rebecca C;
Baglietto, Laura;
Haycock, Philip C;
Perduca, Vittorio;
Bojesen, Stig E;
Gaunt, Tom R;
Hemani, Gibran;
Guida, Florence;
Carreras-Torres, Robert;
Hung, Rayjean;
Amos, Christopher I;
Freeman, Joshua R;
Sandanger, Torkjel M;
Nøst, Therese H;
Nordestgaard, Børge G;
Teschendorff, Andrew E;
Polidoro, Silvia;
Vineis, Paolo;
Severi, Gianluca

Publication type:

journal article

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

Published in:

Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-39017-z

By:

Maity, Alok K.;
Teschendorff, Andrew E.

Publication type:

Article

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

Published in:

Clinical Epigenetics, 2015, v. 7, p. 1, doi. 10.1186/s13148-015-0159-0

By:

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

Publication type:

Article

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

Published in:

Genome Medicine, 2023, v. 15, n. 1, p. 1, doi. 10.1186/s13073-023-01211-5

By:

Luo, Qi;
Dwaraka, Varun B.;
Chen, Qingwen;
Tong, Huige;
Zhu, Tianyu;
Seale, Kirsten;
Raffaele, Joseph M.;
Zheng, Shijie C.;
Mendez, Tavis L.;
Chen, Yulu;
Carreras, Natalia;
Begum, Sofina;
Mendez, Kevin;
Voisin, Sarah;
Eynon, Nir;
Lasky-Su, Jessica A.;
Smith, Ryan;
Teschendorff, Andrew E.

Publication type:

Article

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

Published in:

BMC Bioinformatics, 2017, v. 18, p. 1, doi. 10.1186/s12859-017-1511-5

By:

Teschendorff, Andrew E.;
Breeze, Charles E.;
Zheng, Shijie C.;
Beck, Stephan

Publication type:

Article

Elucidating the Altered Transcriptional Programs in Breast Cancer using Independent Component Analysis.

Published in:

PLoS Computational Biology, 2007, v. 3, n. 8, p. 1539, doi. 10.1371/journal.pcbi.0030161

By:

Teschendorff, Andrew E.;
Journée, Michel;
Absil, Pierre A.;
Sepulchre, Rodolphe;
Caldas, Carlos

Publication type:

Article

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

Published in:

Bioinformatics, 2020, v. 36, n. 6, p. 1950, doi. 10.1093/bioinformatics/btz833

By:

Zheng, Shijie C;
Breeze, Charles E;
Beck, Stephan;
Dong, Danyue;
Zhu, Tianyu;
Ma, Liangxiao;
Ye, Wei;
Zhang, Guoqing;
Teschendorff, Andrew E

Publication type:

Article

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

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4767, doi. 10.1093/bioinformatics/btz456

By:

Breeze, Charles E;
Reynolds, Alex P;
Dongen, Jenny van;
Dunham, Ian;
Lazar, John;
Neph, Shane;
Vierstra, Jeff;
Bourque, Guillaume;
Teschendorff, Andrew E;
Stamatoyannopoulos, John A;
Beck, Stephan

Publication type:

Article

ebGSEA: an improved Gene Set Enrichment Analysis method for Epigenome-Wide-Association Studies.

Published in:

Bioinformatics, 2019, v. 35, n. 18, p. 3514, doi. 10.1093/bioinformatics/btz073

By:

Dong, Danyue;
Tian, Yuan;
Zheng, Shijie C;
Teschendorff, Andrew E

Publication type:

Article

Tumor origin detection with tissue-specific miRNA and DNA methylation markers.

Published in:

Bioinformatics, 2018, v. 34, n. 3, p. 398, doi. 10.1093/bioinformatics/btx622

By:

Tang, Wei;
Wan, Shixiang;
Yang, Zhen;
Teschendorff, Andrew E;
Zou, Quan

Publication type:

Article

ChAMP: updated methylation analysis pipeline for Illumina BeadChips.

Published in:

Bioinformatics, 2017, v. 33, n. 24, p. 3982, doi. 10.1093/bioinformatics/btx513

By:

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

Publication type:

Article

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

Published in:

Bioinformatics, 2014, v. 30, n. 16, p. 2360, doi. 10.1093/bioinformatics/btu316

By:

Jiao, Yinming;
Widschwendter, Martin;
Teschendorff, Andrew E.

Publication type:

Article

ChAMP: 450k Chip Analysis Methylation Pipeline.

Published in:

Bioinformatics, 2014, v. 30, n. 3, p. 428, doi. 10.1093/bioinformatics/btt684

By:

Morris, Tiffany J.;
Butcher, Lee M.;
Feber, Andrew;
Teschendorff, Andrew E.;
Chakravarthy, Ankur R.;
Wojdacz, Tomasz K.;
Beck, Stephan

Publication type:

Article

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

Published in:

Bioinformatics, 2013, v. 29, n. 2, p. 189, doi. 10.1093/bioinformatics/bts680

By:

Teschendorff, Andrew E.;
Marabita, Francesco;
Lechner, Matthias;
Bartlett, Thomas;
Tegner, Jesper;
Gomez-Cabrero, David;
Beck, Stephan

Publication type:

Article

Differential variability improves the identification of cancer risk markers in DNA methylation studies profiling precursor cancer lesions.

Published in:

Bioinformatics, 2012, v. 28, n. 11, p. 1487, doi. 10.1093/bioinformatics/bts170

By:

Teschendorff, Andrew E.;
Widschwendter, Martin

Publication type:

Article

Independent surrogate variable analysis to deconvolve confounding factors in large-scale microarray profiling studies.

Published in:

Bioinformatics, 2011, v. 27, n. 11, p. 1496, doi. 10.1093/bioinformatics/btr171

By:

Teschendorff, Andrew E.;
Zhuang, Joanna;
Widschwendter, Martin

Publication type:

Article

An improved epigenetic counter to track mitotic age in normal and precancerous tissues.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-48649-8

By:

Zhu, Tianyu;
Tong, Huige;
Du, Zhaozhen;
Beck, Stephan;
Teschendorff, Andrew E.

Publication type:

Article

Unified high-resolution immune cell fraction estimation in blood tissue from birth to old age.

Published in:

Genome Medicine, 2025, v. 17, n. 1, p. 1, doi. 10.1186/s13073-025-01489-7

By:

Guo, Xiaolong;
Sulaiman, Mahnoor;
Neumann, Alexander;
Zheng, Shijie C.;
Cecil, Charlotte A.M.;
Teschendorff, Andrew E.;
Heijmans, Bastiaan T.

Publication type:

Article

Cell-type-specific subtyping of epigenomes improves prognostic stratification of cancer.

Published in:

Genome Medicine, 2025, v. 17, n. 1, p. 1, doi. 10.1186/s13073-025-01453-5

By:

Luo, Qi;
Teschendorff, Andrew E.

Publication type:

Article

Increased entropy of signal transduction in the cancer metastasis phenotype.

Published in:

BMC Systems Biology, 2010, v. 4, p. 104, doi. 10.1186/1752-0509-4-104

By:

Teschendorff, Andrew E.;
Severini, Simone

Publication type:

Article

Stochastic epigenetic outliers can define field defects in cancer.

Published in:

BMC Bioinformatics, 2016, v. 17, p. 1, doi. 10.1186/s12859-016-1056-z

By:

Teschendorff, Andrew E.;
Jones, Allison;
Widschwendter, Martin

Publication type:

Article

Co-amplification of 8p12 and 11q13 in breast cancers is not the result of a single genomic event.

Published in:

Genes, Chromosomes & Cancer, 2007, v. 46, n. 5, p. 427, doi. 10.1002/gcc.20424

By:

Paterson, Anna L.;
Pole, Jessica C. M.;
Blood, Katherine A.;
Garcia, Maria J.;
Cooke, Susanna L.;
Teschendorff, Andrew E.;
Wang, Yanzhong;
Chin, Suet-Feung;
Ylstra, Bauke;
Caldas, Carlos;
Edwards, Paul A. W.

Publication type:

Article

Epigenetic clocks and inflammaging: pitfalls caused by ignoring cell-type heterogeneity.

Published in:

GeroScience, 2025, v. 47, n. 3, p. 2707, doi. 10.1007/s11357-025-01677-8

By:

Guo, Xiaolong;
Teschendorff, Andrew E.

Publication type:

Article

Roadmap for investigating epigenome deregulation and environmental origins of cancer.

Published in:

International Journal of Cancer, 2018, v. 142, n. 5, p. 874, doi. 10.1002/ijc.31014

By:

Herceg, Zdenko;
Ghantous, Akram;
Wild, Christopher P.;
Sklias, Athena;
Casati, Lavinia;
Duthie, Susan J.;
Fry, Rebecca;
Issa, Jean‐Pierre;
Kellermayer, Richard;
Koturbash, Igor;
Kondo, Yukata;
Lepeule, Johanna;
Lima, Sheila C. S.;
Marsit, Carmen J.;
Rakyan, Vardhman;
Saffery, Richard;
Taylor, Jack A.;
Teschendorff, Andrew E.;
Ushijima, Toshikazu;
Vineis, Paolo

Publication type:

Article