Andrew E Teschendorff

Summary

Affiliation: University College London
Country: UK

Publications

  1. Chen W, Teschendorff A. Estimating Differentiation Potency of Single Cells Using Single-Cell Entropy (SCENT). Methods Mol Biol. 2019;1935:125-139 pubmed publisher
    ..SCENT is implemented in R, licensed under the GNU General Public Licence v3, and freely available from https://github.com/aet21/SCENT . ..
  2. Zheng S, Breeze C, Beck S, Teschendorff A. Identification of differentially methylated cell types in epigenome-wide association studies. Nat Methods. 2018;15:1059-1066 pubmed publisher
    ..CellDMC may be useful in the identification of causal DNA-methylation alterations in disease. ..
  3. Teschendorff A, Jing H, Paul D, Virta J, Nordhausen K. Tensorial blind source separation for improved analysis of multi-omic data. Genome Biol. 2018;19:76 pubmed publisher
  4. Gao Y, Widschwendter M, Teschendorff A. DNA Methylation Patterns in Normal Tissue Correlate more Strongly with Breast Cancer Status than Copy-Number Variants. EBioMedicine. 2018;31:243-252 pubmed publisher
    ..These results suggest that DNA methylation alterations in the normal cell of origin may offer better cancer risk prediction and early detection markers than copy-number changes. ..
  5. Teschendorff A, Widschwendter M. Differential variability improves the identification of cancer risk markers in DNA methylation studies profiling precursor cancer lesions. Bioinformatics. 2012;28:1487-94 pubmed publisher
    ..We present a novel algorithm (EVORA) which could be used for prediction and diagnosis of precursor epithelial cancer lesions. R-scripts implementing EVORA are available from CRAN (www.r-project.org). ..
  6. Yang Z, Jones A, Widschwendter M, Teschendorff A. An integrative pan-cancer-wide analysis of epigenetic enzymes reveals universal patterns of epigenomic deregulation in cancer. Genome Biol. 2015;16:140 pubmed publisher
  7. Yang Z, Wong A, Kuh D, Paul D, Rakyan V, Leslie R, et al. Correlation of an epigenetic mitotic clock with cancer risk. Genome Biol. 2016;17:205 pubmed
    ..Unlike other epigenetic and mutational clocks or the telomere clock, the epigenetic clock proposed here provides a concrete example of a mitotic-like clock which is universally accelerated in cancer and precancerous lesions. ..
  8. Teschendorff A, Zheng S, Feber A, Yang Z, Beck S, Widschwendter M. The multi-omic landscape of transcription factor inactivation in cancer. Genome Med. 2016;8:89 pubmed publisher
  9. Chen Y, Widschwendter M, Teschendorff A. Systems-epigenomics inference of transcription factor activity implicates aryl-hydrocarbon-receptor inactivation as a key event in lung cancer development. Genome Biol. 2017;18:236 pubmed publisher
    ..The novel systems-epigenomics algorithm SEPIRA will be useful to the wider epigenome-wide association study community as a means of inferring regulatory activity. ..

More Information

Publications20

  1. Yang Z, Wu L, Wang A, Tang W, Zhao Y, Zhao H, et al. dbDEMC 2.0: updated database of differentially expressed miRNAs in human cancers. Nucleic Acids Res. 2017;45:D812-D818 pubmed publisher
    ..We expect this database to continue to serve as a valuable source for cancer investigation and potential clinical application related to miRNAs. dbDEMC 2.0 is freely available at http://www.picb.ac.cn/dbDEMC. ..
  2. Teschendorff A, Lee S, Jones A, Fiegl H, Kalwa M, Wagner W, et al. HOTAIR and its surrogate DNA methylation signature indicate carboplatin resistance in ovarian cancer. Genome Med. 2015;7:108 pubmed publisher
  3. Teschendorff A, Jones A, Widschwendter M. Stochastic epigenetic outliers can define field defects in cancer. BMC Bioinformatics. 2016;17:178 pubmed publisher
    ..Given that cancer studies aiming to find epigenetic field defects are likely to be limited by sample size, adopting the novel feature selection paradigm advocated here will be critical to increase assay sensitivity. ..
  4. Teschendorff A, Menon U, Gentry Maharaj A, Ramus S, Gayther S, Apostolidou S, et al. An epigenetic signature in peripheral blood predicts active ovarian cancer. PLoS ONE. 2009;4:e8274 pubmed publisher
    ..Our results underscore the potential of DNAm profiling in peripheral blood as a tool for detection or risk-prediction of epithelial cancers, and warrants further in-depth and higher CpG coverage studies to further elucidate this role. ..
  5. Teschendorff A, Marabita F, Lechner M, Bartlett T, Tegner J, Gomez Cabrero D, et al. A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data. Bioinformatics. 2013;29:189-96 pubmed publisher
    ..BMIQ is freely available from http://code.google.com/p/bmiq/. a.teschendorff@ucl.ac.uk Supplementary data are available at Bioinformatics online. ..
  6. Teschendorff A, Jones A, Fiegl H, Sargent A, Zhuang J, Kitchener H, et al. Epigenetic variability in cells of normal cytology is associated with the risk of future morphological transformation. Genome Med. 2012;4:24 pubmed
    ..The ARTISTIC trial is registered with the International Standard Randomised Controlled Trial Number ISRCTN25417821. ..
  7. Teschendorff A, Zhuang J, Widschwendter M. Independent surrogate variable analysis to deconvolve confounding factors in large-scale microarray profiling studies. Bioinformatics. 2011;27:1496-505 pubmed publisher
    ..Thus, ISVA should be useful as a feature selection tool in studies that are subject to confounding. An R-package isva is available from www.cran.r-project.org. ..
  8. Teschendorff A, Severini S. Increased entropy of signal transduction in the cancer metastasis phenotype. BMC Syst Biol. 2010;4:104 pubmed publisher
    ..Further exploration of the statistical properties of such integrated cancer expression and protein interaction networks will be a fruitful endeavour. ..
  9. Teschendorff A, Gomez S, Arenas A, El Ashry D, Schmidt M, Gehrmann M, et al. Improved prognostic classification of breast cancer defined by antagonistic activation patterns of immune response pathway modules. BMC Cancer. 2010;10:604 pubmed publisher
    ..Specifically, our results suggest that simultaneous modulation of T-helper differentiation and TGF-beta pathways may improve clinical outcome of hormone insensitive breast cancers over treatments that target only one of these pathways. ..
  10. Teschendorff A, Breeze C, Zheng S, Beck S. A comparison of reference-based algorithms for correcting cell-type heterogeneity in Epigenome-Wide Association Studies. BMC Bioinformatics. 2017;18:105 pubmed publisher
    ..Finally, we demonstrate the added value of EpiDISH in an EWAS of smoking. Estimating cell-type fractions and subsequent inference in EWAS may benefit from the use of non-constrained reference-based cell-type deconvolution methods. ..
  11. Zhuang J, Widschwendter M, Teschendorff A. A comparison of feature selection and classification methods in DNA methylation studies using the Illumina Infinium platform. BMC Bioinformatics. 2012;13:59 pubmed publisher
    ..The insights presented here will be useful to any study embarking on large-scale DNA methylation profiling using Illumina Infinium beadarrays. ..