Erdogan Taskesen bio photo

Erdogan Taskesen

Data Scientist in Statistical Machine Learning

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Publications

Overview

For an overview of citations of my papers, please view my Google Scholar profile.

Selected Publications

  1. Taskesen E, HNet: Graphical Hypergeometric Networks. arXiv.org, 2020, arXiv:2005.04679
  2. Taskesen E, Huisman SMH, Mahfouz A, Krijthe JH, Ridder J, Stolpe A, Akker E, Verheagh W, Reinders MJT., MEREDITH: an integration method to refine cancer (sub)typing in a pan-cancer approach and multiple omics datasets. Scientific Reports, 2016, IF: 5.578
  3. K. Watanabe, Taskesen E, A. van Bochoven, D. Posthuma, FUMA: Functional mapping and annotation of genetic associations. Nature Communications. 2017, IF: 13.092
  4. Taskesen E, Havermans M, van Lom K, Sanders MA, van Norden Y, Bindels E, Hoogenboezem R, Reinders MJ, Figueroa ME, Valk PJ, Löwenberg B, Melnick A, Delwel R. Two splice factor mutant leukemia subgroups uncovered at the boundaries of MDS and AML using combined gene expression and DNA-methylation profiling. Blood. 2014 Mar 25., IF: 10.452
  5. Taskesen E, Beekman R, de Ridder J, Wouters BJ, Peeters JK, Touw IP, Reinders MJ, Delwel R. HAT: hypergeometric analysis of tiling-arrays with application to promoter-GeneChip data. BMC Bioinformatics, IF: 2.672

2020

  1. Taskesen E, HNet: Graphical Hypergeometric Networks. arXiv.org, 2020, arXiv:2005.04679

2019

  1. Karlsson Linnér R,…, Taskesen E,…,Beauchamp JP. Genome-wide association analyses of risk tolerance and risky behaviors in over 1 million individuals identify hundreds of loci and shared genetic influences. Nat Genet. 2019 Feb;51(2):245-257. doi: 10.1038/s41588-018-0309-3. Epub 2019 Jan 14. PubMed PMID: 30643258; PubMed Central PMCID: PMC6713272.

2018

  1. Taskesen E, Huisman SMH, Mahfouz A, Krijthe JH, de Ridder J, van de Stolpe A, van den Akker E, Verhaegh W, Reinders MJT. Pan-cancer subtyping in a 2D-map shows substructures that are driven by specific combinations of molecular characteristics. Sci Rep. 2018 Nov 23;8(1):17304. doi:10.1038/s41598-018-35518-w. PubMed PMID: 30470773; PubMed Central PMCID: PMC6251860

2017

  1. Taskesen E, A. Mishra, R. Ferrari, IFGC, J.H. Veldink, M.A. van Es, D. Geschwind, G. Smit, D. Posthuma, Y. Pijnenburg, Joint analysis of genetic with epigenetic profiles reveals candidate markers in FTD-MND, and convergence in pathways. Scientific Reports, 2017, IF: 4.874
  2. K. Watanabe, Taskesen E, A. van Bochoven, D. Posthuma, FUMA: Functional mapping and annotation of genetic associations. Nature Communications. 2017, IF: 13.092
  3. R. Karlsson Linnér,…, Taskesen E,…, Philipp D Koellinger, An epigenome-wide association study of educational attainment. Mol Psychiatry. 2017, IF: 13.204
  4. S. Sniekers,…, Taskesen E,…, Danielle Posthuma, Meta-Analysis On 78,308 Individuals Identifies 15 Novel Loci And 36 Novel Genes For Intelligence. Nature genetics, 2017, IF: 32.197
  5. A. R Hammerslag,…, Taskesen E,…, Danielle Posthuma, Genome-wide association analysis of insomnia identifies novel risk genes and genetic overlap with psychiatric and metabolic traits. Nature genetics, 2017, IF: 32.197

2016

  1. Taskesen E, Huisman SMH, Mahfouz A, Krijthe JH, Ridder J, Stolpe A, Akker E, Verheagh W, Reinders MJT., MEREDITH: an integration method to refine cancer (sub)typing in a pan-cancer approach and multiple omics datasets. Scientific Reports, 2016, IF: 5.578
  2. Taskesen E and Reinders MJT, 2D representation of transcriptomes by t-SNE exposes relatedness between human tissues. Plos One, 2016, IF: 3.234
  3. Taskesen E, Famili F, Brugman MH., Naber BEA., Fodde R, Staal FJT, High levels of canonical Wnt signaling lead to loss of stemness and increased differentiation in hematopoietic stem cells. Stem Cell Reports, 2016, IF: 7.023

2015

  1. Taskesen E, Staal FJT and Reinders MJT, An integrated approach of gene expression and DNA-methylation profiles of WNT signaling genes uncovers novel prognostic markers in Acute Myeloid Leukemia. BMC Bioinformatics. 2015 Feb 23, IF: 2.672
  2. Taskesen E, Babaei S, Reinders MJT and Ridder J, Integration of Gene Expression and DNA-methylation Profiles Improves Molecular Subtype Classification in Acute Myeloid Leukemia. BMC Bioinformatics. 2015 Feb 23, IF: 2.672

2014

  1. Taskesen E, Havermans M, van Lom K, Sanders MA, van Norden Y, Bindels E, Hoogenboezem R, Reinders MJ, Figueroa ME, Valk PJ, Löwenberg B, Melnick A, Delwel R. Two splice factor mutant leukemia subgroups uncovered at the boundaries of MDS and AML using combined gene expression and DNA-methylation profiling. Blood. 2014 Mar 25., IF: 10.452

2013

  1. Taskesen E, …, B. Löwenberg. The value of allogeneic and autologous hematopoietic stem cell transplantation in prognostically favorable acute myeloid leukemia with double mutant CEBPA. Blood. 2013 Aug 29;122(9):1576-82. doi: 10.1182/blood-2013-05-503847., IF: 10.452

2012

  1. Taskesen E, Hoogeboezem R, Delwel R, Reinders MJT. Hypergeometric Analysis of Tiling-array and Sequence Data: Detection and Interpretation of Peaks. Advances and Applications in Bioinformatics and Chemistry. 25;6:55-62. doi:10.2147/AABC.S51271, IF: 2.672
  2. Bindels EM, Havermans M, Lugthart S, Erpelinck C, Wocjtowicz E, Krivtsov AV, Rombouts E, Armstrong SA, Taskesen E, Haanstra JR, Beverloo HB, Döhner H, Hudson WA, Kersey JH, Delwel R, Kumar AR. EVI1 is critical for the pathogenesis of a subset of MLL-AF9-rearranged AMLs. Blood, IF: 10.452
  3. Zebisch A, Wölfler A, Fried I, Wolf O, Lind K, Bodner C, Haller M, Drasche A, Pirkebner D, Matallanas D, Rath O, Blyth K, Delwel R, Taskesen E, Quehenberger F, Kolch W, Troppmair J, Sill H. Frequent loss of RAF kinase inhibitor protein expression in acute myeloid leukemia. Leukemia, IF: 10.431
  4. Horos R, Ijspeert H, Pospisilova D, Sendtner R, Andrieu-Soler C, Taskesen E, Nieradka A, Cmejla R, Sendtner M, Touw IP, von Lindern M. Ribosomal deficiencies in Diamond-Blackfan anemia impair translation of transcripts essential for differentiation of murine and human erythroblasts. Blood, IF: 10.452

2011

  1. Beekman R, Valkhof M, Erkeland SJ, Taskesen E, Rockova V, Peeters JK, Valk PJ, Löwenberg B, Touw IP. Retroviral integration mutagenesis in mice and comparative analysis in human AML identify reduced PTP4A3 expression as a prognostic indicator. PLoS One, IF: 3.234
  2. Meenhuis A, van Veelen PA, de Looper H, van Boxtel N, van den Berge IJ, Sun SM, Taskesen E, Stern P, de Ru AH, van Adrichem AJ, Demmers J, Jongen-Lavrencic M, Löwenberg B, Touw IP, Sharp PA, Erkeland SJ. MiR-17/20/93/106 promote hematopoietic cell expansion by targeting sequestosome 1-regulated pathways in mice. Blood, IF: 10.452
  3. Smith LL, Yeung J, Zeisig BB, Popov N, Huijbers I, Barnes J, Wilson AJ, Taskesen E, Delwel R, Gil J, Van Lohuizen M, So CW. Functional crosstalk between Bmi1 and MLL/Hoxa9 axis in establishment of normal hematopoietic and leukemic stem cells. Cell Stem Cell., IF: 23.563

2010

  1. Taskesen E, Bullinger L, Corbacioglu A, Sanders MA, Erpelinck CA, Wouters BJ, van der Poel-van de Luytgaarde SC, Damm F, Krauter J, Ganser A, Schlenk RF, Löwenberg B, Delwel R, Döhner H, Valk PJ, Döhner K. Prognostic impact, concurrent genetic mutations, and gene expression features of AML with CEBPA mutations in a cohort of 1182 cytogenetically normal AML patients: further evidence for CEBPA double mutant AML as a distinctive disease entity. Blood, IF: 10.452
  2. Taskesen E, Beekman R, de Ridder J, Wouters BJ, Peeters JK, Touw IP, Reinders MJ, Delwel R. HAT: hypergeometric analysis of tiling-arrays with application to promoter-GeneChip data. BMC Bioinformatics, IF: 2.672

2007

  1. Taskesen E, Wessels LFA, van Vliet M, and Reinders MJT, Novel approaches for cross-species subtype identification. MSc. Thesis, pp. 26, Delft University of Technology, March 23 2007.

Bookchapters

  1. Erdogan Taskesen. (Dissertation, 2014, January 21). Computational Biology in Acute Myeloid Leukemia with CEBPA Abnormalities. Erasmus University Rotterdam. http://hdl.handle.net/1765/50368
  2. Taskesen E, Wouters BJ, and Delwel R. HAT: a novel statistical approach to discover functional regions in the genome. Springer Series (book Chapter). doi: 10.1007/978-1-62703-607-8.