Szymon M. Kiełbasa

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Hanspeter HerzelInstitute for Theoretical BiologyVerified email at biologie.hu-berlin.de
Hailiang MeiLeiden University Medical CenterVerified email at lumc.nl
Nils BlüthgenComputational Modelling in Medicine - Charité - IRI Life SciencesVerified email at sys-bio.net
Martin VingronMax-Planck-Institut für molekulare GenetikVerified email at molgen.mpg.de
Kees van BergenLeiden University Medical CenterVerified email at ziggo.nl
Dieter BeuleCore Unit Bioinformatics - Berlin Institute of Health, Max-Delbrück-Center, CharitéVerified email at bihealth.de
Peter A.C. 't HoenProfessor Bioinformatics, Centre for Molecular and Biomolecular Informatics, Radboudumc NijmegenVerified email at radboudumc.nl
Paul HortonNCKU, TaiwanVerified email at iscb.org
Martin FrithNational Institute of Advanced Industrial Science and Technology (AIST), University of TokyoVerified email at edu.k.u-tokyo.ac.jp
Raymond WanThe Chinese University of Hong KongVerified email at cuhk.edu.hk
Marcelo NavarreteProfessor of Molecular Medicine, University of MagallanesVerified email at umag.cl
Bas HeijmansLeiden University Medical Center, The NetherlandsVerified email at lumc.nl
P. Eline SlagboomProfessor Molecular Epidemiology, Leiden University Medical CenterVerified email at lumc.nl
Eka SuchimanLeiden University Medical CenterVerified email at lumc.nl
Kengo SatoKeio University, JapanVerified email at bio.keio.ac.jp
Kasia BozekCenter for Molecular Medicine CologneVerified email at uni-koeln.de
Maarten van ItersonLeiden University Medical CenterVerified email at lumc.nl
Jan KorbelSenior Scientist Genome Biology & Head of Data Science, EMBL HeidelbergVerified email at embl.de
DI BoomsmaVerified email at vu.nl
Tomasz ZemojtelHead of Genomics Platform, Berlin Institute of Health, University Clinics ChariteVerified email at bihealth.de

Szymon M. Kiełbasa

Biomedical Data Sciences

Verified email at lumc.nl

transcriptomics allelic expression genomic imprinting reference bias data science


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Adaptive seeds tame genomic sequence comparison SM Kiełbasa, R Wan, K Sato, P Horton, MC Frith Genome research 21 (3), 487-493, 2011	819	2011
Evaluation of methods for modeling transcription factor sequence specificity MT Weirauch, A Cote, R Norel, M Annala, Y Zhao, TR Riley, ... Nature biotechnology 31 (2), 126-134, 2013	310	2013
Regulation of clock-controlled genes in mammals K Bozek, A Relógio, SM Kielbasa, M Heine, C Dame, A Kramer, H Herzel PloS one 4 (3), e4882, 2009	275	2009
Disease variants alter transcription factor levels and methylation of their binding sites MJ Bonder, R Luijk, DV Zhernakova, M Moed, P Deelen, M Vermaat, ... Nature genetics 49 (1), 131-138, 2017	259	2017
Identification of context-dependent expression quantitative trait loci in whole blood DV Zhernakova, P Deelen, M Vermaat, M Van Iterson, M Van Galen, ... Nature genetics 49 (1), 139-145, 2017	250	2017
Biological profiling of gene groups utilizing Gene Ontology N Blüthgen, K Brand, B Cajavec, M Swat, H Herzel, D Beule Genome Informatics 16 (1), 106-115, 2005	229	2005
Genetic and environmental influences interact with age and sex in shaping the human methylome J Van Dongen, MG Nivard, G Willemsen, JJ Hottenga, Q Helmer, ... Nature communications 7 (1), 1-13, 2016	191	2016
Eleven grand challenges in single-cell data science D Lähnemann, J Köster, E Szczurek, DJ McCarthy, SC Hicks, ... Genome biology 21 (1), 1-35, 2020	155	2020
Mutations in PIGO, a member of the GPI-anchor-synthesis pathway, cause hyperphosphatasia with mental retardation PM Krawitz, Y Murakami, J Hecht, U Krüger, SE Holder, GR Mortier, ... The American Journal of Human Genetics 91 (1), 146-151, 2012	131	2012
Improving phenotypic prediction by combining genetic and epigenetic associations S Shah, MJ Bonder, RE Marioni, Z Zhu, AF McRae, A Zhernakova, ... The American Journal of Human Genetics 97 (1), 75-85, 2015	88	2015
Two Plasmodium 6‐Cys family‐related proteins have distinct and critical roles in liver‐stage development T Annoura, BCL van Schaijk, IHJ Ploemen, M Sajid, J Lin, MW Vos, ... The FASEB Journal 28 (5), 2158-2170, 2014	81	2014
Identification of Y-box binding protein 1 as a core regulator of MEK/ERK pathway-dependent gene signatures in colorectal cancer cells K Jürchott, RJ Kuban, T Krech, N Blüthgen, U Stein, W Walther, C Friese, ... PLoS Genet 6 (12), e1001231, 2010	80	2010
Measuring similarities between transcription factor binding sites SM Kielbasa, D Gonze, H Herzel BMC bioinformatics 6 (1), 1-11, 2005	78	2005
HuSiDa—the human siRNA database: an open-access database for published functional siRNA sequences and technical details of efficient transfer into recipient cells M Truss, M Swat, SM Kielbasa, R Schäfer, H Herzel, C Hagemeier Nucleic acids research 33 (suppl_1), D108-D111, 2005	68	2005
Methylation and deamination of CpGs generate p53-binding sites on a genomic scale T Zemojtel, SM Kielbasa, PF Arndt, HR Chung, M Vingron Trends in genetics 25 (2), 63-66, 2009	67	2009
Inferring combinatorial regulation of transcription in silico N Blüthgen, SM Kiełbasa, H Herzel Nucleic acids research 33 (1), 272-279, 2005	66	2005
A systems biological approach suggests that transcriptional feedback regulation by dual‐specificity phosphatase 6 shapes extracellular signal‐related kinase activity in RAS … N Blüthgen, S Legewie, SM Kielbasa, A Schramme, O Tchernitsa, J Keil, ... The FEBS journal 276 (4), 1024-1035, 2009	65	2009
Combining frequency and positional information to predict transcription factor binding sites SM Kiełbasa, JO Korbel, D Beule, J Schuchhardt, H Herzel Bioinformatics 17 (11), 1019-1026, 2001	65	2001
DNA methylation analysis identifies loci for blood pressure regulation MA Richard, T Huan, S Ligthart, R Gondalia, MA Jhun, JA Brody, MR Irvin, ... The American Journal of Human Genetics 101 (6), 888-902, 2017	58	2017
Quaking promotes monocyte differentiation into pro-atherogenic macrophages by controlling pre-mRNA splicing and gene expression RG De Bruin, L Shiue, J Prins, HC De Boer, A Singh, WS Fagg, ... Nature communications 7 (1), 1-20, 2016	51	2016

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