Michal Okoniewski
Michal Okoniewski
Scientific IT Services, ETH Zurich
Verified email at id.ethz.ch
TitleCited byYear
Count-based differential expression analysis of RNA sequencing data using R and Bioconductor
S Anders, DJ McCarthy, Y Chen, M Okoniewski, GK Smyth, W Huber, ...
Nature protocols 8 (9), 1765, 2013
7642013
Eight-channel iTRAQ enables comparison of the activity of six leukemogenic tyrosine kinases
A Pierce, RD Unwin, CA Evans, S Griffiths, L Carney, L Zhang, ...
Molecular & Cellular Proteomics 7 (5), 853-863, 2008
2682008
Hybridization interactions between probesets in short oligo microarrays lead to spurious correlations
MJ Okoniewski, CJ Miller
BMC bioinformatics 7 (1), 276, 2006
1992006
Autoregulation of the nonsense-mediated mRNA decay pathway in human cells
H Yepiskoposyan, F Aeschimann, D Nilsson, M Okoniewski, ...
Rna 17 (12), 2108-2118, 2011
1792011
Sox10 promotes the formation and maintenance of giant congenital naevi and melanoma
O Shakhova, D Zingg, SM Schaefer, L Hari, G Civenni, J Blunschi, ...
Nature cell biology 14 (8), 882, 2012
1592012
microRNA profiling in Epstein–Barr virus-associated B-cell lymphoma
J Imig, N Motsch, JY Zhu, S Barth, M Okoniewski, T Reineke, M Tinguely, ...
Nucleic acids research 39 (5), 1880-1893, 2010
1342010
The removal of multiplicative, systematic bias allows integration of breast cancer gene expression datasets–improving meta-analysis and prediction of prognosis
AH Sims, GJ Smethurst, Y Hey, MJ Okoniewski, SD Pepper, A Howell, ...
BMC medical genomics 1 (1), 42, 2008
1252008
SparkSeq: fast, scalable and cloud-ready tool for the interactive genomic data analysis with nucleotide precision
MS Wiewiórka, A Messina, A Pacholewska, S Maffioletti, P Gawrysiak, ...
Bioinformatics 30 (18), 2652-2653, 2014
952014
X: Map: annotation and visualization of genome structure for Affymetrix exon array analysis
T Yates, MJ Okoniewski, CJ Miller
Nucleic acids research 36 (suppl_1), D780-D786, 2007
782007
Complement is a central mediator of radiotherapy-induced tumor-specific immunity and clinical response
L Surace, V Lysenko, AO Fontana, V Cecconi, H Janssen, A Bicvic, ...
Immunity 42 (4), 767-777, 2015
742015
New insights into the performance of human whole-exome capture platforms
J Meienberg, K Zerjavic, I Keller, M Okoniewski, A Patrignani, K Ludin, ...
Nucleic acids research 43 (11), e76-e76, 2015
572015
High correspondence between Affymetrix exon and standard expression arrays
MJ Okoniewski, Y Hey, SD Pepper, CJ Miller
Biotechniques 42 (2), 181-185, 2007
572007
An annotation infrastructure for the analysis and interpretation of Affymetrix exon array data
MJ Okoniewski, T Yates, S Dibben, CJ Miller
Genome biology 8 (5), R79, 2007
562007
Comprehensive analysis of affymetrix exon arrays using BioConductor
MJ Okoniewski, CJ Miller
PLoS computational biology 4 (2), e6, 2008
552008
Asexual expansion of Toxoplasma gondii merozoites is distinct from tachyzoites and entails expression of non-overlapping gene families to attach, invade, and replicate within …
AB Hehl, WU Basso, C Lippuner, C Ramakrishnan, M Okoniewski, ...
BMC genomics 16 (1), 66, 2015
422015
PGC-1α determines light damage susceptibility of the murine retina
A Egger, M Samardzija, V Sothilingam, N Tanimoto, C Lange, S Salatino, ...
PLoS One 7 (2), e31272, 2012
422012
Radiotherapy of human sarcoma promotes an intratumoral immune effector signature
A Sharma, B Bode, G Studer, H Moch, M Okoniewski, A Knuth, ...
Clinical Cancer Research 19 (17), 4843-4853, 2013
412013
Transcriptional analysis of South African cassava mosaic virus-infected susceptible and tolerant landraces of cassava highlights differences in resistance, basal defense and …
F Allie, EJ Pierce, MJ Okoniewski, C Rey
BMC genomics 15 (1), 1006, 2014
402014
Exon level integration of proteomics and microarray data
DA Bitton, MJ Okoniewski, Y Connolly, CJ Miller
BMC bioinformatics 9 (1), 118, 2008
392008
Early insights into the function of KIAA1199, a markedly overexpressed protein in human colorectal tumors
A Tiwari, M Schneider, A Fiorino, R Haider, MJ Okoniewski, B Roschitzki, ...
PLoS One 8 (7), e69473, 2013
382013
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Articles 1–20