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ArticlesPeer ReviewedFull Text
DNA methylation protects hematopoietic stem cell multipotency from myeloerythroid restriction
Author / Creator:Bröske, Ann-Marie ; Vockentanz, Lena ; Kharazi, Shabnam ; Huska, Matthew R ; Mancini, Elena ; Scheller, Marina ; Kuhl, Christiane ; Enns, Andreas ; Prinz, Marco ; Jaenisch, Rudolf ; Nerlov, Claus ; Leutz, Achim ; Andrade-Navarro, Miguel A ; Jacobsen, Sten Eirik W ; Rosenbauer, Frank
Publisher:New York: Nature Publishing Group US
Journal title:Nature genetics, 2009-11, Vol.41 (11), p.1207-1215
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ArticlesPeer ReviewedFull Text
Refphase: Multi-sample phasing reveals haplotype-specific copy number heterogeneity
Author / Creator:Watkins, Thomas B. K. ; Colliver, Emma C. ; Huska, Matthew R. ; Kaufmann, Tom L. ; Lim, Emilia L. ; Duncan, Cody B. ; Haase, Kerstin ; Van Loo, Peter ; Swanton, Charles ; McGranahan, Nicholas ; Schwarz, Roland F.
Publisher:United States: Public Library of Science
Journal title:PLoS computational biology, 2023-10, Vol.19 (10), p.e1011379
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ArticlesPeer ReviewedFull Text
Concerted down-regulation of immune-system related genes predicts metastasis in colorectal carcinoma
Author / Creator:Fehlker, Marion ; Huska, Matthew R ; Jöns, Thomas ; Andrade-Navarro, Miguel A ; Kemmner, Wolfgang
Publisher:England: BioMed Central
Journal title:BMC cancer, 2014-02, Vol.14 (1), p.64-64, Article 64
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ArticlesPeer ReviewedFull Text
Detection of Alpha-Rod Protein Repeats Using a Neural Network and Application to Huntingtin
Author / Creator:Palidwor, Gareth A. ; Shcherbinin, Sergey ; Huska, Matthew R. ; Rasko, Tamas ; Stelzl, Ulrich ; Arumughan, Anup ; Foulle, Raphaele ; Porras, Pablo ; Sanchez-Pulido, Luis ; Wanker, Erich E. ; Andrade-Navarro, Miguel A.
Publisher:United States: Public Library of Science
Journal title:PLoS computational biology, 2009-03, Vol.5 (3), p.e1000304-e1000304
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ArticlesPeer ReviewedFull Text
Genomic basis for RNA alterations in cancer
Author / Creator:Calabrese, Claudia ; Davidson, Natalie R. ; Demircioğlu, Deniz ; Fonseca, Nuno A. ; He, Yao ; Kahles, André ; Lehmann, Kjong-Van ; Liu, Fenglin ; Shiraishi, Yuichi ; Soulette, Cameron M. ; Urban, Lara ; Greger, Liliana ; Li, Siliang ; Liu, Dongbing ; Perry, Marc D. ; Xiang, Qian ; Zhang, Fan ; Zhang, Junjun ; Bailey, Peter ; Erkek, Serap ; Hoadley, Katherine A. ; Hou, Yong ; Huska, Matthew R. ; Kilpinen, Helena ; Korbel, Jan O. ; Marin, Maximillian G. ; Markowski, Julia ; Nandi, Tannistha ; Pan-Hammarström, Qiang ; Pedamallu, Chandra Sekhar ; Siebert, Reiner ; Stark, Stefan G. ; Su, Hong ; Tan, Patrick ; Waszak, Sebastian M. ; Yung, Christina ; Zhu, Shida ; Awadalla, Philip ; Creighton, Chad J. ; Meyerson, Matthew ; Ouellette, B. F. Francis ; Wu, Kui ; Yang, Huanming ; Brazma, Alvis ; Brooks, Angela N. ; Göke, Jonathan ; Rätsch, Gunnar ; Schwarz, Roland F. ; Stegle, Oliver ; Zhang, Zemin
Publisher:London: Nature Publishing Group UK
Journal title:Nature (London), 2020-02, Vol.578 (7793), p.129-136
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ArticlesPeer ReviewedFull Text
PROmiRNA: a new miRNA promoter recognition method uncovers the complex regulation of intronic miRNAs
Author / Creator:Marsico, Annalisa ; Huska, Matthew R ; Lasserre, Julia ; Hu, Haiyang ; Vucicevic, Dubravka ; Musahl, Anne ; Orom, Ulf Andersson ; Vingron, Martin
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology (Online Edition), 2013-08, Vol.14 (8), p.R84-R84, Article R84
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ArticlesPeer ReviewedFull Text
The soluble intracellular domain of megalin does not affect renal proximal tubular function in vivo
Author / Creator:Christ, Annabel ; Terryn, Sara ; Schmidt, Vanessa ; Christensen, Erik I. ; Huska, Matthew R. ; Andrade-Navarro, Miguel A. ; Hübner, Norbert ; Devuyst, Olivier ; Hammes, Annette ; Willnow, Thomas E.
Publisher:United States: Elsevier Inc
Journal title:Kidney international, 2010-09, Vol.78 (5), p.473-477
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ArticlesPeer ReviewedFull Text
Recent developments in StemBase: a tool to study gene expression in human and murine stem cells
Author / Creator:Sandie, Reatha ; Palidwor, Gareth A ; Huska, Matthew R ; Porter, Christopher J ; Krzyzanowski, Paul M ; Muro, Enrique M ; Perez-Iratxeta, Carolina ; Andrade-Navarro, Miguel A
Publisher:England: BioMed Central Ltd
Journal title:BMC research notes, 2009-03, Vol.2 (1), p.39-39
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ArticlesFull Text
Targeted decontamination of sequencing data with CLEAN
Author / Creator:Lataretu, Marie ; Krautwurst, Sebastian ; Huska, Matthew R ; Marquet, Mike ; Viehweger, Adrian ; Braun, Sascha D ; Brandt, Christian ; Hölzer, Martin
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2025-01
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Conference ProceedingsFull Text
Predicting enhancers using a small subset of high confidence examples and co-training
Author / Creator:Huska, Matthew R ; Ramisch, Anna ; Vingron, Martin ; Marsico, Annalisa
Publisher:San Diego: PeerJ, Inc
Journal title:PeerJ preprints, 2016
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ArticlesPeer ReviewedFull Text
Detection of Alpha-Rod Protein Repeats Using a Neural Network and Application to Huntingtin: e1000304
Author / Creator:Palidwor, Gareth A ; Shcherbinin, Sergey ; Huska, Matthew R ; Rasko, Tamas ; Stelzl, Ulrich ; Arumughan, Anup ; Foulle, Raphaele ; Porras, Pablo ; Sanchez-Pulido, Luis ; Wanker, Erich E ; Andrade-Navarro, Miguel A
Publisher:San Francisco: Public Library of Science
Journal title:PLoS computational biology, 2009-03, Vol.5 (3)
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ArticlesPeer ReviewedFull Text
High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations
Author / Creator:Zhang, Yiqun ; Chen, Fengju ; Fonseca, Nuno A. ; He, Yao ; Fujita, Masashi ; Nakagawa, Hidewaki ; Zhang, Zemin ; Brazma, Alvis ; Creighton, Chad J.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2020-02, Vol.11 (1), p.736-14, Article 736
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ArticlesPeer ReviewedFull Text
Author Correction: High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations
Author / Creator:Zhang, Yiqun ; Chen, Fengju ; Fonseca, Nuno A. ; He, Yao ; Fujita, Masashi ; Nakagawa, Hidewaki ; Zhang, Zemin ; Brazma, Alvis ; Creighton, Chad J.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2022-12, Vol.13 (1), p.7572-1, Article 7572
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ArticlesFull Text
Refphase: Multi-sample reference phasing reveals haplotype-specific copy number heterogeneity
Author / Creator:Watkins, Thomas Bk ; Colliver, Emma C ; Huska, Matthew R ; Kaufmann, Tom L ; Lim, Emilia L ; Haase, Kerstin ; Peter Van Loo ; Swanton, Charles ; Mcgranahan, Nicholas ; Schwarz, Roland F
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2022-10
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DNA methylation protects hematopoietic stem cell multipotency from myeloerythroid restriction

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Refphase: Multi-sample phasing reveals haplotype-specific copy number heterogeneity

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Concerted down-regulation of immune-system related genes predicts metastasis in colorectal carcinoma

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Detection of Alpha-Rod Protein Repeats Using a Neural Network and Application to Huntingtin

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Genomic basis for RNA alterations in cancer

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PROmiRNA: a new miRNA promoter recognition method uncovers the complex regulation of intronic miRNAs

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The soluble intracellular domain of megalin does not affect renal proximal tubular function in vivo

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Recent developments in StemBase: a tool to study gene expression in human and murine stem cells

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Targeted decontamination of sequencing data with CLEAN

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Predicting enhancers using a small subset of high confidence examples and co-training

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Detection of Alpha-Rod Protein Repeats Using a Neural Network and Application to Huntingtin: e1000304

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High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations

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Author Correction: High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations

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Refphase: Multi-sample reference phasing reveals haplotype-specific copy number heterogeneity

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