Author

PCAWG Transcriptome Working Group

Baylor College of Medicine

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Biology Disciplines

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Research Focus:differential expression· 2 Organism:human· 2 Approach:statistical model· 2 Assay:whole-genome sequencing· 2 Assay:bulk RNA-seq· 1 Research Focus:gene regulatory network inference· 1 Research Focus:variant effect prediction· 1

Frequent Co-Authors

Alvis BrāzmaiD· 2 shared André KahlesiD· 2 shared Angela Norie BrooksiD· 2 shared B. F. Francis OuelletteiD· 2 shared Cameron M. SouletteiD· 2 shared Chad J. CreightoniD· 2 shared Chandra Sekhar PedamalluiD· 2 shared Christina K. YungiD· 2 shared

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2018-2020 · peak 1/yr

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10 top collaborators · 45 mutual co-author links

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2 shared papersGenomics

Alvis BrāzmaORCID

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2 papers

Recent·Most cited

Whole genome and RNA sequencing of 1,220 cancers reveals hundreds of genes deregulated by rearrangement of cis-regulatory elements

Yiqun Zhang, Fengju Chen, Nuno A. Fonseca, Yao He, Masashi Fujita, Hidewaki Nakagawa, Zemin Zhang, Alvis Brāzma, PCAWG Transcriptome Working Group, Samirkumar B. Amin, Philip Awadalla, Peter J. Bailey, Alvis Brazma, Angela Norie Brooks, Claudia Calabrese, , Paul Alan Edwards

The paper identifies hundreds of genes deregulated by SVs in cancer, showing increased expression linked to SV breakpoints and enhancer elements.

Nature Communications · Feb 5, 2020Peer-reviewedGenomics

Genomic basis for RNA alterations revealed by whole-genome analyses of 27 cancer types

PCAWG Transcriptome Core Group, Claudia Calabrese, Natalie R. Davidson, Nuno A. Fonseca, Yao He, André Kahles, Kjong-Van Lehmann, Fenglin Liu, Yuichi Shiraishi, Cameron M. Soulette, Lara Urban, Deniz Demircioğlu, Liliana Greger, Siliang Li, Dongbing Liu, , Zemin Zhang

The paper analyzes RNA alterations across 27 cancer types using whole-genome sequencing data, identifying gene expression associations with DNA variants and structural fusions.

bioRxiv · Mar 12, 2018 · PreprintGenomics