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Analysis of the androgen receptor-regulated lncRNA landscape identifies a role for ARLNC1 in prostate cancer progression.
Nat Genet. 2018 Jun;50(6):814-824. doi: 10.1038/s41588-018-0120-1. Epub 2018 May 28.
Nat Genet. 2018.
PMID: 29808028
Free PMC article.
MechRNA: prediction of lncRNA mechanisms from RNA-RNA and RNA-protein interactions.
Gawronski AR, Uhl M, Zhang Y, Lin YY, Niknafs YS, Ramnarine VR, Malik R, Feng F, Chinnaiyan AM, Collins CC, Sahinalp SC, Backofen R.
Gawronski AR, et al.
Bioinformatics. 2018 Sep 15;34(18):3101-3110. doi: 10.1093/bioinformatics/bty208.
Bioinformatics. 2018.
PMID: 29617966
Free PMC article.
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The lncRNA landscape of breast cancer reveals a role for DSCAM-AS1 in breast cancer progression.
Niknafs YS, Han S, Ma T, Speers C, Zhang C, Wilder-Romans K, Iyer MK, Pitchiaya S, Malik R, Hosono Y, Prensner JR, Poliakov A, Singhal U, Xiao L, Kregel S, Siebenaler RF, Zhao SG, Uhl M, Gawronski A, Hayes DF, Pierce LJ, Cao X, Collins C, Backofen R, Sahinalp CS, Rae JM, Chinnaiyan AM, Feng FY.
Niknafs YS, et al.
Nat Commun. 2016 Sep 26;7:12791. doi: 10.1038/ncomms12791.
Nat Commun. 2016.
PMID: 27666543
Free PMC article.
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The long noncoding RNA landscape of neuroendocrine prostate cancer and its clinical implications.
Ramnarine VR, Alshalalfa M, Mo F, Nabavi N, Erho N, Takhar M, Shukin R, Brahmbhatt S, Gawronski A, Kobelev M, Nouri M, Lin D, Tsai H, Lotan TL, Karnes RJ, Rubin MA, Zoubeidi A, Gleave ME, Sahinalp C, Wyatt AW, Volik SV, Beltran H, Davicioni E, Wang Y, Collins CC.
Ramnarine VR, et al.
Gigascience. 2018 Jun 1;7(6):giy050. doi: 10.1093/gigascience/giy050.
Gigascience. 2018.
PMID: 29757368
Free PMC article.
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Computational identification of micro-structural variations and their proteogenomic consequences in cancer.
Lin YY, Gawronski A, Hach F, Li S, Numanagic I, Sarrafi I, Mishra S, McPherson A, Collins CC, Radovich M, Tang H, Sahinalp SC.
Lin YY, et al.
Bioinformatics. 2018 May 15;34(10):1672-1681. doi: 10.1093/bioinformatics/btx807.
Bioinformatics. 2018.
PMID: 29267878
Free PMC article.
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Structural variation and fusion detection using targeted sequencing data from circulating cell free DNA.
Gawroński AR, Lin YY, McConeghy B, LeBihan S, Asghari H, Koçkan C, Orabi B, Adra N, Pili R, Collins CC, Sahinalp SC, Hach F.
Gawroński AR, et al.
Nucleic Acids Res. 2019 Apr 23;47(7):e38. doi: 10.1093/nar/gkz067.
Nucleic Acids Res. 2019.
PMID: 30759232
Free PMC article.
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GOAL: a software tool for assessing biological significance of genes groups.
Tchagang AB, Gawronski A, Bérubé H, Phan S, Famili F, Pan Y.
Tchagang AB, et al.
BMC Bioinformatics. 2010 May 6;11:229. doi: 10.1186/1471-2105-11-229.
BMC Bioinformatics. 2010.
PMID: 20459620
Free PMC article.
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RiboFSM: frequent subgraph mining for the discovery of RNA structures and interactions.
Gawronski AR, Turcotte M.
Gawronski AR, et al.
BMC Bioinformatics. 2014;15 Suppl 13(Suppl 13):S2. doi: 10.1186/1471-2105-15-S13-S2. Epub 2014 Nov 13.
BMC Bioinformatics. 2014.
PMID: 25434643
Free PMC article.
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