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RNAget: an API to securely retrieve RNA quantifications.
Upchurch S, Palumbo E, Adams J, Bujold D, Bourque G, Nedzel J, Graham K, Kagda MS, Assis P, Hitz B, Righi E, Guigó R, Wold BJ; GA4GH RNA-Seq Task Team. Upchurch S, et al. Bioinformatics. 2023 Apr 3;39(4):btad126. doi: 10.1093/bioinformatics/btad126. Bioinformatics. 2023. PMID: 36897015 Free PMC article.
De novo detection of somatic variants in long-read single-cell RNA sequencing data.
Dondi A, Borgsmüller N, Ferreira PF, Haas BJ, Jacob F, Heinzelmann-Schwarz V; Tumor Profiler Consortium; Beerenwinkel N. Dondi A, et al. Among authors: haas bj. bioRxiv [Preprint]. 2024 Mar 8:2024.03.06.583775. doi: 10.1101/2024.03.06.583775. bioRxiv. 2024. PMID: 38496441 Free PMC article. Preprint.
A community challenge to evaluate RNA-seq, fusion detection, and isoform quantification methods for cancer discovery.
Creason A, Haan D, Dang K, Chiotti KE, Inkman M, Lamb A, Yu T, Hu Y, Norman TC, Buchanan A, van Baren MJ, Spangler R, Rollins MR, Spellman PT, Rozanov D, Zhang J, Maher CA, Caloian C, Watson JD, Uhrig S, Haas BJ, Jain M, Akeson M, Ahsen ME; SMC-RNA Challenge Participants; Stolovitzky G, Guinney J, Boutros PC, Stuart JM, Ellrott K. Creason A, et al. Among authors: haas bj. Cell Syst. 2021 Aug 18;12(8):827-838.e5. doi: 10.1016/j.cels.2021.05.021. Epub 2021 Jun 18. Cell Syst. 2021. PMID: 34146471 Free PMC article.
Gene Fusions Create Partner and Collateral Dependencies Essential to Cancer Cell Survival.
Gillani R, Seong BKA, Crowdis J, Conway JR, Dharia NV, Alimohamed S, Haas BJ, Han K, Park J, Dietlein F, He MX, Imamovic A, Ma C, Bassik MC, Boehm JS, Vazquez F, Gusev A, Liu D, Janeway KA, McFarland JM, Stegmaier K, Van Allen EM. Gillani R, et al. Among authors: haas bj. Cancer Res. 2021 Aug 1;81(15):3971-3984. doi: 10.1158/0008-5472.CAN-21-0791. Epub 2021 Jun 7. Cancer Res. 2021. PMID: 34099491 Free PMC article.
Imaging-AMARETTO: An Imaging Genomics Software Tool to Interrogate Multiomics Networks for Relevance to Radiography and Histopathology Imaging Biomarkers of Clinical Outcomes.
Gevaert O, Nabian M, Bakr S, Everaert C, Shinde J, Manukyan A, Liefeld T, Tabor T, Xu J, Lupberger J, Haas BJ, Baumert TF, Hernaez M, Reich M, Quintana FJ, Uhlmann EJ, Krichevsky AM, Mesirov JP, Carey V, Pochet N. Gevaert O, et al. Among authors: haas bj. JCO Clin Cancer Inform. 2020 May;4:421-435. doi: 10.1200/CCI.19.00125. JCO Clin Cancer Inform. 2020. PMID: 32383980 Free PMC article.
98 results