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A rigorous benchmarking of alignment-based HLA typing algorithms for RNA-seq data.
Yu D, Ayyala R, Sadek SH, Chittampalli L, Farooq H, Jung J, Nahid AA, Boldirev G, Jung M, Park S, Nguyen A, Zelikovsky A, Mancuso N, Joo JWJ, Thompson RF, Alachkar H, Mangul S. Yu D, et al. Among authors: mangul s. bioRxiv [Preprint]. 2024 Jan 16:2023.05.22.541750. doi: 10.1101/2023.05.22.541750. bioRxiv. 2024. PMID: 38293199 Free PMC article. Preprint.
Profiling immunoglobulin repertoires across multiple human tissues using RNA sequencing.
Mandric I, Rotman J, Yang HT, Strauli N, Montoya DJ, Van Der Wey W, Ronas JR, Statz B, Yao D, Petrova V, Zelikovsky A, Spreafico R, Shifman S, Zaitlen N, Rossetti M, Ansel KM, Eskin E, Mangul S. Mandric I, et al. Among authors: mangul s. Nat Commun. 2020 Jun 19;11(1):3126. doi: 10.1038/s41467-020-16857-7. Nat Commun. 2020. PMID: 32561710 Free PMC article.
Author Correction: Profiling immunoglobulin repertoires across multiple human tissues using RNA sequencing.
Mandric I, Rotman J, Yang HT, Strauli N, Montoya DJ, Van Der Wey W, Ronas JR, Statz B, Yao D, Petrova V, Zelikovsky A, Spreafico R, Shifman S, Zaitlen N, Rossetti M, Ansel KM, Eskin E, Mangul S. Mandric I, et al. Among authors: mangul s. Nat Commun. 2020 Sep 4;11(1):4499. doi: 10.1038/s41467-020-18509-2. Nat Commun. 2020. PMID: 32887888 Free PMC article.
Cell type-specific genetic regulation of gene expression across human tissues.
Kim-Hellmuth S, Aguet F, Oliva M, Muñoz-Aguirre M, Kasela S, Wucher V, Castel SE, Hamel AR, Viñuela A, Roberts AL, Mangul S, Wen X, Wang G, Barbeira AN, Garrido-Martín D, Nadel BB, Zou Y, Bonazzola R, Quan J, Brown A, Martinez-Perez A, Soria JM; GTEx Consortium; Getz G, Dermitzakis ET, Small KS, Stephens M, Xi HS, Im HK, Guigó R, Segrè AV, Stranger BE, Ardlie KG, Lappalainen T. Kim-Hellmuth S, et al. Among authors: mangul s. Science. 2020 Sep 11;369(6509):eaaz8528. doi: 10.1126/science.aaz8528. Science. 2020. PMID: 32913075 Free PMC article.
Rigorous benchmarking of T-cell receptor repertoire profiling methods for cancer RNA sequencing.
Peng K, Nowicki TS, Campbell K, Vahed M, Peng D, Meng Y, Nagareddy A, Huang YN, Karlsberg A, Miller Z, Brito J, Nadel B, Pak VM, Abedalthagafi MS, Burkhardt AM, Alachkar H, Ribas A, Mangul S. Peng K, et al. Among authors: mangul s. Brief Bioinform. 2023 Jul 20;24(4):bbad220. doi: 10.1093/bib/bbad220. Brief Bioinform. 2023. PMID: 37291798 Free PMC article.
Whole Blood Transcriptomics Identifies Subclasses of Pediatric Septic Shock.
Yang JO, Zinter MS, Pellegrini M, Wong MY, Gala K, Markovic D, Nadel B, Peng K, Do N, Mangul S, Nadkarni VM, Karlsberg A, Deshpande D, Butte MJ, Asaro L, Agus M, Sapru A. Yang JO, et al. Among authors: mangul s. Res Sq [Preprint]. 2023 Aug 28:rs.3.rs-3267057. doi: 10.21203/rs.3.rs-3267057/v1. Res Sq. 2023. Update in: Crit Care. 2023 Dec 8;27(1):486. doi: 10.1186/s13054-023-04689-y PMID: 37693502 Free PMC article. Updated. Preprint.
Whole blood transcriptomics identifies subclasses of pediatric septic shock.
Yang JO, Zinter MS, Pellegrini M, Wong MY, Gala K, Markovic D, Nadel B, Peng K, Do N, Mangul S, Nadkarni VM, Karlsberg A, Deshpande D, Butte MJ, Asaro L, Agus M, Sapru A; Study Site Investigators for CAF-PINT. Yang JO, et al. Among authors: mangul s. Crit Care. 2023 Dec 8;27(1):486. doi: 10.1186/s13054-023-04689-y. Crit Care. 2023. PMID: 38066613 Free PMC article.
98 results