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Author Details

Abhinav Nellore
Oregon Health & Science University
2008
28
17
PMIDPaper TitleJournal TitlePublished Year
36874953recountmethylation enables flexible analysis of public blood DNA methylation array data.Bioinform Adv2023
35118818Minimal observed impact of HLA genotype on hospitalization and severity of SARS-CoV-2 infection.HLA2022
36369064Retained introns in long RNA-seq reads are not reliably detected in sample-matched short reads.Genome Biol2022
33937763Human methylome variation across Infinium 450K data on the Gene Expression Omnibus.NAR Genom Bioinform2021
34844637recount3: summaries and queries for large-scale RNA-seq expression and splicing.Genome Biol2021
34478497pepsickle rapidly and accurately predicts proteasomal cleavage sites for improved neoantigen identification.Bioinformatics2021
31424527neoepiscope improves neoepitope prediction with multivariant phasing.Bioinformatics2020
34316681Putatively cancer-specific exon-exon junctions are shared across patients and present in developmental and other non-cancer cells.NAR Cancer2020
32963314Alternative splicing of MR1 regulates antigen presentation to MAIT cells.Sci Rep2020
32303592Human Leukocyte Antigen Susceptibility Map for Severe Acute Respiratory Syndrome Coronavirus 2.J Virol2020
32228719Burden of tumor mutations, neoepitopes, and other variants are weak predictors of cancer immunotherapy response and overall survival.Genome Med2020
31647502Tumor Mutation Burden-From Doubts to Concerns.JAMA Oncol2019
28968689Snaptron: querying splicing patterns across tens of thousands of RNA-seq samples.Bioinformatics2018
29379135Cloud computing for genomic data analysis and collaboration.Nat Rev Genet2018
29653567Population-level distribution and putative immunogenicity of cancer neoepitopes.BMC Cancer2018
29430012Cloud computing for genomic data analysis and collaboration.Nat Rev Genet2018
27694310Flexible expressed region analysis for RNA-seq with derfinder.Nucleic Acids Res2017
28398307Reproducible RNA-seq analysis using recount2.Nat Biotechnol2017
29043067recount workflow: Accessing over 70,000 human RNA-seq samples with Bioconductor.F1000Res2017
28634288qSVA framework for RNA quality correction in differential expression analysis.Proc Natl Acad Sci U S A2017
27592709Rail-RNA: scalable analysis of RNA-seq splicing and coverage.Bioinformatics2017
27153614Rail-dbGaP: analyzing dbGaP-protected data in the cloud with Amazon Elastic MapReduce.Bioinformatics2016
28038678Human splicing diversity and the extent of unannotated splice junctions across human RNA-seq samples on the Sequence Read Archive.Genome Biol2016
23335939NSeq: a multithreaded Java application for finding positioned nucleosomes from sequencing data.Front Genet2013
23477830Oncogenic BRAF regulates oxidative metabolism via PGC1α and MITF.Cancer Cell2013
23583100Integration of genome-wide approaches identifies lncRNAs of adult neural stem cells and their progeny in vivo.Cell Stem Cell2013
23068444CHANCE: comprehensive software for quality control and validation of ChIP-seq data.Genome Biol2012
18851435Thermodynamics and bulk viscosity of approximate black hole duals to finite temperature quantum chromodynamics.Phys Rev Lett2008
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Collaborators

Reid F Thompson
Oregon Health and Sciences University
Co-authored papers 10
Andrew E Jaffe
Co-authored papers 7
Jeffrey T Leek
Co-authored papers 7
Mary A Wood
Phase Genomics Inc.
Co-authored papers 7
Kasper D Hansen
Johns Hopkins University School of Medicine
Co-authored papers 6
Christopher Wilks
Johns Hopkins University
Co-authored papers 5
Sean K Maden
Oregon Health & Science University
Co-authored papers 5
Jun S Song
University of Illinois at Urbana-Champaign
Co-authored papers 4
Aaron Diaz
University of California san francisco
Co-authored papers 3
Kyle Ellrott
Oregon Health & Science University
Co-authored papers 3
Adam J Struck
Oregon Health & Science University
Co-authored papers 2
Austin Nguyen
Oregon Health & Science University
Co-authored papers 1
Michael C Oldham
University of California san francisco
Co-authored papers 1
Brian Walsh
Oregon Health & Science University
Co-authored papers 1
David M Lewinsohn
Oregon Health and Science University
Co-authored papers 1
Daniel A Lim
University of California san francisco
Co-authored papers 1
Adam A Margolin
Icahn School of Medicine
Co-authored papers 1
Mayur Paralkar
Oregon Health and Science University
Co-authored papers 1
Richard E Straub
Lieber Institute for Brain Development
Co-authored papers 1
Jennifer A Wargo
Co-authored papers 1
Michael I Love
University of North Carolina at Chapel Hill
Co-authored papers 1
Margaret A Taub
Co-authored papers 1
Austin Q Nguyen
Rush University Medical Center
Co-authored papers 1
David E Fisher
Cutaneous Biology Research Center, Mass. General Hospital, Harvard Medical School
Co-authored papers 1
Mihir P Paralkar
Oregon Health and Science University
Co-authored papers 1
Rafael A Irizarry
Dana-Farber Cancer Institute
Co-authored papers 1
Ryan N Delgado
University of California at San Francisco
Co-authored papers 1
Joel E Kleinman
Lieber Institute for Brain Development (LIBD)
Co-authored papers 1
Daniel R Weinberger
Co-authored papers 1
Thomas M Hyde
Co-authored papers 1
Release 1.2