Author

Stephen V. Rice

St. Jude Children's Research HospitalORCID 0000-0002-3489-8459Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

Click to filter author papers

Bioinformatics· 2 Genomics· 1

Signature Assays, Organisms & Methods

Click to filter · or open tag

Organism:human· 2 Approach:statistical model· 2 Research Focus:variant calling· 2 Assay:bulk RNA-seq· 1 Approach:machine learning (classical)· 1 Research Focus:variant effect prediction· 1 Assay:whole-exome sequencing· 1 Assay:whole-genome sequencing· 1

Frequent Co-Authors

Jinghui ZhangiD· 3 shared Michael N. EdmonsoniD· 2 shared Michael RuschiD· 2 shared Scott NewmaniD· 2 shared Aman PateliD· 1 shared Chimene A. KesserwaniD· 1 shared Clay McLeodiD· 1 shared Dale J. Hedges· 1 shared

Activity by Year

2017-2019 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 37 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

3 shared papersBioinformatics

Jinghui ZhangORCID

Mutual co-authors in cluster

Author profile →

3 papers

Recent·Most cited

RNAIndel: a machine-learning framework for discovery of somatic coding indels using tumor RNA-Seq data

Kohei Hagiwara, Liang Ding, Michael N. Edmonson, Stephen V. Rice, Scott Newman, John B. Easton, Juncheng Dai, Soheil Meshinchi, Rhonda E. Ries, Michael Rusch, Jinghui Zhang

RNAIndel identifies somatic coding indels in tumor RNA-Seq data with high sensitivity and low false positives, outperforming existing methods.

Bioinformatics · Oct 1, 2019Peer-reviewedBioinformatics

Pediatric Cancer Variant Pathogenicity Information Exchange (PeCanPIE): A Cloud-based Platform for Curating and Classifying Germline Variants

Michael N. Edmonson, Aman Patel, Dale J. Hedges, Zhaoming Wang, Evadnie Rampersaud, Chimene A. Kesserwan, Xin Zhou, Yanling Liu, Scott Newman, Michael Rusch, Clay McLeod, Mark R. Wilkinson, Stephen V. Rice, Thierry Soussi, J. Paul Taylor, , Jinghui Zhang

PeCanPIE is a cloud-based platform for annotating and classifying germline variants in pediatric cancer, using ACMG guidelines to rank and classify variants from VCF files.

Genome Research · Sep 1, 2019Peer-reviewedBioinformatics

VCF2CNA: A tool for efficiently detecting copy-number alteration in VCF genotype data

Daniel K. Putnam, Ma Xiaotu, Stephen V. Rice, Yu Liu, Jinghui Zhang, Xiang 'Anthony' Chen

VCF2CNA detects copy-number alterations from VCF data with high accuracy and platform independence, outperforming existing methods in neuroblastoma samples.

bioRxiv · Apr 26, 2017 · PreprintGenomics