Jacob Pfeil

发表

Rapid and efficient analysis of 20,000 RNA-seq samples with Toil

Mary Goldman, Brian Craft, Brian O'Connor, 2016, bioRxiv.

ProTECT—Prediction of T-Cell Epitopes for Cancer Therapy

D. Haussler, B. Paten, S. Salama, 2019, bioRxiv.

Genomic Profiling of Childhood Tumor Patient-Derived Xenograft Models to Enable Rational Clinical Trial Design

Gregory P. Way, Jo Lynne Rokita, D. Haussler, 2019, Cell reports.

Genomic landscape of 261 childhood cancer patient-derived xenograft models

Gregory P. Way, Jo Lynne Rokita, D. Haussler, 2019, bioRxiv.

The case for using Mapped Exonic Non-Duplicate (MEND) read counts in RNA-Seq experiments: examples from pediatric cancer datasets

Holly C. Beale, Lauren M. Sanders, D. Haussler, 2019, bioRxiv.

Barriers to accessing public cancer genomic data

David Haussler, Katrina Learned, Ann Durbin, 2019, Scientific Data.

Comparative RNA-seq analysis aids in diagnosis of a rare pediatric tumor

Holly C. Beale, Lauren M. Sanders, D. Haussler, 2019, Cold Spring Harbor molecular case studies.

Framework for determining accuracy of RNA sequencing data for gene expression profiling of single samples

Holly C. Beale, Lauren M. Sanders, D. Haussler, 2019 .

A Novel Histone Crosstalk Pathway Important for Regulation of UV-Induced DNA Damage Repair in Saccharomyces cerevisiae

Jacob Pfeil, R. Hoffman, Jeffrey S. Thompson, 2017, Genetics.

Genomic Profiling of Childhood Tumor Patient-Derived Xenograft Models to Enable Rational Clinical Trial Design

David Haussler, Jacob Pfeil, Olena Morozova Vaske, 2019, Cell reports.

Drosophila Muller F Elements Maintain a Distinct Set of Genomic Properties Over 40 Million Years of Evolution

Jimmy Ma, Jeremy Buhler, Matt J. Kusner, 2015, G3: Genes, Genomes, Genetics.

Machine learning multi-omics analysis reveals cancer driver dysregulation in pan-cancer cell lines compared to primary tumors

Holly C. Beale, Lauren M. Sanders, D. Haussler, 2022, Communications biology.

Hydra: A mixture modeling framework for subtyping pediatric cancer cohorts using multimodal gene expression signatures

David Haussler, Holly C Beale, Lauren M Sanders, 2020, PLoS Comput. Biol..

Identification of a differentiation stall in epithelial mesenchymal transition in histone H3–mutant diffuse midline glioma

Lauren M Sanders, Holly C. Beale, Lauren M. Sanders, 2020, GigaScience.

Toil enables reproducible, open source, big biomedical data analyses

Mary Goldman, Brian Craft, David Haussler, 2017, Nature Biotechnology.

RNA-Seq Analysis of Gene Expression, Viral Pathogen, and B-Cell/T-Cell Receptor Signatures in Complex Chronic Disease

Scott D. Brown, R. Holt, J. Gardy, 2017, Clinical infectious diseases : an official publication of the Infectious Diseases Society of America.

Genomic Assays for Identification of Chikungunya Virus in Blood Donors, Puerto Rico, 2014

Guixia Yu, Jacob Pfeil, C. Chiu, 2015, Emerging infectious diseases.

Comparative Tumor RNA Sequencing Analysis for Difficult-to-Treat Pediatric and Young Adult Patients With Cancer

David Haussler, Jingchun Zhu, Katrina Learned, 2019, JAMA network open.

The case for using mapped exonic non-duplicate reads when reporting RNA-sequencing depth: examples from pediatric cancer datasets

Holly C. Beale, Lauren M. Sanders, D. Haussler, 2021, GigaScience.

31st Annual Meeting and Associated Programs of the Society for Immunotherapy of Cancer (SITC 2016): part one

Charles J. Vaske, Rohan N. Borkar, Brian D. Kelly, 2016, Journal of Immunotherapy for Cancer.

Complete Response to PD-1 Inhibition in an Adolescent With Relapsed Clear Cell Adenocarcinoma of the Cervix Predicted by Neoepitope Burden and APOBEC Signature

S. Salama, A. Rao, Jacob Pfeil, 2020, JCO precision oncology.

Barriers to accessing public cancer genomic data

Holly C. Beale, Lauren M. Sanders, D. Haussler, 2019, Scientific Data.

Genomic Profiling of Childhood Tumor Patient-Derived Xenograft Models to Enable Rational Clinical Trial Design

D. Haussler, D. Wheeler, P. Raman, 2019, Cell reports.

31st Annual Meeting and Associated Programs of the Society for Immunotherapy of Cancer (SITC 2016): part one

Charles J. Vaske, Rohan N. Borkar, David M. Schauder, 2016, Journal for ImmunoTherapy of Cancer.