| Genetic effects on gene expression across human tissues GTEx Consortium Lead analysts: Aguet François 1 Brown Andrew A. 2 3 4 Castel ... Nature 550 (7675), 204-213, 2017 | 3266 | 2017 |
| Toil enables reproducible, open source, big biomedical data analyses J Vivian, AA Rao, FA Nothaft, C Ketchum, J Armstrong, A Novak, J Pfeil, ... Nature biotechnology 35 (4), 314-316, 2017 | 989 | 2017 |
| The UCSC genome browser database: 2017 update C Tyner, GP Barber, J Casper, H Clawson, M Diekhans, C Eisenhart, ... Nucleic acids research 45 (D1), D626-D634, 2017 | 377 | 2017 |
| Error rates for nanopore discrimination among cytosine, methylcytosine, and hydroxymethylcytosine along individual DNA strands J Schreiber, ZL Wescoe, R Abu-Shumays, JT Vivian, B Baatar, K Karplus, ... Proceedings of the National Academy of Sciences 110 (47), 18910-18915, 2013 | 200 | 2013 |
| Comparative tumor RNA sequencing analysis for difficult-to-treat pediatric and young adult patients with cancer OM Vaske, I Bjork, SR Salama, H Beale, AT Shah, L Sanders, J Pfeil, ... JAMA network open 2 (10), e1913968-e1913968, 2019 | 45 | 2019 |
| Rapid and efficient analysis of 20,000 RNA-seq samples with Toil J Vivian, A Rao, FA Nothaft, C Ketchum, J Armstrong, A Novak, J Pfeil, ... bioRxiv, 062497, 2016 | 26 | 2016 |
| Bayesian framework for detecting gene expression outliers in individual samples J Vivian, JM Eizenga, HC Beale, OM Vaske, B Paten JCO Clinical Cancer Informatics 4, 160-170, 2020 | 7 | 2020 |
| Identifying confidently measured genes in single pediatric cancer patient samples using RNA sequencing H Beale, DL Lam, J Vivian, Y Newton, AT Shah, I Bjork, T Goldstein, ... Cancer Research 77 (13_Supplement), 2466-2466, 2017 | 2 | 2017 |
| A pan-cancer analysis framework for incorporating gene expression information into clinical interpretation of pediatric cancer genomic data O Morozova, Y Newton, AT Shah, H Beale, DL Lam, J Vivian, I Bjork, ... Cancer Research 77 (13_Supplement), 4890-4890, 2017 | 2 | 2017 |
| Mobilization of innate and adaptive antitumor immune responses by the RNP-targeting antibody ATRC-101 A Scholz, J DeFalco, Y Leung, IT Aydin, CJ Czupalla, W Cao, D Santos, ... Proceedings of the National Academy of Sciences 119 (19), e2123483119, 2022 | 1 | 2022 |
| The case for using mapped exonic non-duplicate reads when reporting RNA-sequencing depth: examples from pediatric cancer datasets HC Beale, JM Roger, MA Cattle, LT McKay, DKA Thompson, K Learned, ... GigaScience 10 (3), giab011, 2021 | 1 | 2021 |
| Tools for Large-scale Genomic Analysis and Gene Expression Outlier Modeling for Precision Therapeutics J Vivian University of California, Santa Cruz, 2019 | 1 | 2019 |
| 469 Cooperation between checkpoint inhibitors targeting the PD-1/PD-L1 axis and ATRC-101, a novel clinical-stage candidate for the treatment of solid tissue malignancies A Manning-Bog, J DeFalco, A Scholz, I Aydin, N Vad, C Czupalla, F Chu, ... Journal for ImmunoTherapy of Cancer 8 (Suppl 3), 2020 | | 2020 |
| 689 ATRC-101 Drives Potent Single-Agent Activity in Mouse Syngeneic Tumor Models via a Novel Cellular Mechanism of Action Y Leung, N Vad, A Ye, D Santos, W Cao, C Czupalla, J Vivian, C Williams, ... Journal for ImmunoTherapy of Cancer 8 (Suppl 3), 2020 | | 2020 |
| Determining accuracy of RNA sequencing data for gene expression profiling of single samples HC Beale, JM Roger, MA Cattle, LT McKay, K Learned, G Lyle, ... Cancer Research 80 (16_Supplement), 5464-5464, 2020 | | 2020 |
| The case for using Mapped Exonic Non-Duplicate (MEND) read counts in RNA-Seq experiments: examples from pediatric cancer datasets HC Beale, JM Roger, MA Cattle, LT McKay, DKA Thomson, K Learned, ... | | 2019 |
| Framework for determining accuracy of RNA sequencing data for gene expression profiling of single samples HC Beale, JM Roger, MA Cattle, LT McKay, K Learned, AG Lyle, ... bioRxiv, 716829, 2019 | | 2019 |
| UCSC Genome Browser C Tyner, GP Barber, J Casper, H Clawson, M Diekhans, C Eisenhart, ... | | 2016 |
Mark AkesonProfessor of Biomolecular Engineering, UC Santa CruzVerified email at soe.ucsc.edu
