| The psychencode project S Akbarian, C Liu, JA Knowles, FM Vaccarino, PJ Farnham, GE Crawford, ... Nature neuroscience 18 (12), 1707-1712, 2015 | 326 | 2015 |
| Inferring regulatory element landscapes and transcription factor networks from cancer methylomes L Yao, H Shen, PW Laird, PJ Farnham, BP Berman Genome biology 16, 1-21, 2015 | 187 | 2015 |
| Global loss of DNA methylation uncovers intronic enhancers in genes showing expression changes FPJ Blattler A, Yao L, Witt H, Guo Y, Nicolet CM, Berman BP Genome Biology, 2014 | 184 | 2014 |
| Functional annotation of colon cancer risk SNPs L Yao, YG Tak, BP Berman, PJ Farnham Nature communications 5 (1), 5114, 2014 | 126 | 2014 |
| Cell type-specific binding patterns reveal that TCF7L2 can be tethered to the genome by association with GATA3 S Frietze, R Wang, L Yao, YG Tak, Z Ye, M Gaddis, H Witt, PJ Farnham, ... Genome biology 13, 1-18, 2012 | 125 | 2012 |
| ELMER v. 2: an R/Bioconductor package to reconstruct gene regulatory networks from DNA methylation and transcriptome profiles TC Silva, SG Coetzee, N Gull, L Yao, DJ Hazelett, H Noushmehr, DC Lin, ... Bioinformatics 35 (11), 1974-1977, 2019 | 99 | 2019 |
| Demystifying the secret mission of enhancers: linking distal regulatory elements to target genes L Yao, BP Berman, PJ Farnham Critical reviews in biochemistry and molecular biology 50 (6), 550-573, 2015 | 99 | 2015 |
| ZBTB33 binds unmethylated regions of the genome associated with actively expressed genes A Blattler, L Yao, Y Wang, Z Ye, VX Jin, PJ Farnham Epigenetics & chromatin 6, 1-18, 2013 | 79 | 2013 |
| Identification of activated enhancers and linked transcription factors in breast, prostate, and kidney tumors by tracing enhancer networks using epigenetic traits SK Rhie, Y Guo, YG Tak, L Yao, H Shen, GA Coetzee, PW Laird, ... Epigenetics & chromatin 9, 1-17, 2016 | 57 | 2016 |
| Concordance of genomic alterations by next-generation sequencing in tumor tissue versus cell-free DNA in stage I–IV non–small cell lung cancer J Jiang, HP Adams, L Yao, S Yaung, P Lal, A Balasubramanyam, ... The Journal of Molecular Diagnostics 22 (2), 228-235, 2020 | 43 | 2020 |
| Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing LT Fang, B Zhu, Y Zhao, W Chen, Z Yang, L Kerrigan, K Langenbach, ... Nature biotechnology 39 (9), 1151-1160, 2021 | 41 | 2021 |
| Effects on the transcriptome upon deletion of a distal element cannot be predicted by the size of the H3K27Ac peak in human cells YG Tak, Y Hung, L Yao, MR Grimmer, A Do, MS Bhakta, H O'Geen, ... Nucleic acids research 44 (9), 4123-4133, 2016 | 40 | 2016 |
| Early prediction of clinical outcomes in resected stage II and III colorectal cancer (CRC) through deep sequencing of circulating tumor DNA (ctDNA). M Diehn, AA Alizadeh, HP Adams, JJ Lee, S Klassen, JF Palma, ... Journal of Clinical Oncology 35 (15_suppl), 3591-3591, 2017 | 31 | 2017 |
| Disease monitoring using post-induction circulating tumor DNA analysis following first-line therapy in patients with metastatic colorectal cancer X Max Ma, JC Bendell, HI Hurwitz, C Ju, JJ Lee, A Lovejoy, C Mancao, ... Clinical Cancer Research 26 (15), 4010-4017, 2020 | 28 | 2020 |
| ecTMB: a robust method to estimate and classify tumor mutational burden L Yao, Y Fu, M Mohiyuddin, HYK Lam Scientific reports 10 (1), 4983, 2020 | 21 | 2020 |
| Insights from incorporating quantum computing into drug design workflows B Lau, PS Emani, J Chapman, L Yao, T Lam, P Merrill, J Warrell, ... Bioinformatics 39 (1), btac789, 2023 | 18 | 2023 |
| Plasma-based longitudinal mutation monitoring as a potential predictor of disease progression in subjects with adenocarcinoma in advanced non-small cell lung cancer J Jiang, HP Adams, M Lange, S Siemann, M Feldkamp, S McNamara, ... BMC cancer 20 (1), 885, 2020 | 14 | 2020 |
| Glucose-regulated protein 94 deficiency induces squamous cell metaplasia and suppresses PTEN-null driven endometrial epithelial tumor development J Shen, L Yao, YG Lin, FJ DeMayo, JP Lydon, L Dubeau, AS Lee Oncotarget 7 (12), 14885, 2016 | 10 | 2016 |
| Establishing reference samples for detection of somatic mutations and germline variants with NGS technologies LT Fang, B Zhu, Y Zhao, W Chen, Z Yang, L Kerrigan, K Langenbach, ... bioRxiv, 625624, 2019 | 8 | 2019 |
| Enhancer Linking by Methylation/Expression Relationships with the R package ELMER version 2 T Chedraoui Silva, SG Coetzee, L Yao, DJ Hazelett, H Noushmehr, ... BioRxiv, 148726, 2017 | 5 | 2017 |
Peggy J. FarnhamWIlliam M Keck Professor of Biochemistry, University of Southern CaliforniaVerified email at usc.edu
