| Year |
Citation |
Score |
| 2021 |
He S, Schein A, Sarsani V, Flaherty P. A BAYESIAN NONPARAMETRIC MODEL FOR INFERRING SUBCLONAL POPULATIONS FROM STRUCTURED DNA SEQUENCING DATA. The Annals of Applied Statistics. 15: 925-951. PMID 34262633 DOI: 10.1214/20-aoas1434 |
0.329 |
|
| 2020 |
Giguere C, Dubey HV, Sarsani VK, Saddiki H, He S, Flaherty P. SCSIM: Jointly simulating correlated single-cell and bulk next-generation DNA sequencing data. Bmc Bioinformatics. 21: 215. PMID 32456609 DOI: 10.1186/S12859-020-03550-1 |
0.332 |
|
| 2017 |
Acton E, Lee AH, Zhao PJ, Flibotte S, Neira M, Sinha S, Chiang J, Flaherty P, Nislow C, Giaever G. Comparative functional genomic screens of three yeast deletion collections reveal unexpected effects of genotype in response to diverse stress. Open Biology. 7. PMID 28592509 DOI: 10.1098/Rsob.160330 |
0.346 |
|
| 2017 |
Zhang F, Flaherty P. Variational inference for rare variant detection in deep, heterogeneous next-generation sequencing data. Bmc Bioinformatics. 18: 45. PMID 28103803 DOI: 10.1186/S12859-016-1451-5 |
0.39 |
|
| 2016 |
DeFreitas T, Saddiki H, Flaherty P. GEMINI: a computationally-efficient search engine for large gene expression datasets Bmc Bioinformatics. 17: 102-102. PMID 26911289 DOI: 10.1186/S12859-016-0934-8 |
0.341 |
|
| 2016 |
Trapp AC, Li C, Flaherty P. Recovering all generalized order-preserving submatrices: new exact formulations and algorithms Annals of Operations Research. 1-20. DOI: 10.1007/S10479-016-2173-9 |
0.308 |
|
| 2015 |
He Y, Zhang F, Flaherty P. RVD2: an ultra-sensitive variant detection model for low-depth heterogeneous next-generation sequencing data Bioinformatics. 31: 2785-2793. PMID 25931517 DOI: 10.1093/Bioinformatics/Btv275 |
0.444 |
|
| 2015 |
Telli ML, Jensen KC, Vinayak S, Kurian AW, Lipson JA, Flaherty PJ, Timms K, Abkevich V, Schackmann EA, Wapnir IL, Carlson RW, Chang PJ, Sparano JA, Head B, Goldstein LJ, et al. Phase II Study of Gemcitabine, Carboplatin, and Iniparib As Neoadjuvant Therapy for Triple-Negative and BRCA1/2 Mutation-Associated Breast Cancer With Assessment of a Tumor-Based Measure of Genomic Instability: PrECOG 0105. Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology. 33: 1895-901. PMID 25847929 DOI: 10.1200/Jco.2014.57.0085 |
0.305 |
|
| 2015 |
Saddiki H, McAuliffe J, Flaherty P. GLAD: A mixed-membership model for heterogeneous tumor subtype classification Bioinformatics. 31: 225-232. PMID 25266225 DOI: 10.1093/Bioinformatics/Btu618 |
0.577 |
|
| 2013 |
Lee H, Flaherty P, Ji HP. Systematic genomic identification of colorectal cancer genes delineating advanced from early clinical stage and metastasis. Bmc Medical Genomics. 6: 54. PMID 24308539 DOI: 10.1186/1755-8794-6-54 |
0.314 |
|
| 2013 |
Cushing A, Flaherty P, Hopmans E, Bell JM, Ji HP. RVD: a command-line program for ultrasensitive rare single nucleotide variant detection using targeted next-generation DNA resequencing. Bmc Research Notes. 6: 206. PMID 23701658 DOI: 10.1186/1756-0500-6-206 |
0.374 |
|
| 2013 |
Lee H, Flaherty P, Ji HP. Abstract 2893: Integrated genomic meta-analysis of colorectal cancer by elastic-net. Cancer Research. 73: 2893-2893. DOI: 10.1158/1538-7445.Am2013-2893 |
0.391 |
|
| 2011 |
Flaherty P, Natsoulis G, Muralidharan O, Winters M, Buenrostro J, Bell J, Brown S, Holodniy M, Zhang N, Ji HP. Ultrasensitive detection of rare mutations using next-generation targeted resequencing. Nucleic Acids Research. 40: e2. PMID 22013163 DOI: 10.1093/Nar/Gkr861 |
0.339 |
|
| 2011 |
Telli M, Kurian A, Jensen K, Vinayak S, Flaherty P, Lipson J, Wapnir I, Daniel B, Carlson R, Mills M, Chang P, Schackmann E, Rocha C, Sherman B, Blackwood-Chirchir A, et al. P3-14-08: A Phase II Study of Gemcitabine and Carboplatin (GC) Plus Iniparib (BSI-201) as Neoadjuvant Therapy for Triple-Negative and BRCA1/2 Mutation-Associated Breast Cancer. Cancer Research. 71. DOI: 10.1158/0008-5472.Sabcs11-P3-14-08 |
0.312 |
|
| 2010 |
Schiffman JD, Hodgson JG, VandenBerg SR, Flaherty P, Polley MY, Yu M, Fisher PG, Rowitch DH, Ford JM, Berger MS, Ji H, Gutmann DH, James CD. Oncogenic BRAF mutation with CDKN2A inactivation is characteristic of a subset of pediatric malignant astrocytomas. Cancer Research. 70: 512-9. PMID 20068183 DOI: 10.1158/0008-5472.Can-09-1851 |
0.338 |
|
| 2008 |
Flaherty P, Radhakrishnan ML, Dinh T, Rebres RA, Roach TI, Jordan MI, Arkin AP. A dual receptor crosstalk model of G-protein-coupled signal transduction. Plos Computational Biology. 4: e1000185. PMID 18818727 DOI: 10.1371/Journal.Pcbi.1000185 |
0.431 |
|
| 2005 |
Lee W, St Onge RP, Proctor M, Flaherty P, Jordan MI, Arkin AP, Davis RW, Nislow C, Giaever G. Genome-wide requirements for resistance to functionally distinct DNA-damaging agents. Plos Genetics. 1: e24. PMID 16121259 DOI: 10.1371/Journal.Pgen.0010024 |
0.485 |
|
| 2005 |
Flaherty P, Giaever G, Kumm J, Jordan MI, Arkin AP. A latent variable model for chemogenomic profiling. Bioinformatics (Oxford, England). 21: 3286-93. PMID 15919724 DOI: 10.1093/Bioinformatics/Bti515 |
0.44 |
|
| 2004 |
Giaever G, Flaherty P, Kumm J, Proctor M, Nislow C, Jaramillo DF, Chu AM, Jordan MI, Arkin AP, Davis RW. Chemogenomic profiling: identifying the functional interactions of small molecules in yeast. Proceedings of the National Academy of Sciences of the United States of America. 101: 793-8. PMID 14718668 DOI: 10.1073/Pnas.0307490100 |
0.479 |
|
| 2002 |
Giaever G, Chu AM, Ni L, Connelly C, Riles L, Véronneau S, Dow S, Lucau-Danila A, Anderson K, André B, Arkin AP, Astromoff A, El-Bakkoury M, Bangham R, Benito R, ... ... Flaherty P, et al. Functional profiling of the Saccharomyces cerevisiae genome. Nature. 418: 387-91. PMID 12140549 DOI: 10.1038/Nature00935 |
0.359 |
|
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