Andrew V. Uzilov, Ph.D. - Publications

Affiliations: 
2013 Biomolecular Engineering and Bioinformatics University of California, Santa Cruz, Santa Cruz, CA, United States 
Area:
Bioinformatics Biology

10/29 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2018 Lui LM, Uzilov AV, Bernick DL, Corredor A, Lowe TM, Dennis PP. Methylation guide RNA evolution in archaea: structure, function and genomic organization of 110 C/D box sRNA families across six Pyrobaculum species. Nucleic Acids Research. PMID 29771354 DOI: 10.1093/nar/gky284  0.36
2016 Uzilov AV, Underwood JG. High-Throughput Nuclease Probing of RNA Structures Using FragSeq. Methods in Molecular Biology (Clifton, N.J.). 1490: 105-34. PMID 27665596 DOI: 10.1007/978-1-4939-6433-8_8  0.36
2016 Hakenberg J, Cheng WY, Thomas P, Wang YC, Uzilov AV, Chen R. Integrating 400 million variants from 80,000 human samples with extensive annotations: towards a knowledge base to analyze disease cohorts. Bmc Bioinformatics. 17: 24. PMID 26746786 DOI: 10.1186/s12859-015-0865-9  0.36
2015 Pereira E, Camacho-Vanegas O, Anand S, Sebra R, Catalina Camacho S, Garnar-Wortzel L, Nair N, Moshier E, Wooten M, Uzilov A, Chen R, Prasad-Hayes M, Zakashansky K, Beddoe AM, Schadt E, et al. Personalized Circulating Tumor DNA Biomarkers Dynamically Predict Treatment Response and Survival In Gynecologic Cancers. Plos One. 10: e0145754. PMID 26717006 DOI: 10.1371/journal.pone.0145754  0.36
2015 Ma M, Ru Y, Chuang LS, Hsu NY, Shi LS, Hakenberg J, Cheng WY, Uzilov A, Ding W, Glicksberg BS, Chen R. Disease-associated variants in different categories of disease located in distinct regulatory elements. Bmc Genomics. 16: S3. PMID 26110593 DOI: 10.1186/1471-2164-16-S8-S3  0.36
2010 Underwood JG, Uzilov AV, Katzman S, Onodera CS, Mainzer JE, Mathews DH, Lowe TM, Salama SR, Haussler D. FragSeq: transcriptome-wide RNA structure probing using high-throughput sequencing. Nature Methods. 7: 995-1001. PMID 21057495 DOI: 10.1038/nmeth.1529  0.36
2009 Bradley RK, Uzilov AV, Skinner ME, Bendaña YR, Barquist L, Holmes I. Evolutionary modeling and prediction of non-coding RNAs in Drosophila. Plos One. 4: e6478. PMID 19668382 DOI: 10.1371/journal.pone.0006478  0.36
2009 Skinner ME, Uzilov AV, Stein LD, Mungall CJ, Holmes IH. JBrowse: a next-generation genome browser. Genome Research. 19: 1630-8. PMID 19570905 DOI: 10.1101/gr.094607.109  0.36
2006 Klosterman PS, Uzilov AV, Bendaña YR, Bradley RK, Chao S, Kosiol C, Goldman N, Holmes I. XRate: a fast prototyping, training and annotation tool for phylo-grammars. Bmc Bioinformatics. 7: 428. PMID 17018148 DOI: 10.1186/1471-2105-7-428  0.36
2006 Uzilov AV, Keegan JM, Mathews DH. Detection of non-coding RNAs on the basis of predicted secondary structure formation free energy change. Bmc Bioinformatics. 7: 173. PMID 16566836 DOI: 10.1186/1471-2105-7-173  0.36
Low-probability matches
2021 Uzilov AV, Geer EB. Response to Letter to the Editor from Hélène Lasolle: USP8 and TP53 drivers are associated with CNV in a corticotroph adenoma cohort enriched for aggressive tumors. The Journal of Clinical Endocrinology and Metabolism. PMID 33822973 DOI: 10.1210/clinem/dgab218  0.01
2021 Bangi E, Smibert P, Uzilov AV, Teague AG, Gopinath S, Antipin Y, Chen R, Hecht C, Gruszczynski N, Yon WJ, Malyshev D, Laspina D, Selkridge I, Wang H, Gomez J, et al. A Drosophila platform identifies a novel, personalized therapy for a patient with adenoid cystic carcinoma. Iscience. 24: 102212. PMID 33733072 DOI: 10.1016/j.isci.2021.102212  0.01
2020 Uzilov AV, Taik P, Cheesman KC, Javanmard P, Ying K, Roehnelt A, Wang H, Fink MY, Lau CY, Moe AS, Villar J, Bederson JB, Stewart AF, Donovan MJ, Mahajan M, et al. USP8 and TP53 drivers are associated with CNV in a corticotroph adenoma cohort enriched for aggressive tumors. The Journal of Clinical Endocrinology and Metabolism. PMID 33221858 DOI: 10.1210/clinem/dgaa853  0.01
2019 Bangi E, Ang C, Smibert P, Uzilov AV, Teague AG, Antipin Y, Chen R, Hecht C, Gruszczynski N, Yon WJ, Malyshev D, Laspina D, Selkridge I, Rainey H, Moe AS, et al. A personalized platform identifies trametinib plus zoledronate for a patient with KRAS-mutant metastatic colorectal cancer. Science Advances. 5: eaav6528. PMID 31131321 DOI: 10.1126/sciadv.aav6528  0.01
2019 Fullard JF, Charney AW, Voloudakis G, Uzilov AV, Haroutunian V, Roussos P. Assessment of somatic single-nucleotide variation in brain tissue of cases with schizophrenia. Translational Psychiatry. 9: 21. PMID 30655504 DOI: 10.1038/s41398-018-0342-0  0.01
2019 Kueffner R, Li H, Cheung K, Fink M, Soens Z, Wang J, Siddiqui O, Thiumurthi U, Uzilov A, Song C, Villar J, Pollock A, Jeganathan B, Zimmermann M, Kip NS, et al. VONC: A solution for the clinical assessment of somatic genomic alterations. Journal of Clinical Oncology. 37: e13155-e13155. DOI: 10.1200/JCO.2019.37.15_SUPPL.E13155  0.01
2019 Torrecilla S, Pinyol R, Wang H, Montironi C, Andreu-Oller C, Leow WQ, Moeini A, Oliveira C, Alves VAF, Lachenmayer A, Roessler S, Minguez B, Schirmacher P, Boffetta P, Dufour J, ... ... Uzilov A, et al. THU-497-Molecular fingerprint of hepatocellular carcinoma in patients with non-alcoholic steatohepatitis Journal of Hepatology. 70: e379. DOI: 10.1016/S0618-8278(19)30743-1  0.01
2017 Galsky MD, Wang H, Hahn NM, Twardowski P, Pal SK, Albany C, Fleming MT, Starodub A, Hauke RJ, Yu M, Zhao Q, Sonpavde G, Donovan MJ, Patel VG, Sfakianos JP, ... ... Uzilov AV, et al. Phase 2 Trial of Gemcitabine, Cisplatin, plus Ipilimumab in Patients with Metastatic Urothelial Cancer and Impact of DNA Damage Response Gene Mutations on Outcomes. European Urology. PMID 29248319 DOI: 10.1016/j.eururo.2017.12.001  0.01
2017 Wang H, Bender A, Wang P, Karakose E, Inabnet WB, Libutti SK, Arnold A, Lambertini L, Stang M, Chen H, Kasai Y, Mahajan M, Kinoshita Y, Fernandez-Ranvier G, Becker TC, ... ... Uzilov AV, et al. Insights into beta cell regeneration for diabetes via integration of molecular landscapes in human insulinomas. Nature Communications. 8: 767. PMID 28974674 DOI: 10.1038/s41467-017-00992-9  0.01
2017 Uzilov AV, Cheesman KC, Fink MY, Newman LC, Pandya C, Lalazar Y, Hefti M, Fowkes M, Deikus G, Lau CY, Moe AS, Kinoshita Y, Kasai Y, Zweig M, Gupta A, et al. Identification of a novel RASD1 somatic mutation in a USP8-mutated corticotroph adenoma. Cold Spring Harbor Molecular Case Studies. 3: a001602. PMID 28487882 DOI: 10.1101/mcs.a001602  0.01
2017 Pandya C, Uzilov AV, Bellizzi J, Lau CY, Moe AS, Strahl M, Hamou W, Newman LC, Fink MY, Antipin Y, Yu W, Stevenson M, Cavaco BM, Teh BT, Thakker RV, et al. Genomic profiling reveals mutational landscape in parathyroid carcinomas. Jci Insight. 2: e92061. PMID 28352668 DOI: 10.1172/jci.insight.92061  0.01
2017 Li L, Greene I, Readhead B, Menon MC, Kidd BA, Uzilov AV, Wei C, Philippe N, Schroppel B, He JC, Chen R, Dudley JT, Murphy B. Novel Therapeutics Identification for Fibrosis in Renal Allograft Using Integrative Informatics Approach. Scientific Reports. 7: 39487. PMID 28051114 DOI: 10.1038/srep39487  0.01
2017 Galsky MD, Uzilov AV, McBride RB, Wang H, Patel VG, Sfakianos J, Wang L, Akers N, Iyer G, Solit DB, Saito T, Castillo-Martin M, Hahn NM, Pal SK, Fleming MT, et al. DNA damage response (DDR) gene mutations (mut), mut load, and sensitivity to chemotherapy plus immune checkpoint blockade in urothelial cancer (UC). Journal of Clinical Oncology. 35: 300-300. DOI: 10.1200/JCO.2017.35.6_SUPPL.300  0.01
2016 Martignetti JA, Chen Y, Camacho C, Silvers TR, Razak AR, Gabrail NY, Gerecitano JF, Kalir E, Pereira E, Evans BR, Ramus SJ, Huang F, Priedigkeit N, Rodriguez E, Donovan M, ... ... Uzilov A, et al. INHIBITION OF THE NUCLEAR EXPORT RECEPTOR XPO1 AS A THERAPEUTIC TARGET FOR PLATINUM RESISTANT OVARIAN CANCER. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 27649553 DOI: 10.1158/1078-0432.CCR-16-1333  0.01
2016 Uzilov AV, Ding W, Fink MY, Antipin Y, Brohl AS, Davis C, Lau CY, Pandya C, Shah H, Kasai Y, Powell J, Micchelli M, Castellanos R, Zhang Z, Linderman M, et al. Development and clinical application of an integrative genomic approach to personalized cancer therapy. Genome Medicine. 8: 62. PMID 27245685 DOI: 10.1186/s13073-016-0313-0  0.01
2016 Rykunov D, Beckmann ND, Li H, Uzilov A, Schadt EE, Reva B. A new molecular signature method for prediction of driver cancer pathways from transcriptional data. Nucleic Acids Research. PMID 27098033 DOI: 10.1093/nar/gkw269  0.01
2016 Rozehnal JM, Posner MR, Ang C, Bangi E, Yeykal C, Cagan RL, Dang RP, Donovan M, Uzilov AV, Antipin Y, Schadt EE, Misiukiewicz K. Transgenic drosophila as a drug-screening platform in colorectal cancer and medullary thyroid cancer. Journal of Clinical Oncology. 34: e23164-e23164. DOI: 10.1200/JCO.2016.34.15_SUPPL.E23164  0.01
2016 Rozehnal JM, Ang C, Donovan M, Bangi E, Yeykal C, Cagan RL, Antipin Y, Uzilov AV, Posner MR, Misiukiewicz K. Clinical outcomes in genetically targeted cancer treatment. Journal of Clinical Oncology. 34: e23127-e23127. DOI: 10.1200/jco.2016.34.15_suppl.e23127  0.01
2016 Pereira E, Vanegas O, Anand S, Sebra R, Vanegas S, Garnar-Wortzel L, Nair N, Moshier E, Wooten M, Uzilov A, Chen R, Hayes M, Zakashansky K, Beddoe A, Schadt E, et al. Personalized circulating tumor DNA biomarkers dynamically predict treatment response and survival in gynecologic cancers Gynecologic Oncology. 141: 3-4. DOI: 10.1016/j.ygyno.2016.04.036  0.01
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