Kathleen Fisch

Title(s)Assistant Adjunct Professor, Ob/Gyn & Reproductive sciences
SchoolVc-health Sciences-schools
Address9500 Gilman Drive #
La Jolla CA 92093
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    Collapse Biography 
    Collapse Education and Training
    University of California, BerkeleyB.A.Integrative Biology
    University of California, DavisPh.D.Ecology: Population Genetics

    Collapse Overview 
    Collapse Overview
    Kathleen Fisch, Ph.D. is an Assistant Professor in the Department of Obstetrics, Gynecology and Reproductive Sciences, in the Division of Maternal-Fetal Medicine. She serves as the Faculty Director of the Center for Computational Biology & Bioinformatics (CCBB) and as the Co-Director of the ACTRI Center for Excellence in Translational Immunogenomics (CETI). Dr. Fisch spearheads the development of a vibrant, leading edge vision for computational genomics, bioinformatics support and infrastructure at UCSD Health Sciences.

    Collapse Research 
    Collapse Research Activities and Funding
    Female Reproductive Tissue Mapping Center
    NIH U54HD104393Sep 25, 2020 - Aug 31, 2022
    Role: Co-Investigator, Project Lead - Data Analysis Core
    Omics Data Generation Center (ODGC) for the Acute to Chronic Pain Signatures (A2CPS) Program
    NIH U54DA049115Sep 1, 2019 - Jul 31, 2023
    Role: Principal Investigator (MPI)
    UC San Diego Clinical and Translational Research Institute
    NIH 2UL1TR001442-06Aug 13, 2015 - Apr 30, 2025
    Role: Co-Investigator, Co-Director - Center for Excellence in Translational Immunogenomics (CETI)

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. A Novel Hypomorphic Apex1 Mouse Model Implicates Apurinic/Apyrimidinic Endonuclease 1 in Oxidative DNA Damage Repair in Gastric Epithelial Cells. Antioxid Redox Signal. 2022 Aug 29. Rios-Covian D, Butcher LD, Ablack AL, den Hartog G, Matsubara MT, Ly H, Oates AW, Xu G, Fisch KM, Ahrens ET, Toden S, Brown CC, Kim K, Le D, Eckmann L, Dhar B, Izumi T, Ernst PB, Crowe SE. PMID: 35754343.
      View in: PubMed   Mentions:    Fields:    
    2. Mutant Huntingtin Protein Interaction Map Implicates Dysregulation of Multiple Cellular Pathways in Neurodegeneration of Huntington's Disease. J Huntingtons Dis. 2022 Jul 15. Podvin S, Rosenthal SB, Poon W, Wei E, Fisch KM, Hook V. PMID: 35871359.
      View in: PubMed   Mentions:    Fields:    
    3. Wastewater sequencing reveals early cryptic SARS-CoV-2 variant transmission. Nature. 2022 09; 609(7925):101-108. Karthikeyan S, Levy JI, De Hoff P, Humphrey G, Birmingham A, Jepsen K, Farmer S, Tubb HM, Valles T, Tribelhorn CE, Tsai R, Aigner S, Sathe S, Moshiri N, Henson B, Mark AM, Hakim A, Baer NA, Barber T, Belda-Ferre P, Chacón M, Cheung W, Cresini ES, Eisner ER, Lastrella AL, Lawrence ES, Marotz CA, Ngo TT, Ostrander T, Plascencia A, Salido RA, Seaver P, Smoot EW, McDonald D, Neuhard RM, Scioscia AL, Satterlund AM, Simmons EH, Abelman DB, Brenner D, Bruner JC, Buckley A, Ellison M, Gattas J, Gonias SL, Hale M, Hawkins F, Ikeda L, Jhaveri H, Johnson T, Kellen V, Kremer B, Matthews G, McLawhon RW, Ouillet P, Park D, Pradenas A, Reed S, Riggs L, Sanders A, Sollenberger B, Song A, White B, Winbush T, Aceves CM, Anderson C, Gangavarapu K, Hufbauer E, Kurzban E, Lee J, Matteson NL, Parker E, Perkins SA, Ramesh KS, Robles-Sikisaka R, Schwab MA, Spencer E, Wohl S, Nicholson L, McHardy IH, Dimmock DP, Hobbs CA, Bakhtar O, Harding A, Mendoza A, Bolze A, Becker D, Cirulli ET, Isaksson M, Schiabor Barrett KM, Washington NL, Malone JD, Schafer AM, Gurfield N, Stous S, Fielding-Miller R, Garfein RS, Gaines T, Anderson C, Martin NK, Schooley R, Austin B, MacCannell DR, Kingsmore SF, Lee W, Shah S, McDonald E, Yu AT, Zeller M, Fisch KM, Longhurst C, Maysent P, Pride D, Khosla PK, Laurent LC, Yeo GW, Andersen KG, Knight R. PMID: 35798029; PMCID: PMC9433318.
      View in: PubMed   Mentions: 2     Fields:    
    4. Derivation of functional trophoblast stem cells from primed human pluripotent stem cells. Stem Cell Reports. 2022 06 14; 17(6):1303-1317. Soncin F, Morey R, Bui T, Requena DF, Cheung VC, Kallol S, Kittle R, Jackson MG, Farah O, Dumdie J, Meads M, Pizzo D, Horii M, Fisch KM, Parast MM. PMID: 35594858; PMCID: PMC9214048.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    5. Nonalcoholic fatty liver disease risk and histologic severity are associated with genetic polymorphisms in children. Hepatology. 2022 May 13. Goyal NP, Rosenthal SB, Nasamran C, Behling CA, Angeles JE, Fishbein MH, Harlow KE, Jain AK, Molleston JP, Newton KP, Ugalde-Nicalo P, Xanthankos SA, Yates K, Schork NJ, Fisch KM, Schwimmer JB, NASH Clinical Research Network. PMID: 35560106.
      View in: PubMed   Mentions:    Fields:    
    6. Multi-Site Observational Study to Assess Biomarkers for Susceptibility or Resilience to Chronic Pain: The Acute to Chronic Pain Signatures (A2CPS) Study Protocol. Front Med (Lausanne). 2022; 9:849214. Berardi G, Frey-Law L, Sluka KA, Bayman EO, Coffey CS, Ecklund D, Vance CGT, Dailey DL, Burns J, Buvanendran A, McCarthy RJ, Jacobs J, Zhou XJ, Wixson R, Balach T, Brummett CM, Clauw D, Colquhoun D, Harte SE, Harris RE, Williams DA, Chang AC, Waljee J, Fisch KM, Jepsen K, Laurent LC, Olivier M, Langefeld CD, Howard TD, Fiehn O, Jacobs JM, Dakup P, Qian WJ, Swensen AC, Lokshin A, Lindquist M, Caffo BS, Crainiceanu C, Zeger S, Kahn A, Wager T, Taub M, Ford J, Sutherland SP, Wandner LD. PMID: 35547202; PMCID: PMC9082267.
      View in: PubMed   Mentions:
    7. Wastewater sequencing uncovers early, cryptic SARS-CoV-2 variant transmission. medRxiv. 2022 Apr 04. Karthikeyan S, Levy JI, De Hoff P, Humphrey G, Birmingham A, Jepsen K, Farmer S, Tubb HM, Valles T, Tribelhorn CE, Tsai R, Aigner S, Sathe S, Moshiri N, Henson B, Mark AM, Hakim A, Baer NA, Barber T, Belda-Ferre P, Chacón M, Cheung W, Cresini ES, Eisner ER, Lastrella AL, Lawrence ES, Marotz CA, Ngo TT, Ostrander T, Plascencia A, Salido RA, Seaver P, Smoot EW, McDonald D, Neuhard RM, Scioscia AL, Satterlund AM, Simmons EH, Abelman DB, Brenner D, Bruner JC, Buckley A, Ellison M, Gattas J, Gonias SL, Hale M, Hawkins F, Ikeda L, Jhaveri H, Johnson T, Kellen V, Kremer B, Matthews G, McLawhon RW, Ouillet P, Park D, Pradenas A, Reed S, Riggs L, Sanders A, Sollenberger B, Song A, White B, Winbush T, Aceves CM, Anderson C, Gangavarapu K, Hufbauer E, Kurzban E, Lee J, Matteson NL, Parker E, Perkins SA, Ramesh KS, Robles-Sikisaka R, Schwab MA, Spencer E, Wohl S, Nicholson L, Mchardy IH, Dimmock DP, Hobbs CA, Bakhtar O, Harding A, Mendoza A, Bolze A, Becker D, Cirulli ET, Isaksson M, Barrett KMS, Washington NL, Malone JD, Schafer AM, Gurfield N, Stous S, Fielding-Miller R, Garfein RS, Gaines T, Anderson C, Martin NK, Schooley R, Austin B, MacCannell DR, Kingsmore SF, Lee W, Shah S, McDonald E, Yu AT, Zeller M, Fisch KM, Longhurst C, Maysent P, Pride D, Khosla PK, Laurent LC, Yeo GW, Andersen KG, Knight R. PMID: 35411350; PMCID: PMC8996633.
      View in: PubMed   Mentions:
    8. The Host-Microbiome Response to Hyperbaric Oxygen Therapy in Ulcerative Colitis Patients. Cell Mol Gastroenterol Hepatol. 2022; 14(1):35-53. Gonzalez CG, Mills RH, Kordahi MC, Carrillo-Terrazas M, Secaira-Morocho H, Widjaja CE, Tsai MS, Mittal Y, Yee BA, Vargas F, Weldon K, Gauglitz JM, Delaroque C, Sauceda C, Rossitto LA, Ackermann G, Humphrey G, Swafford AD, Siegel CA, Buckey JC, Raffals LE, Sadler C, Lindholm P, Fisch KM, Valaseck M, Suriawinata A, Yeo GW, Ghosh P, Chang JT, Chu H, Dorrestein P, Zhu Q, Chassaing B, Knight R, Gonzalez DJ, Dulai PS. PMID: 35378331; PMCID: PMC9117812.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimals
    9. The Lung Microenvironment Instructs Gene Transcription in Neonatal and Adult Alveolar Macrophages. J Immunol. 2022 04 15; 208(8):1947-1959. Honda A, Hoeksema MA, Sakai M, Lund SJ, Lakhdari O, Butcher LD, Rambaldo TC, Sekiya NM, Nasamran CA, Fisch KM, Sajti E, Glass CK, Prince LS. PMID: 35354612; PMCID: PMC9012679.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    10. The ViReflow pipeline enables user friendly large scale viral consensus genome reconstruction. Sci Rep. 2022 03 24; 12(1):5077. Moshiri N, Fisch KM, Birmingham A, DeHoff P, Yeo GW, Jepsen K, Laurent LC, Knight R. PMID: 35332213; PMCID: PMC8943356.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCellsPHPublic Health
    11. Machine learning approach to predicting persistent opioid use following lower extremity joint arthroplasty. Reg Anesth Pain Med. 2022 05; 47(5):313-319. Gabriel RA, Harjai B, Prasad RS, Simpson S, Chu I, Fisch KM, Said ET. PMID: 35115414; PMCID: PMC8961772.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    12. Corrigendum: Transcriptional Time Course After Rotator Cuff Tear. Front Physiol. 2021; 12:775297. Vasquez-Bolanos LS, Gibbons MC, Ruoss S, Wu IT, Vargas-Vila M, Hyman SA, Esparza MC, Fithian DC, Lane JG, Singh A, Nasamran CA, Fisch KM, Ward SR. PMID: 34777027; PMCID: PMC8589024.
      View in: PubMed   Mentions:
    13. Wastewater and surface monitoring to detect COVID-19 in elementary school settings: The Safer at School Early Alert project. medRxiv. 2021 Oct 20. Fielding-Miller R, Karthikeyan S, Gaines T, Garfein RS, Salido R, Cantu V, Kohn L, Martin NK, Wijaya C, Flores M, Omaleki V, Majnoonian A, Gonzalez-Zuniga P, Nguyen M, Vo AV, Le T, Duong D, Hassani A, Dahl A, Tweeten S, Jepsen K, Henson B, Hakim A, Birmingham A, Mark AM, Nasamran CA, Rosenthal SB, Moshiri N, Fisch KM, Humphrey G, Farmer S, Tubb HM, Valles T, Morris J, Kang J, Khaleghi B, Young C, Akel AD, Eilert S, Eno J, Curewitz K, Laurent LC, Rosing T, SEARCH, Knight R. PMID: 34704096; PMCID: PMC8547528.
      View in: PubMed   Mentions: 1  
    14. Extrachromosomal DNA in HPV-Mediated Oropharyngeal Cancer Drives Diverse Oncogene Transcription. Clin Cancer Res. 2021 12 15; 27(24):6772-6786. Pang J, Nguyen N, Luebeck J, Ball L, Finegersh A, Ren S, Nakagawa T, Flagg M, Sadat S, Mischel PS, Xu G, Fisch K, Guo T, Cahill G, Panuganti B, Bafna V, Califano J. PMID: 34548317; PMCID: PMC8710294.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    15. Resurgence of SARS-CoV-2 Infection in a Highly Vaccinated Health System Workforce. N Engl J Med. 2021 09 30; 385(14):1330-1332. Keehner J, Horton LE, Binkin NJ, Laurent LC, SEARCH Alliance, Pride D, Longhurst CA, Abeles SR, Torriani FJ. PMID: 34469645; PMCID: PMC8451183.
      View in: PubMed   Mentions: 47     Fields:    Translation:HumansCellsPHPublic Health
    16. A convergent molecular network underlying autism and congenital heart disease. Cell Syst. 2021 11 17; 12(11):1094-1107.e6. Rosenthal SB, Willsey HR, Xu Y, Mei Y, Dea J, Wang S, Curtis C, Sempou E, Khokha MK, Chi NC, Willsey AJ, Fisch KM, Ideker T. PMID: 34411509; PMCID: PMC8602730.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
    17. Transcriptional Time Course After Rotator Cuff Tear. Front Physiol. 2021; 12:707116. Vasquez-Bolanos LS, Gibbons MC, Ruoss S, Wu IT, Vargas-Vila M, Hyman SA, Esparza MC, Fithian DC, Lane JG, Singh A, Nasamran CA, Fisch KM, Ward SR. PMID: 34421646; PMCID: PMC8378535.
      View in: PubMed   Mentions:
    18. Transient genomic instability drives tumorigenesis through accelerated clonal evolution. Genes Dev. 2021 08 01; 35(15-16):1093-1108. Shoshani O, Bakker B, de Haan L, Tijhuis AE, Wang Y, Kim DH, Maldonado M, Demarest MA, Artates J, Zhengyu O, Mark A, Wardenaar R, Sasik R, Spierings DCJ, Vitre B, Fisch K, Foijer F, Cleveland DW. PMID: 34266887; PMCID: PMC8336898.
      View in: PubMed   Mentions: 8     Fields:    Translation:AnimalsCells
    19. Extremes of age are associated with differences in the expression of selected pattern recognition receptor genes and ACE2, the receptor for SARS-CoV-2: implications for the epidemiology of COVID-19 disease. BMC Med Genomics. 2021 05 24; 14(1):138. Bickler SW, Cauvi DM, Fisch KM, Prieto JM, Sykes AG, Thangarajah H, Lazar DA, Ignacio RC, Gerstmann DR, Ryan AF, Bickler PE, De Maio A. PMID: 34030677; PMCID: PMC8142073.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    20. NASA GeneLab RNA-seq consensus pipeline: standardized processing of short-read RNA-seq data. iScience. 2021 Apr 23; 24(4):102361. Overbey EG, Saravia-Butler AM, Zhang Z, Rathi KS, Fogle H, da Silveira WA, Barker RJ, Bass JJ, Beheshti A, Berrios DC, Blaber EA, Cekanaviciute E, Costa HA, Davin LB, Fisch KM, Gebre SG, Geniza M, Gilbert R, Gilroy S, Hardiman G, Herranz R, Kidane YH, Kruse CPS, Lee MD, Liefeld T, Lewis NG, McDonald JT, Meller R, Mishra T, Perera IY, Ray S, Reinsch SS, Rosenthal SB, Strong M, Szewczyk NJ, Tahimic CGT, Taylor DM, Vandenbrink JP, Villacampa A, Weging S, Wolverton C, Wyatt SE, Zea L, Costes SV, Galazka JM. PMID: 33870146; PMCID: PMC8044432.
      View in: PubMed   Mentions: 3  
    21. Strategies to Identify Mesenchymal Stromal Cells in Minimally Manipulated Human Bone Marrow Aspirate Concentrate Lack Consensus. Am J Sports Med. 2021 04; 49(5):1313-1322. Ruoss S, Walker JT, Nasamran CA, Fisch KM, Paez CJ, Parekh JN, Ball ST, Chen JL, Ahmed SS, Ward SR. PMID: 33646886; PMCID: PMC8409176.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    22. Activation of NF-κB and p300/CBP potentiates cancer chemoimmunotherapy through induction of MHC-I antigen presentation. Proc Natl Acad Sci U S A. 2021 02 23; 118(8). Zhou Y, Bastian IN, Long MD, Dow M, Li W, Liu T, Ngu RK, Antonucci L, Huang JY, Phung QT, Zhao XH, Banerjee S, Lin XJ, Wang H, Dang B, Choi S, Karin D, Su H, Ellisman MH, Jamieson C, Bosenberg M, Cheng Z, Haybaeck J, Kenner L, Fisch KM, Bourgon R, Hernandez G, Lill JR, Liu S, Carter H, Mellman I, Karin M, Shalapour S. PMID: 33602823; PMCID: PMC7923353.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansAnimalsCells
    23. Differential blood DNA methylation across Lewy body dementias. Alzheimers Dement (Amst). 2021; 13(1):e12156. Nasamran CA, Sachan ANS, Mott J, Kuras YI, Scherzer CR, Study HB, Ricciardelli E, Jepsen K, Edland SD, Fisch KM, Desplats P. PMID: 33665346; PMCID: PMC7896631.
      View in: PubMed   Mentions: 1  
    24. Inflammation-driven deaminase deregulation fuels human pre-leukemia stem cell evolution. Cell Rep. 2021 01 26; 34(4):108670. Jiang Q, Isquith J, Ladel L, Mark A, Holm F, Mason C, He Y, Mondala P, Oliver I, Pham J, Ma W, Reynoso E, Ali S, Morris IJ, Diep R, Nasamran C, Xu G, Sasik R, Rosenthal SB, Birmingham A, Coso S, Pineda G, Crews L, Donohoe ME, Venter JC, Whisenant T, Mesa RA, Alexandrov LB, Fisch KM, Jamieson C. PMID: 33503434; PMCID: PMC8477897.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    25. Comprehensive Multi-omics Analysis Reveals Mitochondrial Stress as a Central Biological Hub for Spaceflight Impact. Cell. 2020 11 25; 183(5):1185-1201.e20. da Silveira WA, Fazelinia H, Rosenthal SB, Laiakis EC, Kim MS, Meydan C, Kidane Y, Rathi KS, Smith SM, Stear B, Ying Y, Zhang Y, Foox J, Zanello S, Crucian B, Wang D, Nugent A, Costa HA, Zwart SR, Schrepfer S, Elworth RAL, Sapoval N, Treangen T, MacKay M, Gokhale NS, Horner SM, Singh LN, Wallace DC, Willey JS, Schisler JC, Meller R, McDonald JT, Fisch KM, Hardiman G, Taylor D, Mason CE, Costes SV, Beheshti A. PMID: 33242417; PMCID: PMC7870178.
      View in: PubMed   Mentions: 42     Fields:    Translation:HumansAnimalsCells
    26. A New Era for Space Life Science: International Standards for Space Omics Processing. Patterns (N Y). 2020 Dec 11; 1(9):100148. Rutter L, Barker R, Bezdan D, Cope H, Costes SV, Degoricija L, Fisch KM, Gabitto MI, Gebre S, Giacomello S, Gilroy S, Green SJ, Mason CE, Reinsch SS, Szewczyk NJ, Taylor DM, Galazka JM, Herranz R, Muratani M. PMID: 33336201; PMCID: PMC7733874.
      View in: PubMed   Mentions: 11  
    27. Metabolomic profiles associated with a mouse model of antipsychotic-induced food intake and weight gain. Sci Rep. 2020 10 29; 10(1):18581. Zapata RC, Rosenthal SB, Fisch K, Dao K, Jain M, Osborn O. PMID: 33122657; PMCID: PMC7596057.
      View in: PubMed   Mentions:    Fields:    Translation:Animals
    28. HPV E2, E4, E5 drive alternative carcinogenic pathways in HPV positive cancers. Oncogene. 2020 10; 39(40):6327-6339. Ren S, Gaykalova DA, Guo T, Favorov AV, Fertig EJ, Tamayo P, Callejas-Valera JL, Allevato M, Gilardi M, Santos J, Fukusumi T, Sakai A, Ando M, Sadat S, Liu C, Xu G, Fisch KM, Wang Z, Molinolo AA, Gutkind JS, Ideker T, Koch WM, Califano JA. PMID: 32848210; PMCID: PMC7529583.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansAnimalsCells
    29. Aberrant expression of CPSF1 promotes head and neck squamous cell carcinoma via regulating alternative splicing. PLoS One. 2020; 15(5):e0233380. Sakai A, Ando M, Fukusumi T, Ren S, Liu C, Qualliotine J, Haft S, Sadat S, Saito Y, Guo TW, Xu G, Sasik R, Fisch KM, Gutkind JS, Fertig EJ, Molinolo AA, Califano JA. PMID: 32437477; PMCID: PMC7241804.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    30. Differential expression of nuclear genes encoding mitochondrial proteins from urban and rural populations in Morocco. Cell Stress Chaperones. 2020 11; 25(6):847-856. Bickler SW, Prieto JM, Cauvi DM, De Cos V, Nasamran C, Ameh E, Amin S, Nicholson S, Din H, Mocumbi AO, Noormahomed EV, Tellez-Isaias G, Fisch KM, De Maio A. PMID: 32319023; PMCID: PMC7591688.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    31. Single-Cell Transcriptomes Reveal a Complex Cellular Landscape in the Middle Ear and Differential Capacities for Acute Response to Infection. Front Genet. 2020; 11:358. Ryan AF, Nasamran CA, Pak K, Draf C, Fisch KM, Webster N, Kurabi A. PMID: 32351546; PMCID: PMC7174727.
      View in: PubMed   Mentions: 11  
    32. Increased Fibrogenic Gene Expression in Multifidus Muscles of Patients With Chronic Versus Acute Lumbar Spine Pathology. Spine (Phila Pa 1976). 2020 Feb 15; 45(4):E189-E195. Shahidi B, Fisch KM, Gibbons MC, Ward SR. PMID: 31513095; PMCID: PMC6994378.
      View in: PubMed   Mentions: 7     Fields:    Translation:Humans
    33. Rational genomic optimization of DNA detection for human papillomavirus type 16 in head and neck squamous cell carcinoma. Head Neck. 2020 04; 42(4):688-697. Saito Y, Favorov AV, Forman M, Ren S, Sakai A, Fukusumi T, Liu C, Sadat S, Ando M, Xu G, Khan Z, Pang J, Valsamakis A, Fisch KM, Califano JA. PMID: 31850594; PMCID: PMC7699136.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    34. FAK activity sustains intrinsic and acquired ovarian cancer resistance to platinum chemotherapy. Elife. 2019 09 03; 8. Diaz Osterman CJ, Ozmadenci D, Kleinschmidt EG, Taylor KN, Barrie AM, Jiang S, Bean LM, Sulzmaier FJ, Jean C, Tancioni I, Anderson K, Uryu S, Cordasco EA, Li J, Chen XL, Fu G, Ojalill M, Rappu P, Heino J, Mark AM, Xu G, Fisch KM, Kolev VN, Weaver DT, Pachter JA, Gyorffy B, McHale MT, Connolly DC, Molinolo A, Stupack DG, Schlaepfer DD. PMID: 31478830; PMCID: PMC6721800.
      View in: PubMed   Mentions: 33     Fields:    Translation:HumansAnimalsCells
    35. Mechanisms of vascular permeability and remodeling associated with hemarthrosis in factor VIII-deficient mice. J Thromb Haemost. 2019 11; 17(11):1815-1826. Cooke EJ, Wyseure T, Zhou JY, Gopal S, Nasamran CA, Fisch KM, Manon-Jensen T, Karsdal MA, Mosnier LO, von Drygalski A. PMID: 31301687; PMCID: PMC6824926.
      View in: PubMed   Mentions: 3     Fields:    Translation:Animals
    36. Integrating Gene and Protein Expression Reveals Perturbed Functional Networks in Alzheimer's Disease. Cell Rep. 2019 07 23; 28(4):1103-1116.e4. Canchi S, Raao B, Masliah D, Rosenthal SB, Sasik R, Fisch KM, De Jager PL, Bennett DA, Rissman RA. PMID: 31340147; PMCID: PMC7503200.
      View in: PubMed   Mentions: 26     Fields:    Translation:HumansCells
    37. Publisher Correction: Chromatin dysregulation and DNA methylation at transcription start sites associated with transcriptional repression in cancers. Nat Commun. 2019 May 29; 10(1):2415. Ando M, Saito Y, Xu G, Bui NQ, Medetgul-Ernar K, Pu M, Fisch K, Ren S, Sakai A, Fukusumi T, Liu C, Haft S, Pang J, Mark A, Gaykalova DA, Guo T, Favorov AV, Yegnasubramanian S, Fertig EJ, Ha P, Tamayo P, Yamasoba T, Ideker T, Messer K, Califano JA. PMID: 31142745; PMCID: PMC6541594.
      View in: PubMed   Mentions: 1     Fields:    
    38. Chromatin dysregulation and DNA methylation at transcription start sites associated with transcriptional repression in cancers. Nat Commun. 2019 05 16; 10(1):2188. Ando M, Saito Y, Xu G, Bui NQ, Medetgul-Ernar K, Pu M, Fisch K, Ren S, Sakai A, Fukusumi T, Liu C, Haft S, Pang J, Mark A, Gaykalova DA, Guo T, Favorov AV, Yegnasubramanian S, Fertig EJ, Ha P, Tamayo P, Yamasoba T, Ideker T, Messer K, Califano JA. PMID: 31097695; PMCID: PMC6522544.
      View in: PubMed   Mentions: 34     Fields:    Translation:HumansCells
    39. A Multiscale Map of the Stem Cell State in Pancreatic Adenocarcinoma. Cell. 2019 04 18; 177(3):572-586.e22. Lytle NK, Ferguson LP, Rajbhandari N, Gilroy K, Fox RG, Deshpande A, Schürch CM, Hamilton M, Robertson N, Lin W, Noel P, Wartenberg M, Zlobec I, Eichmann M, Galván JA, Karamitopoulou E, Gilderman T, Esparza LA, Shima Y, Spahn P, French R, Lewis NE, Fisch KM, Sasik R, Rosenthal SB, Kritzik M, Von Hoff D, Han H, Ideker T, Deshpande AJ, Lowy AM, Adams PD, Reya T. PMID: 30955884; PMCID: PMC6711371.
      View in: PubMed   Mentions: 44     Fields:    Translation:HumansAnimalsCells
    40. Mutation of chromatin regulators and focal hotspot alterations characterize human papillomavirus-positive oropharyngeal squamous cell carcinoma. Cancer. 2019 07 15; 125(14):2423-2434. Haft S, Ren S, Xu G, Mark A, Fisch K, Guo TW, Khan Z, Pang J, Ando M, Liu C, Sakai A, Fukusumi T, Califano JA. PMID: 30933315; PMCID: PMC6602825.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    41. DNA methylation changes associated with Parkinson's disease progression: outcomes from the first longitudinal genome-wide methylation analysis in blood. Epigenetics. 2019 04; 14(4):365-382. Henderson-Smith A, Fisch KM, Hua J, Liu G, Ricciardelli E, Jepsen K, Huentelman M, Stalberg G, Edland SD, Scherzer CR, Dunckley T, Desplats P. PMID: 30871403; PMCID: PMC6557551.
      View in: PubMed   Mentions: 24     Fields:    Translation:HumansCells
    42. On entropy and information in gene interaction networks. Bioinformatics. 2019 03 01; 35(5):815-822. Wallace ZS, Rosenthal SB, Fisch KM, Ideker T, Sasik R. PMID: 30102349; PMCID: PMC7245360.
      View in: PubMed   Mentions: 6     Fields:    Translation:Humans
    43. Variations in HPV function are associated with survival in squamous cell carcinoma. JCI Insight. 2019 Jan 10; 4(1). Gleber-Netto FO, Rao X, Guo T, Xi Y, Gao M, Shen L, Erikson K, Kalu NN, Ren S, Xu G, Fisch KM, Akagi K, Seiwert T, Gillison M, Frederick MJ, Johnson FM, Wang J, Myers JN, Califano J, Skinner HD, Pickering CR. PMID: 30626753; PMCID: PMC6485353.
      View in: PubMed   Mentions: 29     Fields:    
    44. Biological Interpretation of Complex Genomic Data. Methods Mol Biol. 2019; 1908:61-71. Fisch KM. PMID: 30649721; PMCID: PMC7269365.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    45. A Conservation Hatchery Population of Delta Smelt Shows Evidence of Genetic Adaptation to Captivity After 9 Generations. J Hered. 2018 08 24; 109(6):689-699. Finger AJ, Mahardja B, Fisch KM, Benjamin A, Lindberg J, Ellison L, Ghebremariam T, Hung TC, May B. PMID: 30016452.
      View in: PubMed   Mentions: 3     Fields:    Translation:Animals
    46. Efficient population-scale variant analysis and prioritization with VAPr. Bioinformatics. 2018 08 15; 34(16):2843-2845. Birmingham A, Mark AM, Mazzaferro C, Xu G, Fisch KM. PMID: 29659724; PMCID: PMC6084604.
      View in: PubMed   Mentions: 1     Fields:    
    47. Identification of transcription factors responsible for dysregulated networks in human osteoarthritis cartilage by global gene expression analysis. Osteoarthritis Cartilage. 2018 11; 26(11):1531-1538. Fisch KM, Gamini R, Alvarez-Garcia O, Akagi R, Saito M, Muramatsu Y, Sasho T, Koziol JA, Su AI, Lotz MK. PMID: 30081074; PMCID: PMC6245598.
      View in: PubMed   Mentions: 49     Fields:    Translation:Humans
    48. Characterization of Alternative Splicing Events in HPV-Negative Head and Neck Squamous Cell Carcinoma Identifies an Oncogenic DOCK5 Variant. Clin Cancer Res. 2018 10 15; 24(20):5123-5132. Liu C, Guo T, Xu G, Sakai A, Ren S, Fukusumi T, Ando M, Sadat S, Saito Y, Khan Z, Fisch KM, Califano J. PMID: 29945995; PMCID: PMC6440699.
      View in: PubMed   Mentions: 15     Fields:    Translation:HumansCells
    49. Map of synthetic rescue interactions for the Fanconi anemia DNA repair pathway identifies USP48. Nat Commun. 2018 06 11; 9(1):2280. Velimezi G, Robinson-Garcia L, Muñoz-Martínez F, Wiegant WW, Ferreira da Silva J, Owusu M, Moder M, Wiedner M, Rosenthal SB, Fisch KM, Moffat J, Menche J, van Attikum H, Jackson SP, Loizou JI. PMID: 29891926; PMCID: PMC5996029.
      View in: PubMed   Mentions: 13     Fields:    Translation:HumansCells
    50. Heterogeneous muscle gene expression patterns in patients with massive rotator cuff tears. PLoS One. 2018; 13(1):e0190439. Gibbons MC, Fisch KM, Pichika R, Cheng T, Engler AJ, Schenk S, Lane JG, Singh A, Ward SR. PMID: 29293645; PMCID: PMC5749784.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
    51. Interactive network visualization in Jupyter notebooks: visJS2jupyter. Bioinformatics. 2018 01 01; 34(1):126-128. Rosenthal SB, Len J, Webster M, Gary A, Birmingham A, Fisch KM. PMID: 28968701; PMCID: PMC6075087.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    52. Non-coding Transcription Instructs Chromatin Folding and Compartmentalization to Dictate Enhancer-Promoter Communication and T Cell Fate. Cell. 2017 Sep 21; 171(1):103-119.e18. Isoda T, Moore AJ, He Z, Chandra V, Aida M, Denholtz M, Piet van Hamburg J, Fisch KM, Chang AN, Fahl SP, Wiest DL, Murre C. PMID: 28938112; PMCID: PMC5621651.
      View in: PubMed   Mentions: 110     Fields:    Translation:AnimalsCells
    53. Proteasome activity regulates CD8+ T lymphocyte metabolism and fate specification. J Clin Invest. 2017 Oct 02; 127(10):3609-3623. Widjaja CE, Olvera JG, Metz PJ, Phan AT, Savas JN, de Bruin G, Leestemaker Y, Berkers CR, de Jong A, Florea BI, Fisch K, Lopez J, Kim SH, Garcia DA, Searles S, Bui JD, Chang AN, Yates JR, Goldrath AW, Overkleeft HS, Ovaa H, Chang JT. PMID: 28846070; PMCID: PMC5617668.
      View in: PubMed   Mentions: 19     Fields:    Translation:AnimalsCells
    54. Interaction Landscape of Inherited Polymorphisms with Somatic Events in Cancer. Cancer Discov. 2017 04; 7(4):410-423. Carter H, Marty R, Hofree M, Gross AM, Jensen J, Fisch KM, Wu X, DeBoever C, Van Nostrand EL, Song Y, Wheeler E, Kreisberg JF, Lippman SM, Yeo GW, Gutkind JS, Ideker T. PMID: 28188128; PMCID: PMC5460679.
      View in: PubMed   Mentions: 57     Fields:    Translation:HumansCells
    55. Selective Whole-Genome Amplification Is a Robust Method That Enables Scalable Whole-Genome Sequencing of Plasmodium vivax from Unprocessed Clinical Samples. mBio. 2017 02 07; 8(1). Cowell AN, Loy DE, Sundararaman SA, Valdivia H, Fisch K, Lescano AG, Baldeviano GC, Durand S, Gerbasi V, Sutherland CJ, Nolder D, Vinetz JM, Hahn BH, Winzeler EA. PMID: 28174312; PMCID: PMC5296604.
      View in: PubMed   Mentions: 26     Fields:    Translation:HumansAnimals
    56. Dysregulated circadian rhythm pathway in human osteoarthritis: NR1D1 and BMAL1 suppression alters TGF-β signaling in chondrocytes. Osteoarthritis Cartilage. 2017 06; 25(6):943-951. Akagi R, Akatsu Y, Fisch KM, Alvarez-Garcia O, Teramura T, Muramatsu Y, Saito M, Sasho T, Su AI, Lotz MK. PMID: 27884645; PMCID: PMC5438901.
      View in: PubMed   Mentions: 28     Fields:    Translation:HumansCells
    57. Id3 Orchestrates Germinal Center B Cell Development. Mol Cell Biol. 2016 10 15; 36(20):2543-52. Chen S, Miyazaki M, Chandra V, Fisch KM, Chang AN, Murre C. PMID: 27457619; PMCID: PMC5038142.
      View in: PubMed   Mentions: 11     Fields:    Translation:AnimalsCellsPHPublic Health
    58. Increased DNA Methylation and Reduced Expression of Transcription Factors in Human Osteoarthritis Cartilage. Arthritis Rheumatol. 2016 08; 68(8):1876-86. Alvarez-Garcia O, Fisch KM, Wineinger NE, Akagi R, Saito M, Sasho T, Su AI, Lotz MK. PMID: 26881698; PMCID: PMC4963260.
      View in: PubMed   Mentions: 27     Fields:    Translation:HumansCells
    59. Suppression of REDD1 in osteoarthritis cartilage, a novel mechanism for dysregulated mTOR signaling and defective autophagy. Osteoarthritis Cartilage. 2016 09; 24(9):1639-47. Alvarez-Garcia O, Olmer M, Akagi R, Akasaki Y, Fisch KM, Shen T, Su AI, Lotz MK. PMID: 27118398; PMCID: PMC4992644.
      View in: PubMed   Mentions: 19     Fields:    Translation:HumansAnimalsCells
    60. Downregulation of 26S proteasome catalytic activity promotes epithelial-mesenchymal transition. Oncotarget. 2016 Apr 19; 7(16):21527-41. Banno A, Garcia DA, van Baarsel ED, Metz PJ, Fisch K, Widjaja CE, Kim SH, Lopez J, Chang AN, Geurink PP, Florea BI, Overkleeft HS, Ovaa H, Bui JD, Yang J, Chang JT. PMID: 26930717; PMCID: PMC5008303.
      View in: PubMed   Mentions: 17     Fields:    Translation:HumansAnimalsCells
    61. OncoRep: an n-of-1 reporting tool to support genome-guided treatment for breast cancer patients using RNA-sequencing. BMC Med Genomics. 2015 May 21; 8:24. Meißner T, Fisch KM, Gioia L, Su AI. PMID: 25989980; PMCID: PMC4494802.
      View in: PubMed   Mentions: 5     Fields:    Translation:Humans
    62. Omics Pipe: a community-based framework for reproducible multi-omics data analysis. Bioinformatics. 2015 Jun 01; 31(11):1724-8. Fisch KM, Meißner T, Gioia L, Ducom JC, Carland TM, Loguercio S, Su AI. PMID: 25637560; PMCID: PMC4443682.
      View in: PubMed   Mentions: 29     Fields:    Translation:Humans
    63. Fish hatchery genetic management techniques: Integrating Theory with Implementation. North American Journal of Aquaculture: HaMAR Special Section. 2015; 3(77):343-357. Fisch, K., Kozfkay, C., Ivy, J., Ryder, O., R. Waples.
    64. Spawning behavior of cultured delta smelt (Hypomesus transpacificus) in a conservation hatchery. North American Journal of Aquaculture. 2015; 3(77):255-266. LaCava, M., Fisch, K., Nagel, M., Lindberg, J., May, B., Finger, A.
    65. Oxidative stress diverts tRNA synthetase to nucleus for protection against DNA damage. Mol Cell. 2014 Oct 23; 56(2):323-332. Wei N, Shi Y, Truong LN, Fisch KM, Xu T, Gardiner E, Fu G, Hsu YO, Kishi S, Su AI, Wu X, Yang XL. PMID: 25284223; PMCID: PMC4224670.
      View in: PubMed   Mentions: 31     Fields:    Translation:HumansAnimalsCells
    66. Hybridization between delta smelt and two other species within the family Osmeridae in the San Francisco Bay-Delta. Conservation Genetics. 2014; (15):489-494. Fisch, K., Mahardja, B., Burton, R., May, B.
    67. Aquaculture methods for a genetically managed population of endangered delta smelt. North American Journal of Aquaculture. 2013; 2(75):186-196. Lindberg, J., Tigan, G., Ellison, L., Rettinghouse, T., Nagel, M., Fisch, K.
    68. Evaluating the performance of captive breeding techniques for conservation hatcheries: a case study of the delta smelt captive breeding program. J Hered. 2013 Jan-Feb; 104(1):92-104. Fisch KM, Ivy JA, Burton RS, May B. PMID: 23125405.
      View in: PubMed   Mentions: 5     Fields:    Translation:AnimalsCells
    69. Population genetics and conservation implications for the endangered delta smelt in the San Francisco Bay-Delta. Conservation Genetics. 2011; 6(12):1421-1434. Fisch, K., Henderson, J., Burton, R., May, B.
    70. Conservation of native Bay-Delta fishes: past experience and future considerations for artificial propagation of Chinook salmon, delta smelt, and green sturgeon. San Francisco Estuary & Watershed Science. 2011; 1(9):1-20. Israel, J., Fisch, K., Turner, T., Waples, R.
    71. Chemical induction of silent biosynthetic pathway transcription in Aspergillus niger. J Ind Microbiol Biotechnol. 2009 Sep; 36(9):1199-213. Fisch KM, Gillaspy AF, Gipson M, Henrikson JC, Hoover AR, Jackson L, Najar FZ, Wägele H, Cichewicz RH. PMID: 19521728.
      View in: PubMed   Mentions: 53     Fields:    Translation:AnimalsCells
    72. Characterization of 24 microsatellite loci in delta smelt, Hypomesus transpacificus, and their cross-species amplification in two other smelt species of the Osmeridae family. Mol Ecol Resour. 2009 Jan; 9(1):405-8. Fisch KM, Petersen JL, Baerwald MR, Pedroia JK, May B. PMID: 21564663.
      View in: PubMed   Mentions: 1     Fields:    
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