Tomiko Oskotsky, MD

Title(s)Bioinformatics Programmer, Computational Health Scienc
SchoolSchool of Medicine
Address550 16th Street
San Francisco CA 94158
ORCID ORCID Icon0000-0001-7393-5120 Additional info
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    University of California Los Angeles, Los Angeles, CABSBiochemistry
    Medical College of Wisconsin, Milwaukee, WIMD

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    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. VMAP: Vaginal Microbiome Atlas during Pregnancy. JAMIA Open. 2024 Oct; 7(3):ooae099. Parraga-Leo A, Oskotsky TT, Oskotsky B, Wibrand C, Roldan A, Tang AS, Ha CWY, Wong RJ, Minot SS, Andreoletti G, Kosti I, Theis KR, Ng S, Lee YS, Diaz-Gimeno P, Bennett PR, MacIntyre DA, Lynch SV, Romero R, Tarca AL, Stevenson DK, Aghaeepour N, Golob JL, Sirota M. PMID: 39345789; PMCID: PMC11430916.
      View in: PubMed   Mentions: 1  
    2. Sex-stratified analyses of comorbidities associated with an inpatient delirium diagnosis using real world data. Res Sq. 2024 Jul 23. Sirota M, Kodama L, Woldemariam S, Tang A, Li Y, Kornak J, Allen IE, Raphael E, Oskotsky T. PMID: 39108477; PMCID: PMC11302686.
      View in: PubMed   Mentions:
    3. Harnessing EHR data for health research. Nat Med. 2024 Jul; 30(7):1847-1855. Tang AS, Woldemariam SR, Miramontes S, Norgeot B, Oskotsky TT, Sirota M. PMID: 38965433.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    4. A scalable platform for acquisition of high-fidelity human intracranial EEG with minimal clinical burden. PLoS One. 2024; 19(6):e0305009. Yamada L, Oskotsky T, Nuyujukian P, Stanford Comprehensive Epilepsy Center, Stanford Pediatric Epilepsy Center. PMID: 38870212; PMCID: PMC11175507.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    5. Alzheimer's disease as a women's health challenge: a call for action on integrative precision medicine approaches. NPJ Womens Health. 2024; 2(1):17. Miramontes S, Pereda Serras C, Woldemariam SR, Khan U, Li Y, Tang AS, Tsoy E, Oskotsky TT, Sirota M. PMID: 38778871; PMCID: PMC11106001.
      View in: PubMed   Mentions:
    6. Data-driven insights can transform women's reproductive health. NPJ Womens Health. 2024; 2(1):14. Oskotsky TT, Yin O, Khan U, Arnaout L, Sirota M. PMID: 38770215; PMCID: PMC11104016.
      View in: PubMed   Mentions:
    7. Exposure to autoimmune disorders increases Alzheimer's disease risk in a multi-site electronic health record analysis. medRxiv. 2024 May 04. Ramey GD, Tang A, Phongpreecha T, Yang MM, Woldemariam SR, Oskotsky TT, Montine TJ, Allen I, Miller ZA, Aghaeepour N, Capra JA, Sirota M. PMID: 38746318; PMCID: PMC11092711.
      View in: PubMed   Mentions:
    8. Identifying therapeutic candidates for endometriosis through a transcriptomics-based drug repositioning approach. iScience. 2024 Apr 19; 27(4):109388. Oskotsky TT, Bhoja A, Bunis D, Le BL, Tang AS, Kosti I, Li C, Houshdaran S, Sen S, Vallvé-Juanico J, Wang W, Arthurs E, Govil A, Mahoney L, Lang L, Gaudilliere B, Stevenson DK, Irwin JC, Giudice LC, McAllister SL, Sirota M. PMID: 38510116; PMCID: PMC10952035.
      View in: PubMed   Mentions: 2  
    9. Leveraging electronic health records and knowledge networks for Alzheimer's disease prediction and sex-specific biological insights. Nat Aging. 2024 Mar; 4(3):379-395. Tang AS, Rankin KP, Cerono G, Miramontes S, Mills H, Roger J, Zeng B, Nelson C, Soman K, Woldemariam S, Li Y, Lee A, Bove R, Glymour M, Aghaeepour N, Oskotsky TT, Miller Z, Allen IE, Sanders SJ, Baranzini S, Sirota M. PMID: 38383858; PMCID: PMC10950787.
      View in: PubMed   Mentions: 6     Fields:    Translation:Humans
    10. Discovery of sparse, reliable omic biomarkers with Stabl. Nat Biotechnol. 2024 Oct; 42(10):1581-1593. Hédou J, Maric I, Bellan G, Einhaus J, Gaudillière DK, Ladant FX, Verdonk F, Stelzer IA, Feyaerts D, Tsai AS, Ganio EA, Sabayev M, Gillard J, Amar J, Cambriel A, Oskotsky TT, Roldan A, Golob JL, Sirota M, Bonham TA, Sato M, Diop M, Durand X, Angst MS, Stevenson DK, Aghaeepour N, Montanari A, Gaudillière B. PMID: 38168992; PMCID: PMC11217152.
      View in: PubMed   Mentions: 6     Fields:    Translation:Humans
    11. Microbiome preterm birth DREAM challenge: Crowdsourcing machine learning approaches to advance preterm birth research. Cell Rep Med. 2024 01 16; 5(1):101350. Golob JL, Oskotsky TT, Tang AS, Roldan A, Chung V, Ha CWY, Wong RJ, Flynn KJ, Parraga-Leo A, Wibrand C, Minot SS, Oskotsky B, Andreoletti G, Kosti I, Bletz J, Nelson A, Gao J, Wei Z, Chen G, Tang ZZ, Novielli P, Romano D, Pantaleo E, Amoroso N, Monaco A, Vacca M, De Angelis M, Bellotti R, Tangaro S, Kuntzleman A, Bigcraft I, Techtmann S, Bae D, Kim E, Jeon J, Joe S, Preterm Birth DREAM Community, Theis KR, Ng S, Lee YS, Diaz-Gimeno P, Bennett PR, MacIntyre DA, Stolovitzky G, Lynch SV, Albrecht J, Gomez-Lopez N, Romero R, Stevenson DK, Aghaeepour N, Tarca AL, Costello JC, Sirota M. PMID: 38134931; PMCID: PMC10829755.
      View in: PubMed   Mentions: 11     Fields:    Translation:Humans
    12. Associations with spontaneous and indicated preterm birth in a densely phenotyped EHR cohort. medRxiv. 2023 Nov 30. Costello JM, Takasuka H, Roger J, Yin O, Tang A, Oskotsky T, Sirota M, Capra JA. PMID: 38077057; PMCID: PMC10705634.
      View in: PubMed   Mentions:
    13. MaLiAmPi enables generalizable and taxonomy-independent microbiome features from technically diverse 16S-based microbiome studies. Cell Rep Methods. 2023 11 20; 3(11):100639. Minot SS, Garb B, Roldan A, Tang AS, Oskotsky TT, Rosenthal C, Hoffman NG, Sirota M, Golob JL. PMID: 37939711; PMCID: PMC10694490.
      View in: PubMed   Mentions: 4     Fields:    
    14. Sex-stratified phenotyping of comorbidities associated with an inpatient delirium diagnosis using real world data. medRxiv. 2023 Nov 04. Kodama L, Woldemariam S, Tang A, Li Y, Oskotsky T, Raphael E, Sirota M. PMID: 37961487; PMCID: PMC10635265.
      View in: PubMed   Mentions:
    15. Endometriosis in the era of precision medicine and impact on sexual and reproductive health across the lifespan and in diverse populations. FASEB J. 2023 09; 37(9):e23130. Giudice LC, Oskotsky TT, Falako S, Opoku-Anane J, Sirota M. PMID: 37641572; PMCID: PMC10503213.
      View in: PubMed   Mentions: 10     Fields:    Translation:Humans
    16. Target-agnostic drug prediction integrated with medical record analysis uncovers differential associations of statins with increased survival in COVID-19 patients. PLoS Comput Biol. 2023 05; 19(5):e1011050. Sperry MM, Oskotsky TT, Maric I, Kaushal S, Takeda T, Horvath V, Powers RK, Rodas M, Furlong B, Soong M, Prabhala P, Goyal G, Carlson KE, Wong RJ, Kosti I, Le BL, Logue J, Hammond H, Frieman M, Stevenson DK, Ingber DE, Sirota M, Novak R. PMID: 37146076; PMCID: PMC10191356.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    17. Similarities and differences in Alzheimer's dementia comorbidities in racialized populations identified from electronic medical records. Commun Med (Lond). 2023 Apr 08; 3(1):50. Woldemariam SR, Tang AS, Oskotsky TT, Yaffe K, Sirota M. PMID: 37031271; PMCID: PMC10082816.
      View in: PubMed   Mentions: 2  
    18. Leveraging electronic health records to identify risk factors for recurrent pregnancy loss across two medical centers: a case-control study. Res Sq. 2023 Mar 31. Roger J, Xie F, Costello J, Tang A, Liu J, Oskotsky T, Woldemariam S, Kosti I, Le B, Snyder MP, Giudice LC, Torgerson D, Shaw GM, Stevenson DK, Rajkovic A, Glymour MM, Aghaeepour N, Cakmak H, Lathi RB, Sirota M. PMID: 36993325; PMCID: PMC10055527.
      View in: PubMed   Mentions:
    19. Data-driven longitudinal characterization of neonatal health and morbidity. Sci Transl Med. 2023 02 15; 15(683):eadc9854. De Francesco D, Reiss JD, Roger J, Tang AS, Chang AL, Becker M, Phongpreecha T, Espinosa C, Morin S, Berson E, Thuraiappah M, Le BL, Ravindra NG, Payrovnaziri SN, Mataraso S, Kim Y, Xue L, Rosenstein MG, Oskotsky T, Maric I, Gaudilliere B, Carvalho B, Bateman BT, Angst MS, Prince LS, Blumenfeld YJ, Benitz WE, Fuerch JH, Shaw GM, Sylvester KG, Stevenson DK, Sirota M, Aghaeepour N. PMID: 36791208; PMCID: PMC10197092.
      View in: PubMed   Mentions: 7     Fields:    Translation:Humans
    20. Target-agnostic drug prediction integrated with medical record analysis uncovers differential associations of statins with increased survival in COVID-19 patients. medRxiv. 2022 Jul 22. Sperry MM, Oskotsky T, MariÄ I, Kaushal S, Takeda T, Horvath V, Powers RK, Rodas M, Furlong B, Soong M, Prabhala P, Goyal G, Carlson KE, Wong RJ, Kosti I, Le BL, Logue J, Hammond H, Frieman M, Stevenson DK, Ingber DE, Sirota M, Novak R. PMID: 35441166; PMCID: PMC9016655.
      View in: PubMed   Mentions:
    21. Large-scale placenta DNA methylation integrated analysis reveals fetal sex-specific differentially methylated CpG sites and regions. Sci Rep. 2022 06 07; 12(1):9396. Andrews SV, Yang IJ, Froehlich K, Oskotsky T, Sirota M. PMID: 35672357; PMCID: PMC9174475.
      View in: PubMed   Mentions: 8     Fields:    Translation:HumansCells
    22. Bioinformatics Analysis of Publicly Available Single-Nuclei Transcriptomics Alzheimer's Disease Datasets Reveals APOE Genotype-Specific Changes Across Cell Types in Two Brain Regions. Front Aging Neurosci. 2022; 14:749991. Belonwu SA, Li Y, Bunis DG, Rao AA, Solsberg CW, Oskotsky T, Taubes AL, Grone B, Zalocusky KA, Fragiadakis GK, Huang Y, Sirota M. PMID: 35572130; PMCID: PMC9093608.
      View in: PubMed   Mentions: 2  
    23. Deep phenotyping of Alzheimer's disease leveraging electronic medical records identifies sex-specific clinical associations. Nat Commun. 2022 02 03; 13(1):675. Tang AS, Oskotsky T, Havaldar S, Mantyh WG, Bicak M, Solsberg CW, Woldemariam S, Zeng B, Hu Z, Oskotsky B, Dubal D, Allen IE, Glicksberg BS, Sirota M. PMID: 35115528; PMCID: PMC8814236.
      View in: PubMed   Mentions: 15     Fields:    Translation:Humans
    24. Nurturing diversity and inclusion in AI in Biomedicine through a virtual summer program for high school students. PLoS Comput Biol. 2022 01; 18(1):e1009719. Oskotsky T, Bajaj R, Burchard J, Cavazos T, Chen I, Connell WT, Eaneff S, Grant T, Kanungo I, Lindquist K, Myers-Turnbull D, Naing ZZC, Tang A, Vora B, Wang J, Karim I, Swadling C, Yang J, AI4ALL Student Cohort 2020, Lindstaedt B, Sirota M. PMID: 35100256; PMCID: PMC8830787.
      View in: PubMed   Mentions: 3     Fields:    Translation:Humans
    25. Author Correction: Experimental and real-world evidence supporting the computational repurposing of bumetanide for APOE4-related Alzheimer's disease. Nat Aging. 2021 Dec; 1(12):1202. Taubes A, Nova P, Zalocusky KA, Kosti I, Bicak M, Zilberter MY, Hao Y, Yoon SY, Oskotsky T, Pineda S, Chen B, Aery Jones EA, Choudhary K, Grone B, Balestra ME, Chaudhry F, Paranjpe I, De Freitas J, Koutsodendris N, Chen N, Wang C, Chang W, An A, Glicksberg BS, Sirota M, Huang Y. PMID: 37117528.
      View in: PubMed   Mentions:    Fields:    
    26. Mortality Risk Among Patients With COVID-19 Prescribed Selective Serotonin Reuptake Inhibitor Antidepressants. JAMA Netw Open. 2021 11 01; 4(11):e2133090. Oskotsky T, Maric I, Tang A, Oskotsky B, Wong RJ, Aghaeepour N, Sirota M, Stevenson DK. PMID: 34779847; PMCID: PMC8593759.
      View in: PubMed   Mentions: 62     Fields:    Translation:HumansCells
    27. Sex-Stratified Single-Cell RNA-Seq Analysis Identifies Sex-Specific and Cell Type-Specific Transcriptional Responses in Alzheimer's Disease Across Two Brain Regions. Mol Neurobiol. 2022 Jan; 59(1):276-293. Belonwu SA, Li Y, Bunis D, Rao AA, Solsberg CW, Tang A, Fragiadakis GK, Dubal DB, Oskotsky T, Sirota M. PMID: 34669146; PMCID: PMC8786804.
      View in: PubMed   Mentions: 17     Fields:    Translation:HumansCells
    28. Experimental and real-world evidence supporting the computational repurposing of bumetanide for APOE4-related Alzheimer's disease. Nat Aging. 2021 10; 1(10):932-947. Taubes A, Nova P, Zalocusky KA, Kosti I, Bicak M, Zilberter MY, Hao Y, Yoon SY, Oskotsky T, Pineda S, Chen B, Jones EAA, Choudhary K, Grone B, Balestra ME, Chaudhry F, Paranjpe I, De Freitas J, Koutsodendris N, Chen N, Wang C, Chang W, An A, Glicksberg BS, Sirota M, Huang Y. PMID: 36172600; PMCID: PMC9514594.
      View in: PubMed   Mentions: 40     Fields:    Translation:HumansAnimals
    29. Sex-Specific Cross Tissue Meta-Analysis Identifies Immune Dysregulation in Women With Alzheimer's Disease. Front Aging Neurosci. 2021; 13:735611. Paranjpe MD, Belonwu S, Wang JK, Oskotsky T, Gupta A, Taubes A, Zalocusky KA, Paranjpe I, Glicksberg BS, Huang Y, Sirota M. PMID: 34658838; PMCID: PMC8515049.
      View in: PubMed   Mentions: 21  
    30. Personalizing routine lab tests with machine learning. Nat Med. 2021 09; 27(9):1514-1515. Tang A, Oskotsky T, Sirota M. PMID: 34518677.
      View in: PubMed   Mentions: 1     Fields:    
    31. Transcriptomics-based drug repositioning pipeline identifies therapeutic candidates for COVID-19. Sci Rep. 2021 06 10; 11(1):12310. Le BL, Andreoletti G, Oskotsky T, Vallejo-Gracia A, Rosales R, Yu K, Kosti I, Leon KE, Bunis DG, Li C, Kumar GR, White KM, García-Sastre A, Ott M, Sirota M. PMID: 34112877; PMCID: PMC8192542.
      View in: PubMed   Mentions: 25     Fields:    Translation:HumansCells
    32. Cross-Tissue Transcriptomic Analysis Leveraging Machine Learning Approaches Identifies New Biomarkers for Rheumatoid Arthritis. Front Immunol. 2021; 12:638066. Rychkov D, Neely J, Oskotsky T, Yu S, Perlmutter N, Nititham J, Carvidi A, Krueger M, Gross A, Criswell LA, Ashouri JF, Sirota M. PMID: 34177888; PMCID: PMC8223752.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansCells
    33. Drugs in COVID-19 Clinical Trials: Predicting Transporter-Mediated Drug-Drug Interactions Using In Vitro Assays and Real-World Data. Clin Pharmacol Ther. 2021 07; 110(1):108-122. Yee SW, Vora B, Oskotsky T, Zou L, Jakobsen S, Enogieru OJ, Koleske ML, Kosti I, Rödin M, Sirota M, Giacomini KM. PMID: 33759449; PMCID: PMC8217266.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    34. Decreased Mortality Rate Among COVID-19 Patients Prescribed Statins: Data From Electronic Health Records in the US. Front Med (Lausanne). 2021; 8:639804. Maric I, Oskotsky T, Kosti I, Le B, Wong RJ, Shaw GM, Sirota M, Stevenson DK. PMID: 33614688; PMCID: PMC7887302.
      View in: PubMed   Mentions: 11  
    35. Sex differences in viral entry protein expression and host transcript responses to SARS-CoV-2. Res Sq. 2020 Dec 31. Sun M, Shankar R, Ko M, Chang CD, Yeh SJ, Li S, Liu K, Zhou G, Xing J, VanVelsen A, VanVelsen T, Paithankar S, Feng BY, Young K, Strug M, Turco L, Wang Z, Schadt E, Chen R, Li X, Oskotsky T, Sirota M, Glicksberg BS, Nadkarni GN, Moeser AJ, Li L, Kim S, Zhou J, Chen B. PMID: 33173861; PMCID: PMC7654875.
      View in: PubMed   Mentions: 1  
    36. Deep posteromedial cortical rhythm in dissociation. Nature. 2020 10; 586(7827):87-94. Vesuna S, Kauvar IV, Richman E, Gore F, Oskotsky T, Sava-Segal C, Luo L, Malenka RC, Henderson JM, Nuyujukian P, Parvizi J, Deisseroth K. PMID: 32939091; PMCID: PMC7553818.
      View in: PubMed   Mentions: 91     Fields:    Translation:HumansAnimalsCells
    37. Medical students and the electronic health record: 'an epic use of time'. Am J Med. 2014 Sep; 127(9):891-5. Chi J, Kugler J, Chu IM, Loftus PD, Evans KH, Oskotsky T, Basaviah P, Braddock CH. PMID: 24907594.
      View in: PubMed   Mentions: 16     Fields:    Translation:Humans
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