Thomas Farid Martinez

Title(s)Assistant Professor, Pharmaceutical Sciences
SchoolSchool of Pharmacy and Pharmaceutical Sciences
Address101 Theory, Suite 100
Irvine CA 92697-3958
Phone(949) 824-0943
ORCID ORCID Icon0000-0002-4011-8164 Additional info
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    Collapse Biography 
    Collapse Education and Training
    Massachusetts Institute of Technology, Cambridge, MABS06/2009Biological Engineering
    California Institute of Technology, Pasadena, CAPh.D.07/2015Biochemistry & Molecular Biophysics
    Salk Institute of Biological Studies, La Jolla, CA08/2021Peptide Biology

    Collapse Research 
    Collapse Research Activities and Funding
    The Roles of a Novel Microprotein in Wound Healing and Cancer
    NIH K01CA249038Sep 1, 2021 - Aug 31, 2026
    Role: Principal Investigator
    An Integrative Approach for the Annotation of Functional smORFs
    NIH F32GM123685Apr 1, 2017 - Mar 31, 2019
    Role: Principal Investigator
    Interrogation of Androgen Receptor:Forkhead Interaction Using Py-Im Polyamides
    NIH F31CA159896Sep 1, 2011 - Aug 31, 2016
    Role: Principal Investigator

    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. Comparison of software packages for detecting unannotated translated small open reading frames by Ribo-seq. Brief Bioinform. 2024 May 23; 25(4). Tong G, Hah N, Martinez TF. PMID: 38842510; PMCID: PMC11155197.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    2. The landscape of fetus metabolism in maternal hyperglycemia. Trends Endocrinol Metab. 2024 Apr; 35(4):282-284. Kelly ME, Martinez TF, Jang C. PMID: 38341338.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimals
    3. Comparison of software packages for detecting unannotated translated small open reading frames by Ribo-seq. bioRxiv. 2023 Dec 30. Tong G, Hah N, Martinez TF. PMID: 38234848; PMCID: PMC10793472.
      View in: PubMed   Mentions:
    4. Integrated workflow for discovery of microprotein-coding small open reading frames. STAR Protoc. 2023 Dec 15; 4(4):102649. Cao K, Hajy Heydary Y, Tong G, Martinez TF. PMID: 37874679; PMCID: PMC10618807.
      View in: PubMed   Mentions: 1     Fields:    Translation:Animals
    5. The TINCR ubiquitin-like microprotein is a tumor suppressor in squamous cell carcinoma. Nat Commun. 2023 03 10; 14(1):1328. Morgado-Palacin L, Brown JA, Martinez TF, Garcia-Pedrero JM, Forouhar F, Quinn SA, Reglero C, Vaughan J, Heydary YH, Donaldson C, Rodriguez-Perales S, Allonca E, Granda-Diaz R, Fernandez AF, Fraga MF, Kim AL, Santos-Juanes J, Owens DM, Rodrigo JP, Saghatelian A, Ferrando AA. PMID: 36899004; PMCID: PMC10006087.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansAnimalsCells
    6. Profiling mouse brown and white adipocytes to identify metabolically relevant small ORFs and functional microproteins. Cell Metab. 2023 01 03; 35(1):166-183.e11. Martinez TF, Lyons-Abbott S, Bookout AL, De Souza EV, Donaldson C, Vaughan JM, Lau C, Abramov A, Baquero AF, Baquero K, Friedrich D, Huard J, Davis R, Kim B, Koch T, Mercer AJ, Misquith A, Murray SA, Perry S, Pino LK, Sanford C, Simon A, Zhang Y, Zipp G, Bizarro CV, Shokhirev MN, Whittle AJ, Searle BC, MacCoss MJ, Saghatelian A, Barnes CA. PMID: 36599300; PMCID: PMC9889109.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansAnimalsCells
    7. Standardized annotation of translated open reading frames. Nat Biotechnol. 2022 07; 40(7):994-999. Mudge JM, Ruiz-Orera J, Prensner JR, Brunet MA, Calvet F, Jungreis I, Gonzalez JM, Magrane M, Martinez TF, Schulz JF, Yang YT, Albà MM, Aspden JL, Baranov PV, Bazzini AA, Bruford E, Martin MJ, Calviello L, Carvunis AR, Chen J, Couso JP, Deutsch EW, Flicek P, Frankish A, Gerstein M, Hubner N, Ingolia NT, Kellis M, Menschaert G, Moritz RL, Ohler U, Roucou X, Saghatelian A, Weissman JS, van Heesch S. PMID: 35831657; PMCID: PMC9757701.
      View in: PubMed   Mentions: 53     Fields:    Translation:Cells
    8. A short ORF-encoded transcriptional regulator. Proc Natl Acad Sci U S A. 2021 01 26; 118(4). Koh M, Ahmad I, Ko Y, Zhang Y, Martinez TF, Diedrich JK, Chu Q, Moresco JJ, Erb MA, Saghatelian A, Schultz PG, Bollong MJ. PMID: 33468658; PMCID: PMC7848545.
      View in: PubMed   Mentions: 16     Fields:    Translation:HumansAnimalsCells
    9. Insights into GLP-1 Receptor Activation with a Nonpeptide Agonist. Biochemistry. 2020 04 28; 59(16):1549-1550. Martinez TF, Vaughan J, Saghatelian A. PMID: 32297516.
      View in: PubMed   Mentions:    Fields:    
    10. Repression of the transcriptional activity of ERRα with sequence-specific DNA-binding polyamides. Med Chem Res. 2020 Apr; 29(4):607-616. Chen CY, Li Y, Jia T, He L, Hare AA, Silberstein A, Gallagher J, Martinez TF, Stiles JW, Olenyuk B, Dervan PB, Stiles BL. PMID: 34552311; PMCID: PMC8455084.
      View in: PubMed   Mentions: 2  
    11. Accurate annotation of human protein-coding small open reading frames. Nat Chem Biol. 2020 04; 16(4):458-468. Martinez TF, Chu Q, Donaldson C, Tan D, Shokhirev MN, Saghatelian A. PMID: 31819274; PMCID: PMC7085969.
      View in: PubMed   Mentions: 65     Fields:    Translation:HumansCells
    12. Regulation of the ER stress response by a mitochondrial microprotein. Nat Commun. 2019 10 25; 10(1):4883. Chu Q, Martinez TF, Novak SW, Donaldson CJ, Tan D, Vaughan JM, Chang T, Diedrich JK, Andrade L, Kim A, Zhang T, Manor U, Saghatelian A. PMID: 31653868; PMCID: PMC6814811.
      View in: PubMed   Mentions: 65     Fields:    Translation:HumansAnimalsCells
    13. CDK12 phosphorylates 4E-BP1 to enable mTORC1-dependent translation and mitotic genome stability. Genes Dev. 2019 04 01; 33(7-8):418-435. Choi SH, Martinez TF, Kim S, Donaldson C, Shokhirev MN, Saghatelian A, Jones KA. PMID: 30819820; PMCID: PMC6446539.
      View in: PubMed   Mentions: 31     Fields:    Translation:HumansCells
    14. Small, but mighty? Searching for human microproteins and their potential for understanding health and disease. Expert Rev Proteomics. 2018 12; 15(12):963-965. Rathore A, Martinez TF, Chu Q, Saghatelian A. PMID: 30415582; PMCID: PMC6497149.
      View in: PubMed   Mentions: 4     Fields:    Translation:Humans
    15. MIEF1 Microprotein Regulates Mitochondrial Translation. Biochemistry. 2018 09 25; 57(38):5564-5575. Rathore A, Chu Q, Tan D, Martinez TF, Donaldson CJ, Diedrich JK, Yates JR, Saghatelian A. PMID: 30215512; PMCID: PMC6443411.
      View in: PubMed   Mentions: 41     Fields:    Translation:HumansCells
    16. Tumor Repression of VCaP Xenografts by a Pyrrole-Imidazole Polyamide. PLoS One. 2015; 10(11):e0143161. Hargrove AE, Martinez TF, Hare AA, Kurmis AA, Phillips JW, Sud S, Pienta KJ, Dervan PB. PMID: 26571387; PMCID: PMC4646452.
      View in: PubMed   Mentions: 13     Fields:    Translation:HumansAnimalsCells
    17. Replication stress by Py-Im polyamides induces a non-canonical ATR-dependent checkpoint response. Nucleic Acids Res. 2014 Oct; 42(18):11546-59. Martínez TF, Phillips JW, Karanja KK, Polaczek P, Wang CM, Li BC, Campbell JL, Dervan PB. PMID: 25249630; PMCID: PMC4191428.
      View in: PubMed   Mentions: 15     Fields:    Translation:HumansCells
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