Daniel Carlin

Title(s)Sr Bioinfo Analyst, Neurosciences
SchoolVc-health Sciences-schools
Address9500 Gilman Drive #
La Jolla CA 92093
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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. Spatially organized cellular communities form the developing human heart. Nature. 2024 Mar; 627(8005):854-864. Farah EN, Hu RK, Kern C, Zhang Q, Lu TY, Ma Q, Tran S, Zhang B, Carlin D, Monell A, Blair AP, Wang Z, Eschbach J, Li B, Destici E, Ren B, Evans SM, Chen S, Zhu Q, Chi NC. PMID: 38480880; PMCID: PMC10972757.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCells
    2. Circadian modulation by time-restricted feeding rescues brain pathology and improves memory in mouse models of Alzheimer's disease. Cell Metab. 2023 10 03; 35(10):1704-1721.e6. Whittaker DS, Akhmetova L, Carlin D, Romero H, Welsh DK, Colwell CS, Desplats P. PMID: 37607543; PMCID: PMC10591997.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansAnimals
    3. Hierarchical association of COPD to principal genetic components of biological systems. PLoS One. 2023; 18(5):e0286064. Carlin DE, Larsen SJ, Sirupurapu V, Cho MH, Silverman EK, Baumbach J, Ideker T. PMID: 37228113; PMCID: PMC10212185.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    4. Strategies for Network GWAS Evaluated Using Classroom Crowd Science. Cell Syst. 2019 Oct 23; 9(4):414. Fong SH, Carlin DE, Ozturk K, 2018 UCSD Network Biology Class, Ideker T. PMID: 31647918.
      View in: PubMed   Mentions:    Fields:    
    5. A Fast and Flexible Framework for Network-Assisted Genomic Association. iScience. 2019 Jun 28; 16:155-161. Carlin DE, Fong SH, Qin Y, Jia T, Huang JK, Bao B, Zhang C, Ideker T. PMID: 31174177; PMCID: PMC6554232.
      View in: PubMed   Mentions: 13  
    6. Strategies for Network GWAS Evaluated Using Classroom Crowd Science. Cell Syst. 2019 04 24; 8(4):275-280. Fong SH, Carlin DE, Ozturk K, 2018 UCSD Network Biology Class, Ideker T. PMID: 31022372; PMCID: PMC6764759.
      View in: PubMed   Mentions: 4     Fields:    Translation:Humans
    7. pyNBS: a Python implementation for network-based stratification of tumor mutations. Bioinformatics. 2018 08 15; 34(16):2859-2861. Huang JK, Jia T, Carlin DE, Ideker T. PMID: 29608663; PMCID: PMC6084608.
      View in: PubMed   Mentions: 10     Fields:    Translation:Humans
    8. The Emerging Potential for Network Analysis to Inform Precision Cancer Medicine. J Mol Biol. 2018 09 14; 430(18 Pt A):2875-2899. Ozturk K, Dow M, Carlin DE, Bejar R, Carter H. PMID: 29908887; PMCID: PMC6097914.
      View in: PubMed   Mentions: 33     Fields:    Translation:Humans
    9. Systematic Evaluation of Molecular Networks for Discovery of Disease Genes. Cell Syst. 2018 Apr 25; 6(4):484-495.e5. Huang JK, Carlin DE, Yu MK, Zhang W, Kreisberg JF, Tamayo P, Ideker T. PMID: 29605183; PMCID: PMC5920724.
      View in: PubMed   Mentions: 123     Fields:    Translation:Humans
    10. Prophetic Granger Causality to infer gene regulatory networks. PLoS One. 2017; 12(12):e0170340. Carlin DE, Paull EO, Graim K, Wong CK, Bivol A, Ryabinin P, Ellrott K, Sokolov A, Stuart JM. PMID: 29211761; PMCID: PMC5718405.
      View in: PubMed   Mentions: 3     Fields:    Translation:Humans
    11. Network propagation in the cytoscape cyberinfrastructure. PLoS Comput Biol. 2017 Oct; 13(10):e1005598. Carlin DE, Demchak B, Pratt D, Sage E, Ideker T. PMID: 29023449; PMCID: PMC5638226.
      View in: PubMed   Mentions: 37     Fields:    Translation:Animals
    12. A multi-tool recipe to identify regions of protein-DNA binding and their influence on associated gene expression. F1000Res. 2017; 6:784. Carlin D, Kosnicki K, Garamszegi S, Ideker T, Thorvaldsdóttir H, Reich M, Mesirov J. PMID: 29487738; PMCID: PMC5806050.
      View in: PubMed   Mentions:    Fields:    
    13. Phosphoproteome Integration Reveals Patient-Specific Networks in Prostate Cancer. Cell. 2016 Aug 11; 166(4):1041-1054. Drake JM, Paull EO, Graham NA, Lee JK, Smith BA, Titz B, Stoyanova T, Faltermeier CM, Uzunangelov V, Carlin DE, Fleming DT, Wong CK, Newton Y, Sudha S, Vashisht AA, Huang J, Wohlschlegel JA, Graeber TG, Witte ON, Stuart JM. PMID: 27499020; PMCID: PMC4985183.
      View in: PubMed   Mentions: 108     Fields:    Translation:HumansCells
    14. Pathway-Based Genomics Prediction using Generalized Elastic Net. PLoS Comput Biol. 2016 Mar; 12(3):e1004790. Sokolov A, Carlin DE, Paull EO, Baertsch R, Stuart JM. PMID: 26960204; PMCID: PMC4784899.
      View in: PubMed   Mentions: 46     Fields:    Translation:HumansAnimalsCells
    15. Inferring causal molecular networks: empirical assessment through a community-based effort. Nat Methods. 2016 Apr; 13(4):310-8. Hill SM, Heiser LM, Cokelaer T, Unger M, Nesser NK, Carlin DE, Zhang Y, Sokolov A, Paull EO, Wong CK, Graim K, Bivol A, Wang H, Zhu F, Afsari B, Danilova LV, Favorov AV, Lee WS, Taylor D, Hu CW, Long BL, Noren DP, Bisberg AJ, HPN-DREAM Consortium, Mills GB, Gray JW, Kellen M, Norman T, Friend S, Qutub AA, Fertig EJ, Guan Y, Song M, Stuart JM, Spellman PT, Koeppl H, Stolovitzky G, Saez-Rodriguez J, Mukherjee S. PMID: 26901648; PMCID: PMC4854847.
      View in: PubMed   Mentions: 89     Fields:    Translation:HumansCells
    16. Discovering causal pathways linking genomic events to transcriptional states using Tied Diffusion Through Interacting Events (TieDIE). Bioinformatics. 2013 Nov 01; 29(21):2757-64. Paull EO, Carlin DE, Niepel M, Sorger PK, Haussler D, Stuart JM. PMID: 23986566; PMCID: PMC3799471.
      View in: PubMed   Mentions: 102     Fields:    Translation:HumansCells
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