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Serghei Mangul

Title(s)Assistant Professor
Address1540 Alcazar St., CHP 236D
Health Sciences Campus
Los Angeles CA 90089
Phone+1 323 442 0043
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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. The Gene Expression Deconvolution Interactive Tool (GEDIT): accurate cell type quantification from gene expression data. Gigascience. 2021 Feb 16; 10(2). Nadel BB, Lopez D, Montoya DJ, Ma F, Waddel H, Khan MM, Mangul S, Pellegrini M. PMID: 33590863.
      View in: PubMed   Mentions: 1     Fields:    
    2. Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through analysis of Viral Genomics and Structure. ArXiv. 2021 Feb 01. Rando HM, MacLean AL, Lee AJ, Ray S, Bansal V, Skelly AN, Sell E, Dziak JJ, Shinholster L, McGowan LD, Guebila MB, Wellhausen N, Knyazev S, Boca SM, Capone S, Qi Y, Park Y, Sun Y, Mai D, Brueffer C, Byrd JB, Wang J, Lordan R, Velazquez R, Szeto GL, Barton JP, Goel RR, Mangul S, Lubiana T, Consortium CR, Gitter A, Greene CS. PMID: 33594340.
      View in: PubMed   Mentions:
    3. PUMAA: A Platform for Accessible Microbiome Analysis in the Undergraduate Classroom. Front Microbiol. 2020; 11:584699. Mitchell K, Ronas J, Dao C, Freise AC, Mangul S, Shapiro C, Moberg Parker J. PMID: 33123113.
      View in: PubMed   Mentions:
    4. Corrigendum to: Recommendations to enhance rigor and reproducibility in biomedical research. Gigascience. 2020 Sep 17; 9(9). Brito JJ, Li J, Moore JH, Greene CS, Nogoy NA, Garmire LX, Mangul S. PMID: 32940333.
      View in: PubMed   Mentions:    Fields:    
    5. Cell type-specific genetic regulation of gene expression across human tissues. Science. 2020 09 11; 369(6509). Kim-Hellmuth S, Aguet F, Oliva M, Muñoz-Aguirre M, Kasela S, Wucher V, Castel SE, Hamel AR, Viñuela A, Roberts AL, Mangul S, Wen X, Wang G, Barbeira AN, Garrido-Martín D, Nadel BB, Zou Y, Bonazzola R, Quan J, Brown A, Martinez-Perez A, Soria JM, Getz G, Dermitzakis ET, Small KS, Stephens M, Xi HS, Im HK, Guigó R, Segrè AV, Stranger BE, Ardlie KG, Lappalainen T. PMID: 32913075.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    6. Metalign: efficient alignment-based metagenomic profiling via containment min hash. Genome Biol. 2020 09 10; 21(1):242. LaPierre N, Alser M, Eskin E, Koslicki D, Mangul S. PMID: 32912225.
      View in: PubMed   Mentions: 1     Fields:    
    7. Author Correction: Profiling immunoglobulin repertoires across multiple human tissues using RNA sequencing. Nat Commun. 2020 09 04; 11(1):4499. Mandric I, Rotman J, Yang HT, Strauli N, Montoya DJ, Van Der Wey W, Ronas JR, Statz B, Yao D, Petrova V, Zelikovsky A, Spreafico R, Shifman S, Zaitlen N, Rossetti M, Ansel KM, Eskin E, Mangul S. PMID: 32887888.
      View in: PubMed   Mentions:    Fields:    
    8. Correction to: Improving the usability and comprehensiveness of microbial databases. BMC Biol. 2020 07 28; 18(1):92. Loeffler C, Karlsberg A, Martin LS, Eskin E, Koslicki D, Mangul S. PMID: 32723395.
      View in: PubMed   Mentions:    Fields:    
    9. Profiling immunoglobulin repertoires across multiple human tissues using RNA sequencing. Nat Commun. 2020 06 19; 11(1):3126. Mandric I, Rotman J, Yang HT, Strauli N, Montoya DJ, Van Der Wey W, Ronas JR, Statz B, Yao D, Petrova V, Zelikovsky A, Spreafico R, Shifman S, Zaitlen N, Rossetti M, Ansel KM, Eskin E, Mangul S. PMID: 32561710.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    10. Intratumoral CD4+ T Cells Mediate Anti-tumor Cytotoxicity in Human Bladder Cancer. Cell. 2020 06 25; 181(7):1612-1625.e13. Oh DY, Kwek SS, Raju SS, Li T, McCarthy E, Chow E, Aran D, Ilano A, Pai CS, Rancan C, Allaire K, Burra A, Sun Y, Spitzer MH, Mangul S, Porten S, Meng MV, Friedlander TW, Ye CJ, Fong L. PMID: 32497499.
      View in: PubMed   Mentions: 7     Fields:    
    11. Recommendations to enhance rigor and reproducibility in biomedical research. Gigascience. 2020 06 01; 9(6). Brito JJ, Li J, Moore JH, Greene CS, Nogoy NA, Garmire LX, Mangul S. PMID: 32479592.
      View in: PubMed   Mentions: 1     Fields:    
    12. Improving the usability and comprehensiveness of microbial databases. BMC Biol. 2020 04 07; 18(1):37. Loeffler C, Karlsberg A, Martin LS, Eskin E, Koslicki D, Mangul S. PMID: 32264902.
      View in: PubMed   Mentions: 2     Fields:    
    13. Benchmarking of computational error-correction methods for next-generation sequencing data. Genome Biol. 2020 03 17; 21(1):71. Mitchell K, Brito JJ, Mandric I, Wu Q, Knyazev S, Chang S, Martin LS, Karlsberg A, Gerasimov E, Littman R, Hill BL, Wu NC, Yang HT, Hsieh K, Chen L, Littman E, Shabani T, Enik G, Yao D, Sun R, Schroeder J, Eskin E, Zelikovsky A, Skums P, Pop M, Mangul S. PMID: 32183840.
      View in: PubMed   Mentions: 1     Fields:    
    14. Telescope: an interactive tool for managing large-scale analysis from mobile devices. Gigascience. 2020 01 01; 9(1). Brito JJ, Mosqueiro T, Rotman J, Xue V, Chapski DJ, la Hoz J, Matias P, Martin LS, Zelikovsky A, Pellegrini M, Mangul S. PMID: 31972019.
      View in: PubMed   Mentions:    Fields:    
    15. Interpreting and integrating big data in the life sciences. Emerg Top Life Sci. 2019 Aug 16; 3(4):335-341. Mangul S. PMID: 33523204.
      View in: PubMed   Mentions:
    16. Transcriptional profiling of single fiber cells in a transgenic paradigm of an inherited childhood cataract reveals absence of molecular heterogeneity. J Biol Chem. 2019 09 13; 294(37):13530-13544. Bhat SP, Gangalum RK, Kim D, Mangul S, Kashyap RK, Zhou X, Elashoff D. PMID: 31243103.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCells
    17. Challenges and recommendations to improve the installability and archival stability of omics computational tools. PLoS Biol. 2019 06; 17(6):e3000333. Mangul S, Mosqueiro T, Abdill RJ, Duong D, Mitchell K, Sarwal V, Hill B, Brito J, Littman RJ, Statz B, Lam AK, Dayama G, Grieneisen L, Martin LS, Flint J, Eskin E, Blekhman R. PMID: 31220077.
      View in: PubMed   Mentions: 6     Fields:    Translation:Humans
    18. MiCoP: microbial community profiling method for detecting viral and fungal organisms in metagenomic samples. BMC Genomics. 2019 Jun 06; 20(Suppl 5):423. LaPierre N, Mangul S, Alser M, Mandric I, Wu NC, Koslicki D, Eskin E. PMID: 31167634.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCells
    19. Systematic benchmarking of omics computational tools. Nat Commun. 2019 03 27; 10(1):1393. Mangul S, Martin LS, Hill BL, Lam AK, Distler MG, Zelikovsky A, Eskin E, Flint J. PMID: 30918265.
      View in: PubMed   Mentions: 12     Fields:    Translation:Humans
    20. How bioinformatics and open data can boost basic science in countries and universities with limited resources. Nat Biotechnol. 2019 03; 37(3):324-326. Mangul S, Martin LS, Langmead B, Sanchez-Galan JE, Toma I, Hormozdiari F, Pevzner P, Eskin E. PMID: 30833765.
      View in: PubMed   Mentions: 4     Fields:    Translation:Humans
    21. Improving the usability and archival stability of bioinformatics software. Genome Biol. 2019 02 27; 20(1):47. Mangul S, Martin LS, Eskin E, Blekhman R. PMID: 30813962.
      View in: PubMed   Mentions: 6     Fields:    
    22. Spatial Analysis of Single Fiber Cells of the Developing Ocular Lens Reveals Regulated Heterogeneity of Gene Expression. iScience. 2018 Dec 21; 10:66-79. Gangalum RK, Kim D, Kashyap RK, Mangul S, Zhou X, Elashoff D, Bhat SP. PMID: 30508719.
      View in: PubMed   Mentions:
    23. A Comprehensive Map of Genetic Variation in the World's Largest Ethnic Group-Han Chinese. Mol Biol Evol. 2018 11 01; 35(11):2736-2750. Chiang CWK, Mangul S, Robles C, Sankararaman S. PMID: 30169787.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansAnimals
    24. Transcriptome analysis in whole blood reveals increased microbial diversity in schizophrenia. Transl Psychiatry. 2018 05 10; 8(1):96. Olde Loohuis LM, Mangul S, Ori APS, Jospin G, Koslicki D, Yang HT, Wu T, Boks MP, Lomen-Hoerth C, Wiedau-Pazos M, Cantor RM, de Vos WM, Kahn RS, Eskin E, Ophoff RA. PMID: 29743478.
      View in: PubMed   Mentions: 8     Fields:    Translation:Humans
    25. Involving undergraduates in genomics research to narrow the education-research gap. Nat Biotechnol. 2018 04 05; 36(4):369-371. Mangul S, Martin LS, Eskin E. PMID: 29621227.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    26. ROP: dumpster diving in RNA-sequencing to find the source of 1 trillion reads across diverse adult human tissues. Genome Biol. 2018 02 15; 19(1):36. Mangul S, Yang HT, Strauli N, Gruhl F, Porath HT, Hsieh K, Chen L, Daley T, Christenson S, Wesolowska-Andersen A, Spreafico R, Rios C, Eng C, Smith AD, Hernandez RD, Ophoff RA, Santana JR, Levanon EY, Woodruff PG, Burchard E, Seibold MA, Shifman S, Eskin E, Zaitlen N. PMID: 29548336.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    27. Addressing the Digital Divide in Contemporary Biology: Lessons from Teaching UNIX. Trends Biotechnol. 2017 10; 35(10):901-903. Mangul S, Martin LS, Hoffmann A, Pellegrini M, Eskin E. PMID: 28720283.
      View in: PubMed   Mentions: 5     Fields:    
    28. HapIso: An Accurate Method for the Haplotype- Specific Isoforms Reconstruction From Long Single-Molecule Reads. IEEE Trans Nanobioscience. 2017 03; 16(2):108-115. Mangul S, Yang TH, Hormozdiari F, Dainis AM, Tseng E, Ashley EA, Zelikovsky A, Eskin E. PMID: 28328508.
      View in: PubMed   Mentions: 3     Fields:    Translation:Humans
    29. Long Single-Molecule Reads Can Resolve the Complexity of the Influenza Virus Composed of Rare, Closely Related Mutant Variants. J Comput Biol. 2017 Jun; 24(6):558-570. Artyomenko A, Wu NC, Mangul S, Eskin E, Sun R, Zelikovsky A. PMID: 27901586.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    30. Discovering Single Nucleotide Polymorphisms Regulating Human Gene Expression Using Allele Specific Expression from RNA-seq Data. Genetics. 2016 11; 204(3):1057-1064. Kang EY, Martin LJ, Mangul S, Isvilanonda W, Zou J, Ben-David E, Han B, Lusis AJ, Shifman S, Eskin E. PMID: 27765809.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansCells
    31. CRISPR-Mediated VHL Knockout Generates an Improved Model for Metastatic Renal Cell Carcinoma. Sci Rep. 2016 06 30; 6:29032. Schokrpur S, Hu J, Moughon DL, Liu P, Lin LC, Hermann K, Mangul S, Guan W, Pellegrini M, Xu H, Wu L. PMID: 27358011.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansAnimalsCells
    32. Transcriptome assembly and quantification from Ion Torrent RNA-Seq data. BMC Genomics. 2014; 15 Suppl 5:S7. Mangul S, Caciula A, Al Seesi S, Brinza D, M?ndoiu I, Zelikovsky A. PMID: 25082147.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    33. Accurate viral population assembly from ultra-deep sequencing data. Bioinformatics. 2014 Jun 15; 30(12):i329-37. Mangul S, Wu NC, Mancuso N, Zelikovsky A, Sun R, Eskin E. PMID: 24932001.
      View in: PubMed   Mentions: 12     Fields:    Translation:Cells
    34. Inferring viral quasispecies spectra from 454 pyrosequencing reads. BMC Bioinformatics. 2011; 12 Suppl 6:S1. Astrovskaya I, Tork B, Mangul S, Westbrooks K, Mandoiu I, Balfe P, Zelikovsky A. PMID: 21989211.
      View in: PubMed   Mentions: 34     Fields:    Translation:HumansCells
    35. Estimation of alternative splicing isoform frequencies from RNA-Seq data. Algorithms Mol Biol. 2011 Apr 19; 6(1):9. Nicolae M, Mangul S, Mandoiu II, Zelikovsky A. PMID: 21504602.
      View in: PubMed   Mentions:
    36. Improved transcriptome quantification and reconstruction from RNA-Seq reads using partial annotations. In Silico Biol. 2011-2012; 11(5-6):251-61. Mangul S, Caciula A, Glebova O, Mandoiu I, Zelikovsky A. PMID: 23202426.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
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