Bloom, Joshua

TitlePhysicist Faculty Sci/Engr
InstitutionLawrence Berkeley National Lab
Address1 Cyclotron Road
Berkeley CA 94720
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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.
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    1. Sadhu MJ, Bloom J, Day L, Siegel JJ, Kosuri S, Kruglyak L. Highly parallel genome variant engineering with CRISPR-Cas9. Nat Genet. 2018 Apr; 50(4):510-514. PMID: 29632376.
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    2. Bloom J, Sigurdsson S. A cosmic multimessenger gold rush. Science. 2017 10 20; 358(6361):301-302. PMID: 29038370.
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    3. Jerison ER, Kryazhimskiy S, Mitchell JK, Bloom J, Kruglyak L, Desai MM. Genetic variation in adaptability and pleiotropy in budding yeast. Elife. 2017 Aug 17; 6. PMID: 28826486.
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    4. Forsberg SK, Bloom J, Sadhu MJ, Kruglyak L, Carlborg Ö. Accounting for genetic interactions improves modeling of individual quantitative trait phenotypes in yeast. Nat Genet. 2017 Apr; 49(4):497-503. PMID: 28250458.
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    5. Migicovsky Z, Gardner KM, Money D, Sawler J, Bloom J, Moffett P, Chao CT, Schwaninger H, Fazio G, Zhong GY, Myles S. Genome to Phenome Mapping in Apple Using Historical Data. Plant Genome. 2016 Jul; 9(2). PMID: 27898813.
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    6. Sadhu MJ, Bloom J, Day L, Kruglyak L. CRISPR-directed mitotic recombination enables genetic mapping without crosses. Science. 2016 May 27; 352(6289):1113-6. PMID: 27230379; PMCID: PMC4933295 [Available on 11/27/16].
    7. Bloom J, Kotenko I, Sadhu MJ, Treusch S, Albert FW, Kruglyak L. Genetic interactions contribute less than additive effects to quantitative trait variation in yeast. Nat Commun. 2015 Nov 05; 6:8712. PMID: 26537231; PMCID: PMC4635962.
    8. Ghosh R, Bloom J, Mohammadi A, Schumer ME, Andolfatto P, Ryu W, Kruglyak L. Genetics of Intraspecies Variation in Avoidance Behavior Induced by a Thermal Stimulus in Caenorhabditis elegans. Genetics. 2015 Aug; 200(4):1327-39. PMID: 26092720; PMCID: PMC4574258.
    9. Andersen EC, Shimko TC, Crissman JR, Ghosh R, Bloom J, Seidel HS, Gerke JP, Kruglyak L. A Powerful New Quantitative Genetics Platform, Combining Caenorhabditis elegans High-Throughput Fitness Assays with a Large Collection of Recombinant Strains. G3 (Bethesda). 2015 Mar 13; 5(5):911-20. PMID: 25770127; PMCID: PMC4426375.
    10. Treusch S, Albert FW, Bloom J, Kotenko IE, Kruglyak L. Genetic mapping of MAPK-mediated complex traits Across S. cerevisiae. PLoS Genet. 2015 Jan; 11(1):e1004913. PMID: 25569670; PMCID: PMC4287466.
    11. Andersen EC, Bloom J, Gerke JP, Kruglyak L. A variant in the neuropeptide receptor npr-1 is a major determinant of Caenorhabditis elegans growth and physiology. PLoS Genet. 2014 Feb; 10(2):e1004156. PMID: 24586193; PMCID: PMC3937155.
    12. Albert FW, Treusch S, Shockley AH, Bloom J, Kruglyak L. Genetics of single-cell protein abundance variation in large yeast populations. Nature. 2014 Feb 27; 506(7489):494-7. PMID: 24402228; PMCID: PMC4285441.
    13. Bloom J, Ehrenreich IM, Loo WT, Lite TL, Kruglyak L. Finding the sources of missing heritability in a yeast cross. Nature. 2013 Feb 14; 494(7436):234-7. PMID: 23376951; PMCID: PMC4001867.
    14. Ehrenreich IM, Bloom J, Torabi N, Wang X, Jia Y, Kruglyak L. Genetic architecture of highly complex chemical resistance traits across four yeast strains. PLoS Genet. 2012; 8(3):e1002570. PMID: 22438822; PMCID: PMC3305394.
    15. Andersen EC, Gerke JP, Shapiro JA, Crissman JR, Ghosh R, Bloom J, Félix MA, Kruglyak L. Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversity. Nat Genet. 2012 Jan 29; 44(3):285-90. PMID: 22286215; PMCID: PMC3365839.
    16. Khan Z, Bloom J, Amini S, Singh M, Perlman DH, Caudy AA, Kruglyak L. Quantitative measurement of allele-specific protein expression in a diploid yeast hybrid by LC-MS. Mol Syst Biol. 2012; 8:602. PMID: 22893000; PMCID: PMC3435501.
    17. Khan Z, Amini S, Bloom J, Ruse C, Caudy AA, Kruglyak L, Singh M, Perlman DH, Tavazoie S. Accurate proteome-wide protein quantification from high-resolution 15N mass spectra. Genome Biol. 2011 Dec 19; 12(12):R122. PMID: 22182234; PMCID: PMC3334617.
    18. Nugent PE, Sullivan M, Cenko SB, Thomas RC, Kasen D, Howell DA, Bersier D, Bloom J, Kulkarni SR, Kandrashoff MT, Filippenko AV, Silverman JM, Marcy GW, Howard AW, Isaacson HT, Maguire K, Suzuki N, Tarlton JE, Pan YC, Bildsten L, Fulton BJ, Parrent JT, Sand D, Podsiadlowski P, Bianco FB, Dilday B, Graham ML, Lyman J, James P, Kasliwal MM, Law NM, Quimby RM, Hook IM, Walker ES, Mazzali P, Pian E, Ofek EO, Gal-Yam A, Poznanski D. Supernova SN 2011fe from an exploding carbon-oxygen white dwarf star. Nature. 2011 Dec 14; 480(7377):344-7. PMID: 22170680.
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    19. Li W, Bloom J, Podsiadlowski P, Miller AA, Cenko SB, Jha SW, Sullivan M, Howell DA, Nugent PE, Butler NR, Ofek EO, Kasliwal MM, Richards JW, Stockton A, Shih HY, Bildsten L, Shara MM, Bibby J, Filippenko AV, Ganeshalingam M, Silverman JM, Kulkarni SR, Law NM, Poznanski D, Quimby RM, McCully C, Patel B, Maguire K, Shen KJ. Exclusion of a luminous red giant as a companion star to the progenitor of supernova SN 2011fe. Nature. 2011 Dec 14; 480(7377):348-50. PMID: 22170681.
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    20. Bloom J, Giannios D, Metzger BD, Cenko SB, Perley DA, Butler NR, Tanvir NR, Levan AJ, O'Brien PT, Strubbe LE, De Colle F, Ramirez-Ruiz E, Lee WH, Nayakshin S, Quataert E, King AR, Cucchiara A, Guillochon J, Bower GC, Fruchter AS, Morgan AN, van der Horst AJ. A possible relativistic jetted outburst from a massive black hole fed by a tidally disrupted star. Science. 2011 Jul 08; 333(6039):203-6. PMID: 21680812.
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    21. Plazas-Mayorca MD, Bloom J, Zeissler U, Leroy G, Young NL, DiMaggio PA, Krugylak L, Schneider R, Garcia BA. Quantitative proteomics reveals direct and indirect alterations in the histone code following methyltransferase knockdown. Mol Biosyst. 2010 Sep; 6(9):1719-29. PMID: 20577673; PMCID: PMC3321735.
    22. Poznanski D, Chornock R, Nugent PE, Bloom J, Filippenko AV, Ganeshalingam M, Leonard DC, Li W, Thomas RC. An unusually fast-evolving supernova. Science. 2010 Jan 01; 327(5961):58-60. PMID: 19892941.
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    23. Khan Z, Bloom J, Garcia BA, Singh M, Kruglyak L. Protein quantification across hundreds of experimental conditions. Proc Natl Acad Sci U S A. 2009 Sep 15; 106(37):15544-8. PMID: 19717460.
      View in: PubMed
    24. Bloom J, Khan Z, Kruglyak L, Singh M, Caudy AA. Measuring differential gene expression by short read sequencing: quantitative comparison to 2-channel gene expression microarrays. BMC Genomics. 2009 May 12; 10:221. PMID: 19435513; PMCID: PMC2686739.
    25. Khan Z, Bloom J, Kruglyak L, Singh M. A practical algorithm for finding maximal exact matches in large sequence datasets using sparse suffix arrays. Bioinformatics. 2009 Jul 01; 25(13):1609-16. PMID: 19389736; PMCID: PMC2732316.
    26. Chen HP, Lin A, Bloom J, Khan AH, Park CC, Smith DJ. Screening reveals conserved and nonconserved transcriptional regulatory elements including an E3/E4 allele-dependent APOE coding region enhancer. Genomics. 2008 Nov; 92(5):292-300. PMID: 18718521.
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    27. Park CC, Ahn S, Bloom J, Lin A, Wang RT, Wu T, Sekar A, Khan AH, Farr CJ, Lusis AJ, Leahy RM, Lange K, Smith DJ. Fine mapping of regulatory loci for mammalian gene expression using radiation hybrids. Nat Genet. 2008 Apr; 40(4):421-9. PMID: 18362883; PMCID: PMC3014048.
    28. Chin MH, Qian WJ, Wang H, Petyuk VA, Bloom J, Sforza DM, Lacan G, Liu D, Khan AH, Cantor RM, Bigelow DJ, Melega WP, Camp DG, Smith RD, Smith DJ. Mitochondrial dysfunction, oxidative stress, and apoptosis revealed by proteomic and transcriptomic analyses of the striata in two mouse models of Parkinson's disease. J Proteome Res. 2008 Feb; 7(2):666-77. PMID: 18173235; PMCID: PMC3319057.
    29. Fynbo JP, Watson D, Thöne CC, Sollerman J, Bloom J, Davis TM, Hjorth J, Jakobsson P, Jørgensen UG, Graham JF, Fruchter AS, Bersier D, Kewley L, Cassan A, Cerón JM, Foley S, Gorosabel J, Hinse TC, Horne KD, Jensen BL, Klose S, Kocevski D, Marquette JB, Perley D, Ramirez-Ruiz E, Stritzinger MD, Vreeswijk PM, Wijers RA, Woller KG, Xu D, Zub M. No supernovae associated with two long-duration gamma-ray bursts. Nature. 2006 Dec 21; 444(7122):1047-9. PMID: 17183316.
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