James Galagan - Publications

Biomedical Engineering Boston University, Boston, MA, United States 
Biomedical Engineering, Systematic Biology

71 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2017 Manson AL, Abeel T, Galagan J, Chandrabose Sundaramurthi J, Shanmugam SK, Palaniyandi K, Narayanan S, Swaminathan S, Earl AM. Reply to Lee and Howden. Clinical Infectious Diseases : An Official Publication of the Infectious Diseases Society of America. PMID 29040415 DOI: 10.1093/Cid/Cix751  0.52
2017 Manson AL, Abeel T, Galagan JE, Sundaramurthi JC, Salazar A, Gehrmann T, Shanmugam SK, Palaniyandi K, Narayanan S, Swaminathan S, Earl AM. Mycobacterium tuberculosis Whole Genome Sequences From Southern India Suggest Novel Resistance Mechanisms and the Need for Region-Specific Diagnostics. Clinical Infectious Diseases : An Official Publication of the Infectious Diseases Society of America. PMID 28498943 DOI: 10.1093/Cid/Cix169  0.52
2017 Manson AL, Cohen KA, Abeel T, Desjardins CA, Armstrong DT, Barry CE, Brand J, Chapman SB, Cho SN, Gabrielian A, Gomez J, Jodals AM, Joloba M, Jureen P, ... ... Galagan JE, et al. Genomic analysis of globally diverse Mycobacterium tuberculosis strains provides insights into the emergence and spread of multidrug resistance. Nature Genetics. PMID 28092681 DOI: 10.1038/Ng.3767  0.52
2017 Aquino P, Honda B, Jaini S, Lyubetskaya A, Hosur K, Chiu JG, Ekladious I, Hu D, Jin L, Sayeg MK, Stettner AI, Wang J, Wong BG, Wong WS, Alexander SL, ... ... Galagan JE, et al. Coordinated regulation of acid resistance in Escherichia coli. Bmc Systems Biology. 11: 1. PMID 28061857 DOI: 10.1186/S12918-016-0376-Y  0.6
2016 Dekhang R, Wu C, Smith KM, Lamb TM, Peterson M, Bredeweg EL, Ibarra O, Emerson JM, Karunarathna N, Lyubetskaya A, Azizi E, Hurely JM, Dunlap JC, Galagan JE, Freitag M, et al. The Neurospora Transcription Factor ADV-1 Transduces Light Signals and Temporal Information to Control Rhythmic Expression of Genes Involved in Cell-Fusion. G3 (Bethesda, Md.). PMID 27856696 DOI: 10.1534/G3.116.034298  0.6
2016 Sharp JD, Singh AK, Park ST, Lyubetskaya A, Peterson MW, Gomes AL, Potluri LP, Raman S, Galagan JE, Husson RN. Comprehensive Definition of the SigH Regulon of Mycobacterium tuberculosis Reveals Transcriptional Control of Diverse Stress Responses. Plos One. 11: e0152145. PMID 27003599 DOI: 10.1371/Journal.Pone.0152145  0.72
2015 Garay CD, Dreyfuss JM, Galagan JE. Metabolic modeling predicts metabolite changes in Mycobacterium tuberculosis. Bmc Systems Biology. 9: 57. PMID 26377923 DOI: 10.1186/S12918-015-0206-7  0.72
2015 Ranganathan S, Bai G, Lyubetskaya A, Knapp GS, Peterson MW, Gazdik M, Gomes AL, Galagan JE, McDonough KA. Characterization of a cAMP responsive transcription factor, Cmr (Rv1675c), in TB complex mycobacteria reveals overlap with the DosR (DevR) dormancy regulon. Nucleic Acids Research. PMID 26358810 DOI: 10.1093/Nar/Gkv889  0.72
2015 Knapp GS, Lyubetskaya A, Peterson MW, Gomes AL, Ma Z, Galagan JE, McDonough KA. Role of intragenic binding of cAMP responsive protein (CRP) in regulation of the succinate dehydrogenase genes Rv0249c-Rv0247c in TB complex mycobacteria. Nucleic Acids Research. 43: 5377-93. PMID 25940627 DOI: 10.1093/Nar/Gkv420  0.72
2015 Minch KJ, Rustad TR, Peterson EJ, Winkler J, Reiss DJ, Ma S, Hickey M, Brabant W, Morrison B, Turkarslan S, Mawhinney C, Galagan JE, Price ND, Baliga NS, Sherman DR. The DNA-binding network of Mycobacterium tuberculosis. Nature Communications. 6: 5829. PMID 25581030 DOI: 10.1038/Ncomms6829  0.72
2014 Jaini S, Lyubetskaya A, Gomes A, Peterson M, Park ST, Raman S, Schoolnik G, Galagan J. Transcription Factor Binding Site Mapping Using ChIP-Seq. Microbiology Spectrum. 2. PMID 26105820 DOI: 10.1128/Microbiolspec.Mgm2-0035-2013  0.72
2014 Hurley JM, Dasgupta A, Emerson JM, Zhou X, Ringelberg CS, Knabe N, Lipzen AM, Lindquist EA, Daum CG, Barry KW, Grigoriev IV, Smith KM, Galagan JE, Bell-Pedersen D, Freitag M, et al. Analysis of clock-regulated genes in Neurospora reveals widespread posttranscriptional control of metabolic potential. Proceedings of the National Academy of Sciences of the United States of America. 111: 16995-7002. PMID 25362047 DOI: 10.1073/Pnas.1418963111  0.72
2014 Wu C, Yang F, Smith KM, Peterson M, Dekhang R, Zhang Y, Zucker J, Bredeweg EL, Mallappa C, Zhou X, Lyubetskaya A, Townsend JP, Galagan JE, Freitag M, Dunlap JC, et al. Genome-wide characterization of light-regulated genes in Neurospora crassa. G3 (Bethesda, Md.). 4: 1731-45. PMID 25053707 DOI: 10.1534/G3.114.012617  0.72
2014 Gomes AL, Abeel T, Peterson M, Azizi E, Lyubetskaya A, Carvalho L, Galagan J. Decoding ChIP-seq with a double-binding signal refines binding peaks to single-nucleotides and predicts cooperative interaction. Genome Research. 24: 1686-97. PMID 25024162 DOI: 10.1101/Gr.161711.113  0.72
2014 Galagan JE. Genomic insights into tuberculosis. Nature Reviews. Genetics. 15: 307-20. PMID 24662221 DOI: 10.1038/nrg3664  0.72
2014 Azizi E, Airoldi EM, Galagan JE. Learning modular structures from network data and node variables 31st International Conference On Machine Learning, Icml 2014. 4: 3300-3308.  0.72
2013 Gomes AL, Galagan JE, Segrè D. Resource competition may lead to effective treatment of antibiotic resistant infections. Plos One. 8: e80775. PMID 24349015 DOI: 10.1371/Journal.Pone.0080775  0.72
2013 Farhat MR, Shapiro BJ, Kieser KJ, Sultana R, Jacobson KR, Victor TC, Warren RM, Streicher EM, Calver A, Sloutsky A, Kaur D, Posey JE, Plikaytis B, Oggioni MR, Gardy JL, ... ... Galagan J, et al. Genomic analysis identifies targets of convergent positive selection in drug-resistant Mycobacterium tuberculosis. Nature Genetics. 45: 1183-9. PMID 23995135 DOI: 10.1038/Ng.2747  0.72
2013 Pepperell CS, Casto AM, Kitchen A, Granka JM, Cornejo OE, Holmes EC, Holmes EC, Birren B, Galagan J, Feldman MW. The role of selection in shaping diversity of natural M. tuberculosis populations. Plos Pathogens. 9: e1003543. PMID 23966858 DOI: 10.1371/Journal.Ppat.1003543  0.72
2013 Dreyfuss JM, Zucker JD, Hood HM, Ocasio LR, Sachs MS, Galagan JE. Reconstruction and validation of a genome-scale metabolic model for the filamentous fungus Neurospora crassa using FARM. Plos Computational Biology. 9: e1003126. PMID 23935467 DOI: 10.1371/Journal.Pcbi.1003126  0.72
2013 Galagan JE, Minch K, Peterson M, Lyubetskaya A, Azizi E, Sweet L, Gomes A, Rustad T, Dolganov G, Glotova I, Abeel T, Mahwinney C, Kennedy AD, Allard R, Brabant W, et al. The Mycobacterium tuberculosis regulatory network and hypoxia. Nature. 499: 178-83. PMID 23823726 DOI: 10.1038/Nature12337  0.72
2013 Galagan J, Lyubetskaya A, Gomes A. ChIP-Seq and the complexity of bacterial transcriptional regulation. Current Topics in Microbiology and Immunology. 363: 43-68. PMID 22983621 DOI: 10.1007/82_2012_257  0.72
2012 Dreyfuss JM, Levner D, Galagan JE, Church GM, Ramoni MF. How accurate can genetic predictions be? Bmc Genomics. 13: 340. PMID 22827772 DOI: 10.1186/1471-2164-13-340  0.72
2012 Brandes A, Lun DS, Ip K, Zucker J, Colijn C, Weiner B, Galagan JE. Inferring carbon sources from gene expression profiles using metabolic flux models. Plos One. 7: e36947. PMID 22606312 DOI: 10.1371/Journal.Pone.0036947  0.72
2012 McGuire AM, Weiner B, Park ST, Wapinski I, Raman S, Dolganov G, Peterson M, Riley R, Zucker J, Abeel T, White J, Sisk P, Stolte C, Koehrsen M, Yamamoto RT, ... ... Galagan J, et al. Comparative analysis of Mycobacterium and related Actinomycetes yields insight into the evolution of Mycobacterium tuberculosis pathogenesis. Bmc Genomics. 13: 120. PMID 22452820 DOI: 10.1186/1471-2164-13-120  0.72
2012 Weiner B, Gomez J, Victor TC, Warren RM, Sloutsky A, Plikaytis BB, Posey JE, van Helden PD, Gey van Pittius NC, Koehrsen M, Sisk P, Stolte C, White J, Gagneux S, Birren B, ... ... Galagan J, et al. Independent large scale duplications in multiple M. tuberculosis lineages overlapping the same genomic region. Plos One. 7: e26038. PMID 22347359 DOI: 10.1371/Journal.Pone.0026038  0.72
2012 Comas I, Borrell S, Roetzer A, Rose G, Malla B, Kato-Maeda M, Galagan J, Niemann S, Gagneux S. Whole-genome sequencing of rifampicin-resistant Mycobacterium tuberculosis strains identifies compensatory mutations in RNA polymerase genes. Nature Genetics. 44: 106-10. PMID 22179134 DOI: 10.1038/Ng.1038  0.72
2012 Abeel T, Van Parys T, Saeys Y, Galagan J, Van de Peer Y. GenomeView: a next-generation genome browser. Nucleic Acids Research. 40: e12. PMID 22102585 DOI: 10.1093/Nar/Gkr995  0.72
2011 Klosterman SJ, Subbarao KV, Kang S, Veronese P, Gold SE, Thomma BP, Chen Z, Henrissat B, Lee YH, Park J, Garcia-Pedrajas MD, Barbara DJ, Anchieta A, de Jonge R, Santhanam P, ... ... Galagan J, et al. Comparative genomics yields insights into niche adaptation of plant vascular wilt pathogens. Plos Pathogens. 7: e1002137. PMID 21829347 DOI: 10.1371/Journal.Ppat.1002137  0.72
2011 Ford CB, Lin PL, Chase MR, Shah RR, Iartchouk O, Galagan J, Mohaideen N, Ioerger TR, Sacchettini JC, Lipsitch M, Flynn JL, Fortune SM. Use of whole genome sequencing to estimate the mutation rate of Mycobacterium tuberculosis during latent infection. Nature Genetics. 43: 482-6. PMID 21516081 DOI: 10.1038/Ng.811  0.72
2011 D'Souza CA, Kronstad JW, Taylor G, Warren R, Yuen M, Hu G, Jung WH, Sham A, Kidd SE, Tangen K, Lee N, Zeilmaker T, Sawkins J, McVicker G, Shah S, ... ... Galagan JE, et al. Genome variation in Cryptococcus gattii, an emerging pathogen of immunocompetent hosts. Mbio. 2: e00342-10. PMID 21304167 DOI: 10.1128/Mbio.00342-10  0.72
2011 Aderem A, Adkins JN, Ansong C, Galagan J, Kaiser S, Korth MJ, Law GL, McDermott JG, Proll SC, Rosenberger C, Schoolnik G, Katze MG. A systems biology approach to infectious disease research: innovating the pathogen-host research paradigm. Mbio. 2: e00325-10. PMID 21285433 DOI: 10.1128/Mbio.00325-10  0.72
2010 Comas I, Chakravartti J, Small PM, Galagan J, Niemann S, Kremer K, Ernst JD, Gagneux S. Human T cell epitopes of Mycobacterium tuberculosis are evolutionarily hyperconserved. Nature Genetics. 42: 498-503. PMID 20495566 DOI: 10.1038/Ng.590  0.72
2010 Galagan JE, Sisk P, Stolte C, Weiner B, Koehrsen M, Wymore F, Reddy TB, Zucker JD, Engels R, Gellesch M, Hubble J, Jin H, Larson L, Mao M, Nitzberg M, et al. TB database 2010: overview and update. Tuberculosis (Edinburgh, Scotland). 90: 225-35. PMID 20488753 DOI: 10.1016/J.Tube.2010.03.010  0.72
2010 Ma LJ, van der Does HC, Borkovich KA, Coleman JJ, Daboussi MJ, Di Pietro A, Dufresne M, Freitag M, Grabherr M, Henrissat B, Houterman PM, Kang S, Shim WB, Woloshuk C, Xie X, ... ... Galagan J, et al. Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium. Nature. 464: 367-73. PMID 20237561 DOI: 10.1038/Nature08850  0.72
2009 Lun DS, Sherrid A, Weiner B, Sherman DR, Galagan JE. A blind deconvolution approach to high-resolution mapping of transcription factor binding sites from ChIP-seq data. Genome Biology. 10: R142. PMID 20028542 DOI: 10.1186/gb-2009-10-12-r142  0.72
2009 Colijn C, Brandes A, Zucker J, Lun DS, Weiner B, Farhat MR, Cheng TY, Moody DB, Murray M, Galagan JE. Interpreting expression data with metabolic flux models: predicting Mycobacterium tuberculosis mycolic acid production. Plos Computational Biology. 5: e1000489. PMID 19714220 DOI: 10.1371/Journal.Pcbi.1000489  0.72
2009 Lun DS, Rockwell G, Guido NJ, Baym M, Kelner JA, Berger B, Galagan JE, Church GM. Large-scale identification of genetic design strategies using local search. Molecular Systems Biology. 5: 296. PMID 19690565 DOI: 10.1038/Msb.2009.57  0.72
2009 Ma LJ, Ibrahim AS, Skory C, Grabherr MG, Burger G, Butler M, Elias M, Idnurm A, Lang BF, Sone T, Abe A, Calvo SE, Corrochano LM, Engels R, Fu J, ... ... Galagan J, et al. Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole-genome duplication. Plos Genetics. 5: e1000549. PMID 19578406 DOI: 10.1371/Journal.Pgen.1000549  0.72
2009 Weinberger DM, Trzci?ski K, Lu YJ, Bogaert D, Brandes A, Galagan J, Anderson PW, Malley R, Lipsitch M. Pneumococcal capsular polysaccharide structure predicts serotype prevalence. Plos Pathogens. 5: e1000476. PMID 19521509 DOI: 10.1371/Journal.Ppat.1000476  0.72
2009 Hood HM, Neafsey DE, Galagan J, Sachs MS. Evolutionary roles of upstream open reading frames in mediating gene regulation in fungi. Annual Review of Microbiology. 63: 385-409. PMID 19514854 DOI: 10.1146/Annurev.Micro.62.081307.162835  0.72
2009 Champion MD, Zeng Q, Nix EB, Nano FE, Keim P, Kodira CD, Borowsky M, Young S, Koehrsen M, Engels R, Pearson M, Howarth C, Larson L, White J, Alvarado L, ... ... Galagan J, et al. Comparative genomic characterization of Francisella tularensis strains belonging to low and high virulence subspecies. Plos Pathogens. 5: e1000459. PMID 19478886 DOI: 10.1371/Journal.Ppat.1000459  0.72
2009 Lambreghts R, Shi M, Belden WJ, Decaprio D, Park D, Henn MR, Galagan JE, Bastürkmen M, Birren BW, Sachs MS, Dunlap JC, Loros JJ. A high-density single nucleotide polymorphism map for Neurospora crassa. Genetics. 181: 767-81. PMID 19015548 DOI: 10.1534/Genetics.108.089292  0.72
2009 Reddy TB, Riley R, Wymore F, Montgomery P, DeCaprio D, Engels R, Gellesch M, Hubble J, Jen D, Jin H, Koehrsen M, Larson L, Mao M, Nitzberg M, Sisk P, ... ... Galagan JE, et al. TB database: an integrated platform for tuberculosis research. Nucleic Acids Research. 37: D499-508. PMID 18835847 DOI: 10.1093/Nar/Gkn652  0.72
2008 Kuntzen T, Timm J, Berical A, Lennon N, Berlin AM, Young SK, Lee B, Heckerman D, Carlson J, Reyor LL, Kleyman M, McMahon CM, Birch C, Schulze Zur Wiesch J, Ledlie T, ... ... Galagan JE, et al. Naturally occurring dominant resistance mutations to hepatitis C virus protease and polymerase inhibitors in treatment-naïve patients. Hepatology (Baltimore, Md.). 48: 1769-78. PMID 19026009 DOI: 10.1002/Hep.22549  0.72
2008 Orsi RH, Borowsky ML, Lauer P, Young SK, Nusbaum C, Galagan JE, Birren BW, Ivy RA, Sun Q, Graves LM, Swaminathan B, Wiedmann M. Short-term genome evolution of Listeria monocytogenes in a non-controlled environment. Bmc Genomics. 9: 539. PMID 19014550 DOI: 10.1186/1471-2164-9-539  0.72
2008 McGuire AM, Galagan JE. Conserved secondary structures in Aspergillus. Plos One. 3: e2812. PMID 18665251 DOI: 10.1371/Journal.Pone.0002812  0.72
2008 McGuire AM, Pearson MD, Neafsey DE, Galagan JE. Cross-kingdom patterns of alternative splicing and splice recognition. Genome Biology. 9: R50. PMID 18321378 DOI: 10.1186/Gb-2008-9-3-R50  0.72
2008 Mathee K, Narasimhan G, Valdes C, Qiu X, Matewish JM, Koehrsen M, Rokas A, Yandava CN, Engels R, Zeng E, Olavarietta R, Doud M, Smith RS, Montgomery P, White JR, ... ... Galagan JE, et al. Dynamics of Pseudomonas aeruginosa genome evolution. Proceedings of the National Academy of Sciences of the United States of America. 105: 3100-5. PMID 18287045 DOI: 10.1073/Pnas.0711982105  0.72
2008 Sharpton TJ, Neafsey DE, Galagan JE, Taylor JW. Mechanisms of intron gain and loss in Cryptococcus. Genome Biology. 9: R24. PMID 18234113 DOI: 10.1186/Gb-2008-9-1-R24  0.72
2007 Hane JK, Lowe RG, Solomon PS, Tan KC, Schoch CL, Spatafora JW, Crous PW, Kodira C, Birren BW, Galagan JE, Torriani SF, McDonald BA, Oliver RP. Dothideomycete plant interactions illuminated by genome sequencing and EST analysis of the wheat pathogen Stagonospora nodorum. The Plant Cell. 19: 3347-68. PMID 18024570 DOI: 10.1105/Tpc.107.052829  0.72
2007 DeCaprio D, Vinson JP, Pearson MD, Montgomery P, Doherty M, Galagan JE. Conrad: gene prediction using conditional random fields. Genome Research. 17: 1389-98. PMID 17690204 DOI: 10.1101/gr.6558107  0.72
2007 Neafsey DE, Galagan JE. Positive selection for unpreferred codon usage in eukaryotic genomes. Bmc Evolutionary Biology. 7: 119. PMID 17640368 DOI: 10.1186/1471-2148-7-119  0.72
2007 Nene V, Wortman JR, Lawson D, Haas B, Kodira C, Tu ZJ, Loftus B, Xi Z, Megy K, Grabherr M, Ren Q, Zdobnov EM, Lobo NF, Campbell KS, Brown SE, ... ... Galagan J, et al. Genome sequence of Aedes aegypti, a major arbovirus vector. Science (New York, N.Y.). 316: 1718-23. PMID 17510324 DOI: 10.1126/Science.1138878  0.72
2007 Neafsey DE, Galagan JE. Dual modes of natural selection on upstream open reading frames. Molecular Biology and Evolution. 24: 1744-51. PMID 17494029 DOI: 10.1093/Molbev/Msm093  0.72
2007 Dunlap JC, Borkovich KA, Henn MR, Turner GE, Sachs MS, Glass NL, McCluskey K, Plamann M, Galagan JE, Birren BW, Weiss RL, Townsend JP, Loros JJ, Nelson MA, Lambreghts R, et al. Enabling a community to dissect an organism: overview of the Neurospora functional genomics project. Advances in Genetics. 57: 49-96. PMID 17352902 DOI: 10.1016/S0065-2660(06)57002-6  0.72
2007 Volkman SK, Sabeti PC, DeCaprio D, Neafsey DE, Schaffner SF, Milner DA, Daily JP, Sarr O, Ndiaye D, Ndir O, Mboup S, Duraisingh MT, Lukens A, Derr A, Stange-Thomann N, ... ... Galagan JE, et al. A genome-wide map of diversity in Plasmodium falciparum. Nature Genetics. 39: 113-9. PMID 17159979 DOI: 10.1038/Ng1930  0.72
2007 Vinson JP, DeCaprio D, Pearson MD, Luoma S, Galagan JE. Comparative gene prediction using Conditional Random Fields Advances in Neural Information Processing Systems. 1441-1448.  0.72
2006 Kämper J, Kahmann R, Bölker M, Ma LJ, Brefort T, Saville BJ, Banuett F, Kronstad JW, Gold SE, Müller O, Perlin MH, Wösten HA, de Vries R, Ruiz-Herrera J, Reynaga-Peña CG, ... ... Galagan J, et al. Insights from the genome of the biotrophic fungal plant pathogen Ustilago maydis. Nature. 444: 97-101. PMID 17080091 DOI: 10.1038/Nature05248  0.72
2006 Engels R, Yu T, Burge C, Mesirov JP, DeCaprio D, Galagan JE. Combo: A whole genome comparative browser Bioinformatics. 22: 1782-1783. PMID 16709588 DOI: 10.1093/Bioinformatics/Btl193  0.72
2005 Machida M, Asai K, Sano M, Tanaka T, Kumagai T, Terai G, Kusumoto K, Arima T, Akita O, Kashiwagi Y, Abe K, Gomi K, Horiuchi H, Kitamoto K, Kobayashi T, ... ... Galagan JE, et al. Genome sequencing and analysis of Aspergillus oryzae. Nature. 438: 1157-61. PMID 16372010 DOI: 10.1038/Nature04300  0.72
2005 Galagan JE, Calvo SE, Cuomo C, Ma LJ, Wortman JR, Batzoglou S, Lee SI, BaÅŸtürkmen M, Spevak CC, Clutterbuck J, Kapitonov V, Jurka J, Scazzocchio C, Farman M, Butler J, et al. Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae. Nature. 438: 1105-15. PMID 16372000 DOI: 10.1038/Nature04341  0.72
2005 Galagan JE, Henn MR, Ma LJ, Cuomo CA, Birren B. Genomics of the fungal kingdom: insights into eukaryotic biology. Genome Research. 15: 1620-31. PMID 16339359 DOI: 10.1101/087969807.46.41  0.72
2005 Vinson JP, Jaffe DB, O'Neill K, Karlsson EK, Stange-Thomann N, Anderson S, Mesirov JP, Satoh N, Satou Y, Nusbaum C, Birren B, Galagan JE, Lander ES. Assembly of polymorphic genomes: algorithms and application to Ciona savignyi. Genome Research. 15: 1127-35. PMID 16077012 DOI: 10.1101/Gr.3722605  0.72
2005 Dean RA, Talbot NJ, Ebbole DJ, Farman ML, Mitchell TK, Orbach MJ, Thon M, Kulkarni R, Xu JR, Pan H, Read ND, Lee YI, Carbone I, Brown D, Yeon YO, ... ... Galagan JE, et al. The genome sequence of the rice blast fungus Magnaporthe grisea Nature. 434: 980-986. PMID 15846337 DOI: 10.1038/Nature03449  0.72
2005 Mikkelsen TS, Galagan JE, Mesirov JP. Improving genome annotations using phylogenetic profile anomaly detection. Bioinformatics (Oxford, England). 21: 464-70. PMID 15374867 DOI: 10.1093/Bioinformatics/Bti027  0.72
2004 Nielsen CB, Friedman B, Birren B, Burge CB, Galagan JE. Patterns of intron gain and loss in fungi Plos Biology. 2. PMID 15562318 DOI: 10.1371/Journal.Pbio.0020422  0.72
2004 Galagan JE, Selker EU. RIP: the evolutionary cost of genome defense. Trends in Genetics : Tig. 20: 417-23. PMID 15313550 DOI: 10.1016/j.tig.2004.07.007  0.72
2004 Borkovich KA, Alex LA, Yarden O, Freitag M, Turner GE, Read ND, Seiler S, Bell-Pedersen D, Paietta J, Plesofsky N, Plamann M, Goodrich-Tanrikulu M, Schulte U, Mannhaupt G, Nargang FE, ... ... Galagan JE, et al. Lessons from the genome sequence of Neurospora crassa: tracing the path from genomic blueprint to multicellular organism. Microbiology and Molecular Biology Reviews : Mmbr. 68: 1-108. PMID 15007097 DOI: 10.1128/Mmbr.68.1.1-108.2004  0.72
2003 Galagan JE, Calvo SE, Borkovich KA, Selker EU, Read ND, Jaffe D, FitzHugh W, Ma LJ, Smirnov S, Purcell S, Rehman B, Elkins T, Engels R, Wang S, Nielsen CB, et al. The genome sequence of the filamentous fungus Neurospora crassa. Nature. 422: 859-68. PMID 12712197 DOI: 10.1038/Nature01554  0.72
2002 Galagan JE, Nusbaum C, Roy A, Endrizzi MG, Macdonald P, FitzHugh W, Calvo S, Engels R, Smirnov S, Atnoor D, Brown A, Allen N, Naylor J, Stange-Thomann N, DeArellano K, et al. The genome of M. acetivorans reveals extensive metabolic and physiological diversity. Genome Research. 12: 532-42. PMID 11932238 DOI: 10.1101/Gr.223902  0.72
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