Samuel Angiuoli - Publications

Affiliations: 
2011 Computer Sciene University of Maryland, College Park, College Park, MD 

40 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
2015 Jones S, Anagnostou V, Lytle K, Parpart-Li S, Nesselbush M, Riley DR, Shukla M, Chesnick B, Kadan M, Papp E, Galens KG, Murphy D, Zhang T, Kann L, Sausen M, ... Angiuoli SV, et al. Personalized genomic analyses for cancer mutation discovery and interpretation. Science Translational Medicine. 7: 283ra53. PMID 25877891 DOI: 10.1200/Jco.2015.33.15_Suppl.1529  0.32
2015 Izumchenko E, Sun K, Jones S, Brait M, Agrawal N, Koch W, McCord CL, Riley DR, Angiuoli SV, Velculescu VE, Jiang WW, Sidransky D. Notch1 mutations are drivers of oral tumorigenesis. Cancer Prevention Research (Philadelphia, Pa.). 8: 277-86. PMID 25406187 DOI: 10.1158/1940-6207.CAPR-14-0257  0.32
2014 Jones S, Stransky N, McCord CL, Cerami E, Lagowski J, Kelly D, Angiuoli SV, Sausen M, Kann L, Shukla M, Makar R, Wood LD, Diaz LA, Lengauer C, Velculescu VE. Genomic analyses of gynaecologic carcinosarcomas reveal frequent mutations in chromatin remodelling genes. Nature Communications. 5: 5006. PMID 25233892 DOI: 10.1038/ncomms6006  0.32
2014 Garralda E, Paz K, López-Casas PP, Jones S, Katz A, Kann LM, López-Rios F, Sarno F, Al-Shahrour F, Vasquez D, Bruckheimer E, Angiuoli SV, Calles A, Diaz LA, Velculescu VE, et al. Integrated next-generation sequencing and avatar mouse models for personalized cancer treatment. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. 20: 2476-84. PMID 24634382 DOI: 10.1158/1078-0432.Ccr-13-3047  0.32
2013 White JR, Maddox C, White O, Angiuoli SV, Fricke WF. CloVR-ITS: Automated internal transcribed spacer amplicon sequence analysis pipeline for the characterization of fungal microbiota. Microbiome. 1: 6. PMID 24451270 DOI: 10.1186/2049-2618-1-6  0.32
2012 Riley DR, Angiuoli SV, Crabtree J, Dunning Hotopp JC, Tettelin H. Using Sybil for interactive comparative genomics of microbes on the web. Bioinformatics (Oxford, England). 28: 160-6. PMID 22121156 DOI: 10.1093/bioinformatics/btr652  0.32
2011 Angiuoli SV, White JR, Matalka M, White O, Fricke WF. Resources and costs for microbial sequence analysis evaluated using virtual machines and cloud computing. Plos One. 6: e26624. PMID 22028928 DOI: 10.1371/journal.pone.0026624  0.32
2011 Angiuoli SV, Matalka M, Gussman A, Galens K, Vangala M, Riley DR, Arze C, White JR, White O, Fricke WF. CloVR: a virtual machine for automated and portable sequence analysis from the desktop using cloud computing. Bmc Bioinformatics. 12: 356. PMID 21878105 DOI: 10.1186/1471-2105-12-356  0.32
2011 Bogdanove AJ, Koebnik R, Lu H, Furutani A, Angiuoli SV, Patil PB, Van Sluys MA, Ryan RP, Meyer DF, Han SW, Aparna G, Rajaram M, Delcher AL, Phillippy AM, Puiu D, et al. Two new complete genome sequences offer insight into host and tissue specificity of plant pathogenic Xanthomonas spp. Journal of Bacteriology. 193: 5450-64. PMID 21784931 DOI: 10.1128/Jb.05262-11  0.32
2011 Angiuoli SV, Dunning Hotopp JC, Salzberg SL, Tettelin H. Improving pan-genome annotation using whole genome multiple alignment. Bmc Bioinformatics. 12: 272. PMID 21718539 DOI: 10.1186/1471-2105-12-272  0.32
2011 Galens K, Orvis J, Daugherty S, Creasy HH, Angiuoli S, White O, Wortman J, Mahurkar A, Giglio MG. The IGS Standard Operating Procedure for Automated Prokaryotic Annotation. Standards in Genomic Sciences. 4: 244-51. PMID 21677861 DOI: 10.4056/Sigs.1223234  0.32
2011 Budroni S, Siena E, Dunning Hotopp JC, Seib KL, Serruto D, Nofroni C, Comanducci M, Riley DR, Daugherty SC, Angiuoli SV, Covacci A, Pizza M, Rappuoli R, Moxon ER, Tettelin H, et al. Neisseria meningitidis is structured in clades associated with restriction modification systems that modulate homologous recombination. Proceedings of the National Academy of Sciences of the United States of America. 108: 4494-9. PMID 21368196 DOI: 10.1073/pnas.1019751108  0.32
2011 Angiuoli SV, Salzberg SL. Mugsy: Fast multiple alignment of closely related whole genomes Bioinformatics. 27: 334-342. PMID 21148543 DOI: 10.1093/bioinformatics/btq665  0.32
2011 Sahl JW, Steinsland H, Redman JC, Angiuoli SV, Nataro JP, Sommerfelt H, Rasko DA. A comparative genomic analysis of diverse clonal types of enterotoxigenic Escherichia coli reveals pathovar-specific conservation. Infection and Immunity. 79: 950-60. PMID 21078854 DOI: 10.1128/Iai.00932-10  0.32
2010 Donati C, Hiller NL, Tettelin H, Muzzi A, Croucher NJ, Angiuoli SV, Oggioni M, Dunning Hotopp JC, Hu FZ, Riley DR, Covacci A, Mitchell TJ, Bentley SD, Kilian M, Ehrlich GD, et al. Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species. Genome Biology. 11: R107. PMID 21034474 DOI: 10.1186/Gb-2010-11-10-R107  0.32
2010 Orvis J, Crabtree J, Galens K, Gussman A, Inman JM, Lee E, Nampally S, Riley D, Sundaram JP, Felix V, Whitty B, Mahurkar A, Wortman J, White O, Angiuoli SV. Ergatis: a web interface and scalable software system for bioinformatics workflows. Bioinformatics (Oxford, England). 26: 1488-92. PMID 20413634 DOI: 10.1093/bioinformatics/btq167  0.32
2009 Tsolis RM, Seshadri R, Santos RL, Sangari FJ, Lobo JM, de Jong MF, Ren Q, Myers G, Brinkac LM, Nelson WC, Deboy RT, Angiuoli S, Khouri H, Dimitrov G, Robinson JR, et al. Genome degradation in Brucella ovis corresponds with narrowing of its host range and tissue tropism. Plos One. 4: e5519. PMID 19436743 DOI: 10.1371/Journal.Pone.0005519  0.32
2008 Carlton JM, Adams JH, Silva JC, Bidwell SL, Lorenzi H, Caler E, Crabtree J, Angiuoli SV, Merino EF, Amedeo P, Cheng Q, Coulson RM, Crabb BS, Del Portillo HA, Essien K, et al. Comparative genomics of the neglected human malaria parasite Plasmodium vivax. Nature. 455: 757-63. PMID 18843361 DOI: 10.1038/Nature07327  0.32
2008 Garrity GM, Field D, Kyrpides N, Hirschman L, Sansone SA, Angiuoli S, Cole JR, Glöckner FO, Kolker E, Kowalchuk G, Moran MA, Ussery D, White O. Toward a standards-compliant genomic and metagenomic publication record. Omics : a Journal of Integrative Biology. 12: 157-60. PMID 18564916 DOI: 10.1089/Omi.2008.A2B2  0.32
2008 Field D, Garrity GM, Sansone SA, Sterk P, Gray T, Kyrpides N, Hirschman L, Glöckner FO, Kottmann R, Angiuoli S, White O, Dawyndt P, Thomson N, Gil IS, Morrison N, et al. Meeting report: the fifth Genomic Standards Consortium (GSC) workshop. Omics : a Journal of Integrative Biology. 12: 109-13. PMID 18564915 DOI: 10.1089/omi.2008.A3B3  0.32
2008 Field D, Glöckner FO, Garrity GM, Gray T, Sterk P, Cochrane G, Vaughan R, Kolker E, Kottmann R, Kyrpides N, Angiuoli S, Dawyndt P, Guralnick R, Goldstein P, Hall N, et al. Meeting report: the fourth Genomic Standards Consortium (GSC) workshop. Omics : a Journal of Integrative Biology. 12: 101-8. PMID 18564914 DOI: 10.1089/Omi.2008.0014  0.32
2008 Field D, Garrity G, Gray T, Morrison N, Selengut J, Sterk P, Tatusova T, Thomson N, Allen MJ, Angiuoli SV, Ashburner M, Axelrod N, Baldauf S, Ballard S, Boore J, et al. The minimum information about a genome sequence (MIGS) specification. Nature Biotechnology. 26: 541-7. PMID 18464787 DOI: 10.1038/Nbt1360  0.32
2008 Angiuoli SV, Gussman A, Klimke W, Cochrane G, Field D, Garrity G, Kodira CD, Kyrpides N, Madupu R, Markowitz V, Tatusova T, Thomson N, White O. Toward an online repository of Standard Operating Procedures (SOPs) for (meta)genomic annotation. Omics : a Journal of Integrative Biology. 12: 137-41. PMID 18416670 DOI: 10.1089/Omi.2008.0017  0.32
2008 Fedorova ND, Khaldi N, Joardar VS, Maiti R, Amedeo P, Anderson MJ, Crabtree J, Silva JC, Badger JH, Albarraq A, Angiuoli S, Bussey H, Bowyer P, Cotty PJ, Dyer PS, et al. Genomic islands in the pathogenic filamentous fungus Aspergillus fumigatus. Plos Genetics. 4: e1000046. PMID 18404212 DOI: 10.1371/Journal.Pgen.1000046  0.32
2007 Crabtree J, Angiuoli SV, Wortman JR, White OR. Sybil: methods and software for multiple genome comparison and visualization. Methods in Molecular Biology (Clifton, N.J.). 408: 93-108. PMID 18314579 DOI: 10.1007/978-1-59745-547-3_6  0.32
2007 Ghedin E, Wang S, Spiro D, Caler E, Zhao Q, Crabtree J, Allen JE, Delcher AL, Guiliano DB, Miranda-Saavedra D, Angiuoli SV, Creasy T, Amedeo P, Haas B, El-Sayed NM, et al. Draft genome of the filarial nematode parasite Brugia malayi. Science (New York, N.Y.). 317: 1756-60. PMID 17885136 DOI: 10.1126/Science.1145406  0.32
2007 Heinicke S, Livstone MS, Lu C, Oughtred R, Kang F, Angiuoli SV, White O, Botstein D, Dolinski K. The Princeton Protein Orthology Database (P-POD): a comparative genomics analysis tool for biologists. Plos One. 2: e766. PMID 17712414 DOI: 10.1371/Journal.Pone.0000766  0.32
2006 Dunning Hotopp JC, Lin M, Madupu R, Crabtree J, Angiuoli SV, Eisen JA, Eisen J, Seshadri R, Ren Q, Wu M, Utterback TR, Smith S, Lewis M, Khouri H, Zhang C, et al. Comparative genomics of emerging human ehrlichiosis agents. Plos Genetics. 2: e21. PMID 16482227 DOI: 10.1371/Journal.Pgen.0020021  0.32
2006 Filliol I, Motiwala AS, Cavatore M, Qi W, Hazbón MH, Bobadilla del Valle M, Fyfe J, García-García L, Rastogi N, Sola C, Zozio T, Guerrero MI, León CI, Crabtree J, Angiuoli S, et al. Global phylogeny of Mycobacterium tuberculosis based on single nucleotide polymorphism (SNP) analysis: insights into tuberculosis evolution, phylogenetic accuracy of other DNA fingerprinting systems, and recommendations for a minimal standard SNP set. Journal of Bacteriology. 188: 759-72. PMID 16385065 DOI: 10.1128/Jb.188.2.759-772.2006  0.32
2006 Wortman JR, Fedorova N, Crabtree J, Joardar V, Maiti R, Haas BJ, Amedeo P, Lee E, Angiuoli SV, Jiang B, Anderson MJ, Denning DW, White OR, Nierman WC. Whole genome comparison of the A. fumigatus family Medical Mycology. 44: 3-7. DOI: 10.1080/13693780600835799  0.32
2005 Tettelin H, Masignani V, Cieslewicz MJ, Donati C, Medini D, Ward NL, Angiuoli SV, Crabtree J, Jones AL, Durkin AS, Deboy RT, Davidsen TM, Mora M, Scarselli M, Margarit y Ros I, et al. Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial "pan-genome". Proceedings of the National Academy of Sciences of the United States of America. 102: 13950-5. PMID 16172379 DOI: 10.1073/Pnas.0506758102  0.32
2005 El-Sayed NM, Myler PJ, Blandin G, Berriman M, Crabtree J, Aggarwal G, Caler E, Renauld H, Worthey EA, Hertz-Fowler C, Ghedin E, Peacock C, Bartholomeu DC, Haas BJ, Tran AN, ... ... Angiuoli S, et al. Comparative genomics of trypanosomatid parasitic protozoa. Science (New York, N.Y.). 309: 404-9. PMID 16020724 DOI: 10.1126/Science.1112181  0.32
2005 Gardner MJ, Bishop R, Shah T, de Villiers EP, Carlton JM, Hall N, Ren Q, Paulsen IT, Pain A, Berriman M, Wilson RJ, Sato S, Ralph SA, Mann DJ, Xiong Z, ... ... Angiuoli SV, et al. Genome sequence of Theileria parva, a bovine pathogen that transforms lymphocytes. Science (New York, N.Y.). 309: 134-7. PMID 15994558 DOI: 10.1126/Science.1110439  0.32
2005 Gill SR, Fouts DE, Archer GL, Mongodin EF, Deboy RT, Ravel J, Paulsen IT, Kolonay JF, Brinkac L, Beanan M, Dodson RJ, Daugherty SC, Madupu R, Angiuoli SV, Durkin AS, et al. Insights on evolution of virulence and resistance from the complete genome analysis of an early methicillin-resistant Staphylococcus aureus strain and a biofilm-producing methicillin-resistant Staphylococcus epidermidis strain. Journal of Bacteriology. 187: 2426-38. PMID 15774886 DOI: 10.1128/Jb.187.7.2426-2438.2005  0.32
2004 Nelson KE, Fouts DE, Mongodin EF, Ravel J, DeBoy RT, Kolonay JF, Rasko DA, Angiuoli SV, Gill SR, Paulsen IT, Peterson J, White O, Nelson WC, Nierman W, Beanan MJ, et al. Whole genome comparisons of serotype 4b and 1/2a strains of the food-borne pathogen Listeria monocytogenes reveal new insights into the core genome components of this species. Nucleic Acids Research. 32: 2386-95. PMID 15115801 DOI: 10.1093/Nar/Gkh562  0.32
2004 Rasko DA, Ravel J, Økstad OA, Helgason E, Cer RZ, Jiang L, Shores KA, Fouts DE, Tourasse NJ, Angiuoli SV, Kolonay J, Nelson WC, Kolstø AB, Fraser CM, Read TD. The genome sequence of Bacillus cereus ATCC 10987 reveals metabolic adaptations and a large plasmid related to Bacillus anthracis pXO1. Nucleic Acids Research. 32: 977-88. PMID 14960714 DOI: 10.1093/Nar/Gkh258  0.32
2002 Gardner MJ, Shallom SJ, Carlton JM, Salzberg SL, Nene V, Shoaibi A, Ciecko A, Lynn J, Rizzo M, Weaver B, Jarrahi B, Brenner M, Parvizi B, Tallon L, Moazzez A, ... ... Angiuoli S, et al. Sequence of Plasmodium falciparum chromosomes 2, 10, 11 and 14. Nature. 419: 531-4. PMID 12368868 DOI: 10.1038/nature01094  0.32
2002 Carlton JM, Angiuoli SV, Suh BB, Kooij TW, Pertea M, Silva JC, Ermolaeva MD, Allen JE, Selengut JD, Koo HL, Peterson JD, Pop M, Kosack DS, Shumway MF, Bidwell SL, et al. Genome sequence and comparative analysis of the model rodent malaria parasite Plasmodium yoelii yoelii. Nature. 419: 512-9. PMID 12368865 DOI: 10.1038/Nature01099  0.32
2002 Gardner MJ, Hall N, Fung E, White O, Berriman M, Hyman RW, Carlton JM, Pain A, Nelson KE, Bowman S, Paulsen IT, James K, Eisen JA, Rutherford K, Salzberg SL, ... ... Angiuoli S, et al. Genome sequence of the human malaria parasite Plasmodium falciparum. Nature. 419: 498-511. PMID 12368864 DOI: 10.1038/Nature01097  0.32
2001 Tettelin H, Nelson KE, Paulsen IT, Eisen JA, Read TD, Peterson S, Heidelberg J, DeBoy RT, Haft DH, Dodson RJ, Durkin AS, Gwinn M, Kolonay JF, Nelson WC, Peterson JD, ... ... Angiuoli S, et al. Complete genome sequence of a virulent isolate of Streptococcus pneumoniae. Science (New York, N.Y.). 293: 498-506. PMID 11463916 DOI: 10.1126/Science.1061217  0.32
Show low-probability matches.