Patrick D. Schloss, Ph.D. - Publications

Cornell University, Ithaca, NY, United States 

66 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
2016 Abdul Majid S, Graw MF, Chatziefthimiou AD, Nguyen H, Richer R, Louge M, Sultan AA, Schloss P, Hay AG. Microbial Characterization of Qatari Barchan Sand Dunes. Plos One. 11: e0161836. PMID 27655399 DOI: 10.1371/Journal.Pone.0161836  0.6
2016 Schloss PD, Jenior ML, Koumpouras CC, Westcott SL, Highlander SK. Sequencing 16S rRNA gene fragments using the PacBio SMRT DNA sequencing system. Peerj. 4: e1869. PMID 27069806 DOI: 10.7717/Peerj.1869  1
2015 Westcott SL, Schloss PD. De novo clustering methods outperform reference-based methods for assigning 16S rRNA gene sequences to operational taxonomic units. Peerj. 3: e1487. PMID 26664811 DOI: 10.7717/Peerj.1487  1
2015 Schloss P. Nurturing the microbiome field Science. 350: 1044. PMID 26612945 DOI: 10.1126/Science.350.6264.1044  1
2015 Beck JM, Schloss PD, Venkataraman A, Twigg H, Jablonski KA, Bushman FD, Campbell TB, Charlson ES, Collman RG, Crothers K, Curtis JL, Drews KL, Flores SC, Fontenot AP, Foulkes MA, et al. Multicenter Comparison of Lung and Oral Microbiomes of HIV-infected and HIV-uninfected Individuals. American Journal of Respiratory and Critical Care Medicine. 192: 1335-44. PMID 26247840 DOI: 10.1164/Rccm.201501-0128Oc  1
2015 Schubert AM, Sinani H, Schloss PD. Antibiotic-Induced Alterations of the Murine Gut Microbiota and Subsequent Effects on Colonization Resistance against Clostridium difficile. Mbio. 6: e00974. PMID 26173701 DOI: 10.1128/Mbio.00974-15  1
2015 Carmody LA, Zhao J, Kalikin LM, LeBar W, Simon RH, Venkataraman A, Schmidt TM, Abdo Z, Schloss PD, LiPuma JJ. The daily dynamics of cystic fibrosis airway microbiota during clinical stability and at exacerbation. Microbiome. 3: 12. PMID 25834733 DOI: 10.1186/S40168-015-0074-9  1
2015 Koenigsknecht MJ, Theriot CM, Bergin IL, Schumacher CA, Schloss PD, Young VB. Dynamics and establishment of Clostridium difficile infection in the murine gastrointestinal tract. Infection and Immunity. 83: 934-41. PMID 25534943 DOI: 10.1128/Iai.02768-14  1
2015 Kopliku FA, Schubert AM, Mogle J, Schloss PD, Young VB, Aronoff DM. Low prevalence of Clostridium septicum fecal carriage in an adult population. Anaerobe. 32: 34-6. PMID 25481351 DOI: 10.1016/J.Anaerobe.2014.12.001  1
2015 Baxter NT, Wan JJ, Schubert AM, Jenior ML, Myers P, Schloss PD. Intra- and interindividual variations mask interspecies variation in the microbiota of sympatric peromyscus populations. Applied and Environmental Microbiology. 81: 396-404. PMID 25362056 DOI: 10.1128/Aem.02303-14  1
2014 Schloss PD. Microbiology: An integrated view of the skin microbiome. Nature. 514: 44-5. PMID 25279916 DOI: 10.1038/514044A  1
2014 Zackular JP, Rogers MA, Ruffin MT, Schloss PD. The human gut microbiome as a screening tool for colorectal cancer. Cancer Prevention Research (Philadelphia, Pa.). 7: 1112-21. PMID 25104642 DOI: 10.1158/1940-6207.Capr-14-0129  1
2014 Schloss PD, Iverson KD, Petrosino JF, Schloss SJ. The dynamics of a family's gut microbiota reveal variations on a theme. Microbiome. 2: 25. PMID 25061514 DOI: 10.1186/2049-2618-2-25  1
2014 Baxter NT, Zackular JP, Chen GY, Schloss PD. Structure of the gut microbiome following colonization with human feces determines colonic tumor burden. Microbiome. 2: 20. PMID 24967088 DOI: 10.1186/2049-2618-2-20  1
2014 Schubert AM, Rogers MA, Ring C, Mogle J, Petrosino JP, Young VB, Aronoff DM, Schloss PD. Microbiome data distinguish patients with Clostridium difficile infection and non-C. difficile-associated diarrhea from healthy controls. Mbio. 5: e01021-14. PMID 24803517 DOI: 10.1128/Mbio.01021-14  1
2014 Ding T, Schloss PD. Dynamics and associations of microbial community types across the human body. Nature. 509: 357-60. PMID 24739969 DOI: 10.1038/Nature13178  1
2014 Marino S, Baxter NT, Huffnagle GB, Petrosino JF, Schloss PD. Mathematical modeling of primary succession of murine intestinal microbiota. Proceedings of the National Academy of Sciences of the United States of America. 111: 439-44. PMID 24367073 DOI: 10.1073/Pnas.1311322111  1
2013 Young VB, Raffals LH, Huse SM, Vital M, Dai D, Schloss PD, Brulc JM, Antonopoulos DA, Arrieta RL, Kwon JH, Reddy KG, Hubert NA, Grim SL, Vineis JH, Dalal S, et al. Multiphasic analysis of the temporal development of the distal gut microbiota in patients following ileal pouch anal anastomosis. Microbiome. 1: 9. PMID 24451366 DOI: 10.1186/2049-2618-1-9  1
2013 Zackular JP, Baxter NT, Iverson KD, Sadler WD, Petrosino JF, Chen GY, Schloss PD. The gut microbiome modulates colon tumorigenesis. Mbio. 4: e00692-13. PMID 24194538 DOI: 10.1128/Mbio.00692-13  1
2013 Carmody LA, Zhao J, Schloss PD, Petrosino JF, Murray S, Young VB, Li JZ, LiPuma JJ. Changes in cystic fibrosis airway microbiota at pulmonary exacerbation. Annals of the American Thoracic Society. 10: 179-87. PMID 23802813 DOI: 10.1513/Annalsats.201211-107Oc  1
2013 Kozich JJ, Westcott SL, Baxter NT, Highlander SK, Schloss PD. Development of a dual-index sequencing strategy and curation pipeline for analyzing amplicon sequence data on the MiSeq Illumina sequencing platform. Applied and Environmental Microbiology. 79: 5112-20. PMID 23793624 DOI: 10.1128/Aem.01043-13  1
2013 Morris A, Beck JM, Schloss PD, Campbell TB, Crothers K, Curtis JL, Flores SC, Fontenot AP, Ghedin E, Huang L, Jablonski K, Kleerup E, Lynch SV, Sodergren E, Twigg H, et al. Comparison of the respiratory microbiome in healthy nonsmokers and smokers. American Journal of Respiratory and Critical Care Medicine. 187: 1067-75. PMID 23491408 DOI: 10.1164/Rccm.201210-1913Oc  1
2013 Schloss PD. Secondary structure improves OTU assignments of 16S rRNA gene sequences. The Isme Journal. 7: 457-60. PMID 23018771 DOI: 10.1038/Ismej.2012.102  1
2012 Gevers D, Pop M, Schloss PD, Huttenhower C. Bioinformatics for the Human Microbiome Project. Plos Computational Biology. 8: e1002779. PMID 23209389 DOI: 10.1371/Journal.Pcbi.1002779  1
2012 Ward DV, Gevers D, Giannoukos G, Earl AM, Methé BA, Sodergren E, Feldgarden M, Ciulla DM, Tabbaa D, Arze C, Appelbaum E, Aird L, Anderson S, Ayvaz T, Belter E, ... ... Schloss PD, et al. Evaluation of 16s rDNA-based community profiling for human microbiome research Plos One. 7. PMID 22720093 DOI: 10.1371/Journal.Pone.0039315  1
2012 Abubucker S, Segata N, Goll J, Schubert AM, Izard J, Cantarel BL, Rodriguez-Mueller B, Zucker J, Thiagarajan M, Henrissat B, White O, Kelley ST, Methé B, Schloss PD, Gevers D, et al. Metabolic reconstruction for metagenomic data and its application to the human microbiome. Plos Computational Biology. 8: e1002358. PMID 22719234 DOI: 10.1371/Journal.Pcbi.1002358  1
2012 Lesniewski RA, Jain S, Anantharaman K, Schloss PD, Dick GJ. The metatranscriptome of a deep-sea hydrothermal plume is dominated by water column methanotrophs and lithotrophs. The Isme Journal. 6: 2257-68. PMID 22695860 DOI: 10.1038/Ismej.2012.63  1
2012 Schloss PD, Schubert AM, Zackular JP, Iverson KD, Young VB, Petrosino JF. Stabilization of the murine gut microbiome following weaning. Gut Microbes. 3: 383-93. PMID 22688727 DOI: 10.4161/Gmic.21008  1
2012 Zhao J, Schloss PD, Kalikin LM, Carmody LA, Foster BK, Petrosino JF, Cavalcoli JD, VanDevanter DR, Murray S, Li JZ, Young VB, LiPuma JJ. Decade-long bacterial community dynamics in cystic fibrosis airways. Proceedings of the National Academy of Sciences of the United States of America. 109: 5809-14. PMID 22451929 DOI: 10.1073/Pnas.1120577109  1
2012 Zhao J, Carmody LA, Kalikin LM, Li J, Petrosino JF, Schloss PD, Young VB, LiPuma JJ. Impact of enhanced Staphylococcus DNA extraction on microbial community measures in cystic fibrosis sputum. Plos One. 7: e33127. PMID 22412992 DOI: 10.1371/Journal.Pone.0033127  1
2011 Schloss PD, Gevers D, Westcott SL. Reducing the effects of PCR amplification and sequencing artifacts on 16S rRNA-based studies. Plos One. 6: e27310. PMID 22194782 DOI: 10.1371/Journal.Pone.0027310  1
2011 Zhao J, Li J, Schloss PD, Kalikin LM, Raymond TA, Petrosino JF, Young VB, LiPuma JJ. Effect of sample storage conditions on culture-independent bacterial community measures in cystic fibrosis sputum specimens. Journal of Clinical Microbiology. 49: 3717-8. PMID 21865433 DOI: 10.1128/Jcm.01189-11  1
2011 Reeves AE, Theriot CM, Bergin IL, Huffnagle GB, Schloss PD, Young VB. The interplay between microbiome dynamics and pathogen dynamics in a murine model of Clostridium difficile Infection. Gut Microbes. 2: 145-58. PMID 21804357 DOI: 10.4161/Gmic.2.3.16333  1
2011 Yilmaz P, Kottmann R, Field D, Knight R, Cole JR, Amaral-Zettler L, Gilbert JA, Karsch-Mizrachi I, Johnston A, Cochrane G, Vaughan R, Hunter C, Park J, Morrison N, Rocca-Serra P, ... ... Schloss PD, et al. Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications. Nature Biotechnology. 29: 415-20. PMID 21552244 DOI: 10.1038/Nbt.1823  1
2011 Schloss PD, Westcott SL. Assessing and improving methods used in operational taxonomic unit-based approaches for 16S rRNA gene sequence analysis. Applied and Environmental Microbiology. 77: 3219-26. PMID 21421784 DOI: 10.1128/Aem.02810-10  1
2010 Schloss PD. The effects of alignment quality, distance calculation method, sequence filtering, and region on the analysis of 16S rRNA gene-based studies. Plos Computational Biology. 6: e1000844. PMID 20628621 DOI: 10.1371/Journal.Pcbi.1000844  1
2010 Schloss PD, Allen HK, Klimowicz AK, Mlot C, Gross JA, Savengsuksa S, McEllin J, Clardy J, Ruess RW, Handelsman J. Psychrotrophic strain of Janthinobacterium lividum from a cold Alaskan soil produces prodigiosin. Dna and Cell Biology. 29: 533-41. PMID 20626288 DOI: 10.1089/Dna.2010.1020  1
2010 Robinson CJ, Schloss P, Ramos Y, Raffa K, Handelsman J. Robustness of the bacterial community in the cabbage white butterfly larval midgut. Microbial Ecology. 59: 199-211. PMID 19924467 DOI: 10.1007/S00248-009-9595-8  1
2009 Schloss PD. A high-throughput DNA sequence aligner for microbial ecology studies. Plos One. 4: e8230. PMID 20011594 DOI: 10.1371/Journal.Pone.0008230  1
2009 Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ, Sahl JW, Stres B, Thallinger GG, Van Horn DJ, Weber CF. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Applied and Environmental Microbiology. 75: 7537-41. PMID 19801464 DOI: 10.1128/Aem.01541-09  1
2008 Vasanthakumar A, Handelsman J, Schloss PD, Bauer LS, Raffa KF. Gut microbiota of an invasive subcortical beetle, Agrilus planipennis Fairmaire, across various life stages. Environmental Entomology. 37: 1344-53. PMID 19036215 DOI: 10.1603/0046-225X(2008)37[1344:Gmoais]2.0.Co;2  1
2008 Elshahed MS, Youssef NH, Spain AM, Sheik C, Najar FZ, Sukharnikov LO, Roe BA, Davis JP, Schloss PD, Bailey VL, Krumholz LR. Novelty and uniqueness patterns of rare members of the soil biosphere Applied and Environmental Microbiology. 74: 5422-5428. PMID 18606799 DOI: 10.1128/Aem.00410-08  1
2008 Schloss PD. Evaluating different approaches that test whether microbial communities have the same structure. The Isme Journal. 2: 265-75. PMID 18239608 DOI: 10.1038/Ismej.2008.5  1
2008 Schloss PD, Handelsman J. A statistical toolbox for metagenomics: assessing functional diversity in microbial communities. Bmc Bioinformatics. 9: 34. PMID 18215273 DOI: 10.1186/1471-2105-9-34  1
2007 Schloss PD, Handelsman J. The last word: books as a statistical metaphor for microbial communities. Annual Review of Microbiology. 61: 23-34. PMID 17439361 DOI: 10.1146/Annurev.Micro.61.011507.151712  1
2007 Delalibera I, Vasanthakumar A, Burwitz BJ, Schloss PD, Klepzig KD, Handelsman J, Raffa KF. Composition of the bacterial community in the gut of the pine engraver, Ips pini (Say) (Coleoptera) colonizing red pine Symbiosis. 43: 97-104.  1
2006 Curtis TP, Head IM, Lunn M, Woodcock S, Schloss PD, Sloan WT. What is the extent of prokaryotic diversity? Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 361: 2023-37. PMID 17028084 DOI: 10.1098/Rstb.2006.1921  1
2006 Schloss PD, Handelsman J. Introducing SONS, a tool for operational taxonomic unit-based comparisons of microbial community memberships and structures. Applied and Environmental Microbiology. 72: 6773-9. PMID 17021230 DOI: 10.1128/Aem.00474-06  1
2006 Schloss PD, Handelsman J. Toward a census of bacteria in soil. Plos Computational Biology. 2: e92. PMID 16848637 DOI: 10.1371/Journal.Pcbi.0020092  1
2006 Schloss PD, Handelsman J. Introducing TreeClimber, a test to compare microbial community structures. Applied and Environmental Microbiology. 72: 2379-84. PMID 16597933 DOI: 10.1128/Aem.72.4.2379-2384.2006  1
2006 Schloss PD, Delalibera I, Handelsman J, Raffa KF. Bacteria associated with the guts of two wood-boring beetles: Anoplophora glabripennis and Saperda vestita (Cerambycidae) Environmental Entomology. 35: 625-629. DOI: 10.1603/0046-225X-35.3.625  1
2005 Hansgate AM, Schloss PD, Hay AG, Walker LP. Molecular characterization of fungal community dynamics in the initial stages of composting. Fems Microbiology Ecology. 51: 209-14. PMID 16329869 DOI: 10.1016/J.Femsec.2004.08.009  1
2005 Williamson LL, Borlee BR, Schloss PD, Guan C, Allen HK, Handelsman J. Intracellular screen to identify metagenomic clones that induce or inhibit a quorum-sensing biosensor. Applied and Environmental Microbiology. 71: 6335-44. PMID 16204555 DOI: 10.1128/Aem.71.10.6335-6344.2005  1
2005 Schloss PD, Handelsman J. Metagenomics for studying unculturable microorganisms: cutting the Gordian knot. Genome Biology. 6: 229. PMID 16086859 DOI: 10.1186/Gb-2005-6-8-229  1
2005 Schloss PD, Handelsman J. Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness. Applied and Environmental Microbiology. 71: 1501-6. PMID 15746353 DOI: 10.1128/Aem.71.3.1501-1506.2005  1
2005 Schloss PD, Hay AG, Wilson DB, Gossett JM, Walker LP. Quantifying bacterial population dynamics in compost using 16S rRNA gene probes. Applied Microbiology and Biotechnology. 66: 457-63. PMID 15368083 DOI: 10.1007/S00253-004-1727-Y  1
2004 Schloss PD, Handelsman J. Status of the microbial census. Microbiology and Molecular Biology Reviews : Mmbr. 68: 686-91. PMID 15590780 DOI: 10.1128/Mmbr.68.4.686-691.2004  1
2004 Riesenfeld CS, Schloss PD, Handelsman J. Metagenomics: genomic analysis of microbial communities. Annual Review of Genetics. 38: 525-52. PMID 15568985 DOI: 10.1146/Annurev.Genet.38.072902.091216  1
2004 Schloss PD, Larget BR, Handelsman J. Integration of microbial ecology and statistics: a test to compare gene libraries. Applied and Environmental Microbiology. 70: 5485-92. PMID 15345436 DOI: 10.1128/Aem.70.9.5485-5492.2004  1
2003 Schloss PD, Hay AG, Wilson DB, Walker LP. Tracking temporal changes of bacterial community fingerprints during the initial stages of composting. Fems Microbiology Ecology. 46: 1-9. PMID 19719577 DOI: 10.1016/S0168-6496(03)00153-3  1
2003 Schloss PD, Handelsman J. Biotechnological prospects from metagenomics. Current Opinion in Biotechnology. 14: 303-10. PMID 12849784 DOI: 10.1016/S0958-1669(03)00067-3  1
2003 Schloss PD, Hay AG, Wilson DB, Walker LP. Molecular assessment of inoculum efficacy and process reproducibility in composting using ARISA Transactions of the American Society of Agricultural Engineers. 46: 919-927. DOI: 10.13031/2013.13568  1
2001 Schloss PD, Walker LP. Assessment and improvement of process variable reproducibility in composting reactors Transactions of the American Society of Agricultural Engineers. 44: 1021-1030. DOI: 10.13031/2013.6223  1
2001 Schloss PD, Walker LP. Assessment and improvement of process variable reproducibility in composting reactors Transactions of the American Society of Agricultural Engineers. 44: 1021-1030.  1
2000 Schloss PD, Walker LP. Measurement of process performance and variability in inoculated composting reactors using ANOVA and power analysis Process Biochemistry. 35: 931-942. DOI: 10.1016/S0032-9592(99)00156-9  1
2000 Schloss PD, Chaves B, Walker LP. The use of the analysis of variance to assess the influence of mixing during composting Process Biochemistry. 35: 675-684. DOI: 10.1016/S0032-9592(99)00117-X  1
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