{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,6,18]],"date-time":"2025-06-18T04:27:13Z","timestamp":1750220833977,"version":"3.41.0"},"publisher-location":"New York, NY, USA","reference-count":32,"publisher":"ACM","license":[{"start":{"date-parts":[[2019,9,4]],"date-time":"2019-09-04T00:00:00Z","timestamp":1567555200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.acm.org\/publications\/policies\/copyright_policy#Background"}],"funder":[{"DOI":"10.13039\/100008667","name":"National Cancer Institute","doi-asserted-by":"publisher","award":["R21CA195251-01A1"],"award-info":[{"award-number":["R21CA195251-01A1"]}],"id":[{"id":"10.13039\/100008667","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000060","name":"National Institute of Allergy and Infectious Diseases","doi-asserted-by":"publisher","award":["1R01AI141810-01"],"award-info":[{"award-number":["1R01AI141810-01"]}],"id":[{"id":"10.13039\/100000060","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["dl.acm.org"],"crossmark-restriction":true},"short-container-title":[],"published-print":{"date-parts":[[2019,9,4]]},"DOI":"10.1145\/3307339.3343476","type":"proceedings-article","created":{"date-parts":[[2019,9,9]],"date-time":"2019-09-09T12:20:31Z","timestamp":1568031631000},"page":"619-625","update-policy":"https:\/\/doi.org\/10.1145\/crossmark-policy","source":"Crossref","is-referenced-by-count":0,"title":["An Integrated Approach for Efficient Multi-Omics Joint Analysis"],"prefix":"10.1145","author":[{"given":"Massimiliano S.","family":"Tagliamonte","sequence":"first","affiliation":[{"name":"University of Florida, Gainesville, FL, USA"}]},{"given":"Sheldon G.","family":"Waugh","sequence":"additional","affiliation":[{"name":"Army Public Health Center, Aberdeen, MD, USA"}]},{"given":"Mattia","family":"Prosperi","sequence":"additional","affiliation":[{"name":"University of Florida, Gainesville, FL, USA"}]},{"given":"Volker","family":"Mai","sequence":"additional","affiliation":[{"name":"University of Florida, Gainesville, FL, USA"}]}],"member":"320","published-online":{"date-parts":[[2019,9,4]]},"reference":[{"key":"e_1_3_2_1_1_1","unstructured":"Prevention CfDCa. United States Cancer Statistics: Data Visualizations {Accessed on 06\/23\/2019}. Available from: https:\/\/gis.cdc.gov\/Cancer\/USCS\/DataViz.html.  Prevention CfDCa. United States Cancer Statistics: Data Visualizations {Accessed on 06\/23\/2019}. Available from: https:\/\/gis.cdc.gov\/Cancer\/USCS\/DataViz.html."},{"key":"e_1_3_2_1_2_1","doi-asserted-by":"crossref","unstructured":"Peters BA Dominianni C Shapiro JA Church TR Wu J Miller G etal The gut microbiota in conventional and serrated precursors of colorectal cancer. Microbiome. 2016;4(1):69.  Peters BA Dominianni C Shapiro JA Church TR Wu J Miller G et al. The gut microbiota in conventional and serrated precursors of colorectal cancer. Microbiome. 2016;4(1):69.","DOI":"10.1186\/s40168-016-0218-6"},{"key":"e_1_3_2_1_3_1","doi-asserted-by":"crossref","unstructured":"Tanaka N Che FS Watanabe N Fujiwara S Takayama S Isogai A. Flagellin from an incompatible strain of Acidovorax avenae mediates H2O2 generation accompanying hypersensitive cell death and expression of PAL Cht-1 and PBZ1 but not of Lox in rice. Mol Plant Microbe Interact. 2003;16(5):422--8.  Tanaka N Che FS Watanabe N Fujiwara S Takayama S Isogai A. Flagellin from an incompatible strain of Acidovorax avenae mediates H2O2 generation accompanying hypersensitive cell death and expression of PAL Cht-1 and PBZ1 but not of Lox in rice. Mol Plant Microbe Interact. 2003;16(5):422--8.","DOI":"10.1094\/MPMI.2003.16.5.422"},{"key":"e_1_3_2_1_4_1","doi-asserted-by":"crossref","unstructured":"Tosolini M Kirilovsky A Mlecnik B Fredriksen T Mauger S Bindea G etal Clinical impact of different classes of infiltrating T cytotoxic and helper cells (Th1 th2 treg th17) in patients with colorectal cancer. Cancer Res. 2011;71(4):1263--71.  Tosolini M Kirilovsky A Mlecnik B Fredriksen T Mauger S Bindea G et al. Clinical impact of different classes of infiltrating T cytotoxic and helper cells (Th1 th2 treg th17) in patients with colorectal cancer. Cancer Res. 2011;71(4):1263--71.","DOI":"10.1158\/0008-5472.CAN-10-2907"},{"key":"e_1_3_2_1_5_1","doi-asserted-by":"crossref","unstructured":"Arthur JC Perez-Chanona E Muhlbauer M Tomkovich S Uronis JM Fan TJ etal Intestinal inflammation targets cancer-inducing activity of the microbiota. Science. 2012;338(6103):120--3.  Arthur JC Perez-Chanona E Muhlbauer M Tomkovich S Uronis JM Fan TJ et al. Intestinal inflammation targets cancer-inducing activity of the microbiota. Science. 2012;338(6103):120--3.","DOI":"10.1126\/science.1224820"},{"key":"e_1_3_2_1_6_1","doi-asserted-by":"crossref","unstructured":"Buc E Dubois D Sauvanet P Raisch J Delmas J Darfeuille-Michaud A etal High prevalence of mucosa-associated E. coli producing cyclomodulin and genotoxin in colon cancer. PLoS One. 2013;8(2):e56964.  Buc E Dubois D Sauvanet P Raisch J Delmas J Darfeuille-Michaud A et al. High prevalence of mucosa-associated E. coli producing cyclomodulin and genotoxin in colon cancer. PLoS One. 2013;8(2):e56964.","DOI":"10.1371\/journal.pone.0056964"},{"key":"e_1_3_2_1_7_1","first-page":"195","volume":"201","author":"Rubinstein MR","journal-title":"Cell Host Microbe."},{"key":"e_1_3_2_1_8_1","first-page":"975","volume":"201","author":"D'Aimmo MR","journal-title":"J Appl Microbiol."},{"key":"e_1_3_2_1_9_1","first-page":"179","volume":"200","author":"Pompei A","journal-title":"Appl Environ Microbiol."},{"key":"e_1_3_2_1_10_1","first-page":"87","volume":"201","author":"Sugahara H","journal-title":"Biosci Microbiota Food Health."},{"key":"e_1_3_2_1_11_1","first-page":"933","volume":"201","author":"O'Reilly SL","journal-title":"J Nutr."},{"key":"e_1_3_2_1_12_1","first-page":"683","volume":"201","author":"Kessler WR","journal-title":"Endoscopy."},{"key":"e_1_3_2_1_13_1","doi-asserted-by":"crossref","unstructured":"Pidsley R CC YW Volta M Lunnon K Mill J Schalkwyk LC. A data-driven approach to preprocessing Illumina 450K methylation array data. BMC Genomics. 2013;14:293.  Pidsley R CC YW Volta M Lunnon K Mill J Schalkwyk LC. A data-driven approach to preprocessing Illumina 450K methylation array data. BMC Genomics. 2013;14:293.","DOI":"10.1186\/1471-2164-14-293"},{"key":"e_1_3_2_1_14_1","first-page":"1363","volume":"201","author":"Aryee MJ","journal-title":"Bioinformatics."},{"key":"e_1_3_2_1_15_1","first-page":"118","volume":"200","author":"Johnson WE","journal-title":"Biostatistics."},{"key":"e_1_3_2_1_16_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bts034"},{"key":"e_1_3_2_1_17_1","doi-asserted-by":"crossref","unstructured":"Caporaso JG Kuczynski J Stombaugh J Bittinger K Bushman FD Costello EK etal QIIME allows analysis of high-throughput community sequencing data. Nat Methods. 2010;7(5):335--6.  Caporaso JG Kuczynski J Stombaugh J Bittinger K Bushman FD Costello EK et al. QIIME allows analysis of high-throughput community sequencing data. Nat Methods. 2010;7(5):335--6.","DOI":"10.1038\/nmeth.f.303"},{"key":"e_1_3_2_1_18_1","first-page":"237","volume":"201","author":"Pylro VS","journal-title":"Microb Ecol."},{"key":"e_1_3_2_1_19_1","first-page":"2498","volume":"200","author":"Shannon P","journal-title":"Genome Res."},{"key":"e_1_3_2_1_20_1","first-page":"27","volume":"200","author":"Kanehisa M","journal-title":"Nucleic Acids Res."},{"key":"e_1_3_2_1_21_1","first-page":"D353","volume":"201","author":"Kanehisa M","journal-title":"Nucleic Acids Res."},{"key":"e_1_3_2_1_22_1","first-page":"D590","volume":"201","author":"Kanehisa M","journal-title":"Nucleic Acids Res."},{"key":"e_1_3_2_1_23_1","first-page":"286","volume":"201","author":"Phipson B","journal-title":"Bioinformatics."},{"key":"e_1_3_2_1_24_1","first-page":"121","volume":"201","author":"Calle ML","journal-title":"Hum Hered."},{"key":"e_1_3_2_1_25_1","doi-asserted-by":"crossref","unstructured":"Robin X Turck N Hainard A Tiberti N Lisacek F Sanchez JC etal pROC: an open-source package for R and S+ to analyze and compare ROC curves. BMC Bioinformatics. 2011;12:77.  Robin X Turck N Hainard A Tiberti N Lisacek F Sanchez JC et al. pROC: an open-source package for R and S+ to analyze and compare ROC curves. BMC Bioinformatics. 2011;12:77.","DOI":"10.1186\/1471-2105-12-77"},{"key":"e_1_3_2_1_26_1","first-page":"38","volume-title":"Listeria monocytogenes activated","author":"Opitz B","year":"2006"},{"key":"e_1_3_2_1_27_1","first-page":"2843","volume":"200","author":"Schmeck B","journal-title":"J Immunol."},{"key":"e_1_3_2_1_28_1","first-page":"23851","volume":"200","author":"Haller D","journal-title":"J Biol Chem."},{"key":"e_1_3_2_1_29_1","first-page":"320","volume":"201","author":"Wang T","journal-title":"Isme j."},{"key":"e_1_3_2_1_30_1","doi-asserted-by":"crossref","unstructured":"Drewes JL White JR Dejea CM Fathi P Iyadorai T Vadivelu J etal High-resolution bacterial 16S rRNA gene profile meta-analysis and biofilm status reveal common colorectal cancer consortia. NPJ Biofilms Microbiomes. 2017;3:34.  Drewes JL White JR Dejea CM Fathi P Iyadorai T Vadivelu J et al. High-resolution bacterial 16S rRNA gene profile meta-analysis and biofilm status reveal common colorectal cancer consortia. NPJ Biofilms Microbiomes. 2017;3:34.","DOI":"10.1038\/s41522-017-0040-3"},{"key":"e_1_3_2_1_31_1","doi-asserted-by":"crossref","unstructured":"Nakatsu G Li X Zhou H Sheng J Wong SH Wu WK etal Gut mucosal microbiome across stages of colorectal carcinogenesis. Nat Commun. 2015;6:8727.  Nakatsu G Li X Zhou H Sheng J Wong SH Wu WK et al. Gut mucosal microbiome across stages of colorectal carcinogenesis. Nat Commun. 2015;6:8727.","DOI":"10.1038\/ncomms9727"},{"key":"e_1_3_2_1_32_1","doi-asserted-by":"crossref","unstructured":"Feng Q Liang S Jia H Stadlmayr A Tang L Lan Z etal Gut microbiome development along the colorectal adenoma-carcinoma sequence. Nat Commun. 2015;6:6528.  Feng Q Liang S Jia H Stadlmayr A Tang L Lan Z et al. Gut microbiome development along the colorectal adenoma-carcinoma sequence. Nat Commun. 2015;6:6528.","DOI":"10.1038\/ncomms7528"}],"event":{"name":"BCB '19: 10th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics","sponsor":["SIGBio ACM Special Interest Group on Bioinformatics"],"location":"Niagara Falls NY USA","acronym":"BCB '19"},"container-title":["Proceedings of the 10th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics"],"original-title":[],"link":[{"URL":"https:\/\/dl.acm.org\/doi\/10.1145\/3307339.3343476","content-type":"unspecified","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/dl.acm.org\/doi\/pdf\/10.1145\/3307339.3343476","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,6,17]],"date-time":"2025-06-17T23:13:36Z","timestamp":1750202016000},"score":1,"resource":{"primary":{"URL":"https:\/\/dl.acm.org\/doi\/10.1145\/3307339.3343476"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2019,9,4]]},"references-count":32,"alternative-id":["10.1145\/3307339.3343476","10.1145\/3307339"],"URL":"https:\/\/doi.org\/10.1145\/3307339.3343476","relation":{},"subject":[],"published":{"date-parts":[[2019,9,4]]},"assertion":[{"value":"2019-09-04","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}]}}