BPG is committed to discovery and dissemination of knowledge
Cited by in F6Publishing
For: Heintz-Buschart A, May P, Laczny CC, Lebrun LA, Bellora C, Krishna A, Wampach L, Schneider JG, Hogan A, de Beaufort C, Wilmes P. Integrated multi-omics of the human gut microbiome in a case study of familial type 1 diabetes. Nat Microbiol 2016;2:16180. [PMID: 27723761 DOI: 10.1038/nmicrobiol.2016.180] [Cited by in Crossref: 119] [Cited by in F6Publishing: 112] [Article Influence: 19.8] [Reference Citation Analysis]
Number Citing Articles
1 Siljander H, Honkanen J, Knip M. Microbiome and type 1 diabetes. EBioMedicine 2019;46:512-21. [PMID: 31257149 DOI: 10.1016/j.ebiom.2019.06.031] [Cited by in Crossref: 41] [Cited by in F6Publishing: 33] [Article Influence: 13.7] [Reference Citation Analysis]
2 Dovrolis N, Filidou E, Kolios G. Systems biology in inflammatory bowel diseases: on the way to precision medicine. Ann Gastroenterol 2019;32:233-46. [PMID: 31040620 DOI: 10.20524/aog.2019.0373] [Cited by in F6Publishing: 2] [Reference Citation Analysis]
3 Hickl O, Heintz-Buschart A, Trautwein-Schult A, Hercog R, Bork P, Wilmes P, Becher D. Sample Preservation and Storage Significantly Impact Taxonomic and Functional Profiles in Metaproteomics Studies of the Human Gut Microbiome. Microorganisms 2019;7:E367. [PMID: 31546776 DOI: 10.3390/microorganisms7090367] [Cited by in Crossref: 15] [Cited by in F6Publishing: 10] [Article Influence: 5.0] [Reference Citation Analysis]
4 Altay O, Nielsen J, Uhlen M, Boren J, Mardinoglu A. Systems biology perspective for studying the gut microbiota in human physiology and liver diseases. EBioMedicine 2019;49:364-73. [PMID: 31636011 DOI: 10.1016/j.ebiom.2019.09.057] [Cited by in Crossref: 9] [Cited by in F6Publishing: 7] [Article Influence: 3.0] [Reference Citation Analysis]
5 Medawar E, Huhn S, Villringer A, Veronica Witte A. The effects of plant-based diets on the body and the brain: a systematic review. Transl Psychiatry 2019;9:226. [PMID: 31515473 DOI: 10.1038/s41398-019-0552-0] [Cited by in Crossref: 53] [Cited by in F6Publishing: 36] [Article Influence: 17.7] [Reference Citation Analysis]
6 Marchesi JR, Kolmeder CA. Proteomics and the human microbiome: where we are today and where we would like to be. Emerging Topics in Life Sciences 2017;1:401-9. [DOI: 10.1042/etls20170051] [Cited by in Crossref: 1] [Article Influence: 0.2] [Reference Citation Analysis]
7 Eain MMG, Baginska J, Greenhalgh K, Fritz JV, Zenhausern F, Wilmes P. Engineering Solutions for Representative Models of the Gastrointestinal Human-Microbe Interface. Engineering 2017;3:60-5. [DOI: 10.1016/j.eng.2017.01.011] [Cited by in Crossref: 22] [Article Influence: 4.4] [Reference Citation Analysis]
8 Thuy-Boun PS, Wang AY, Crissien-Martinez A, Xu JH, Chatterjee S, Stupp GS, Su AI, Coyle WJ, Wolan DW. Quantitative metaproteomics and activity-based protein profiling of patient fecal microbiome identifies host and microbial serine-type endopeptidase activity associated with ulcerative colitis. Mol Cell Proteomics 2022;:100197. [PMID: 35033677 DOI: 10.1016/j.mcpro.2022.100197] [Reference Citation Analysis]
9 Creswell R, Tan J, Leff JW, Brooks B, Mahowald MA, Thieroff-Ekerdt R, Gerber GK. High-resolution temporal profiling of the human gut microbiome reveals consistent and cascading alterations in response to dietary glycans. Genome Med 2020;12:59. [PMID: 32620143 DOI: 10.1186/s13073-020-00758-x] [Cited by in Crossref: 6] [Cited by in F6Publishing: 3] [Article Influence: 3.0] [Reference Citation Analysis]
10 Schiebenhoefer H, Van Den Bossche T, Fuchs S, Renard BY, Muth T, Martens L. Challenges and promise at the interface of metaproteomics and genomics: an overview of recent progress in metaproteogenomic data analysis. Expert Rev Proteomics 2019;16:375-90. [PMID: 31002542 DOI: 10.1080/14789450.2019.1609944] [Cited by in Crossref: 26] [Cited by in F6Publishing: 21] [Article Influence: 8.7] [Reference Citation Analysis]
11 Gierse LC, Meene A, Schultz D, Schwaiger T, Karte C, Schröder C, Wang H, Wünsche C, Methling K, Kreikemeyer B, Fuchs S, Bernhardt J, Becher D, Lalk M, KoInfekt Study Group, Urich T, Riedel K. A Multi-Omics Protocol for Swine Feces to Elucidate Longitudinal Dynamics in Microbiome Structure and Function. Microorganisms 2020;8:E1887. [PMID: 33260576 DOI: 10.3390/microorganisms8121887] [Cited by in Crossref: 2] [Cited by in F6Publishing: 2] [Article Influence: 1.0] [Reference Citation Analysis]
12 Zhang Y, Thompson KN, Huttenhower C, Franzosa EA. Statistical approaches for differential expression analysis in metatranscriptomics. Bioinformatics 2021;37:i34-41. [PMID: 34252963 DOI: 10.1093/bioinformatics/btab327] [Reference Citation Analysis]
13 Xu J, Yang Y. Gut microbiome and its meta-omics perspectives: profound implications for cardiovascular diseases. Gut Microbes 2021;13:1936379. [PMID: 34170211 DOI: 10.1080/19490976.2021.1936379] [Reference Citation Analysis]
14 Zhang X, Chen W, Ning Z, Mayne J, Mack D, Stintzi A, Tian R, Figeys D. Deep Metaproteomics Approach for the Study of Human Microbiomes. Anal Chem 2017;89:9407-15. [PMID: 28749657 DOI: 10.1021/acs.analchem.7b02224] [Cited by in Crossref: 49] [Cited by in F6Publishing: 38] [Article Influence: 9.8] [Reference Citation Analysis]
15 Zhang X, Li L, Butcher J, Stintzi A, Figeys D. Advancing functional and translational microbiome research using meta-omics approaches. Microbiome 2019;7:154. [PMID: 31810497 DOI: 10.1186/s40168-019-0767-6] [Cited by in Crossref: 56] [Cited by in F6Publishing: 47] [Article Influence: 18.7] [Reference Citation Analysis]
16 Okereke IC, Miller AL, Hamilton CF, Booth AL, Reep GL, Andersen CL, Reynolds ST, Pyles RB. Microbiota of the Oropharynx and Endoscope Compared to the Esophagus. Sci Rep 2019;9:10201. [PMID: 31308485 DOI: 10.1038/s41598-019-46747-y] [Cited by in Crossref: 9] [Cited by in F6Publishing: 8] [Article Influence: 3.0] [Reference Citation Analysis]
17 Tanca A, Abbondio M, Palomba A, Fraumene C, Manghina V, Cucca F, Fiorillo E, Uzzau S. Potential and active functions in the gut microbiota of a healthy human cohort. Microbiome 2017;5:79. [PMID: 28709472 DOI: 10.1186/s40168-017-0293-3] [Cited by in Crossref: 61] [Cited by in F6Publishing: 54] [Article Influence: 12.2] [Reference Citation Analysis]
18 Muñoz-Benavent M, Hartkopf F, Van Den Bossche T, Piro VC, García-Ferris C, Latorre A, Renard BY, Muth T. gNOMO: a multi-omics pipeline for integrated host and microbiome analysis of non-model organisms. NAR Genom Bioinform 2020;2:lqaa058. [PMID: 33575609 DOI: 10.1093/nargab/lqaa058] [Cited by in F6Publishing: 1] [Reference Citation Analysis]
19 Melkonian C, Fillinger L, Atashgahi S, da Rocha UN, Kuiper E, Olivier B, Braster M, Gottstein W, Helmus R, Parsons JR, Smidt H, van der Waals M, Gerritse J, Brandt BW, Röling WFM, Molenaar D, van Spanning RJM. High biodiversity in a benzene-degrading nitrate-reducing culture is sustained by a few primary consumers. Commun Biol 2021;4:530. [PMID: 33953314 DOI: 10.1038/s42003-021-01948-y] [Cited by in Crossref: 1] [Cited by in F6Publishing: 1] [Article Influence: 1.0] [Reference Citation Analysis]
20 Ludwig M, Wilmes P, Schrader S. Measuring soil sustainability via soil resilience. Science of The Total Environment 2018;626:1484-93. [DOI: 10.1016/j.scitotenv.2017.10.043] [Cited by in Crossref: 28] [Cited by in F6Publishing: 9] [Article Influence: 7.0] [Reference Citation Analysis]
21 Gavin PG, Mullaney JA, Loo D, Cao KL, Gottlieb PA, Hill MM, Zipris D, Hamilton-Williams EE. Intestinal Metaproteomics Reveals Host-Microbiota Interactions in Subjects at Risk for Type 1 Diabetes. Diabetes Care 2018;41:2178-86. [PMID: 30100563 DOI: 10.2337/dc18-0777] [Cited by in Crossref: 58] [Cited by in F6Publishing: 51] [Article Influence: 14.5] [Reference Citation Analysis]
22 Xue W, Li JJ, Zou Y, Zou B, Wei L. Microbiota and Ocular Diseases. Front Cell Infect Microbiol 2021;11:759333. [PMID: 34746029 DOI: 10.3389/fcimb.2021.759333] [Reference Citation Analysis]
23 Nalpas N, Hoyles L, Anselm V, Ganief T, Martinez-Gili L, Grau C, Droste-Borel I, Davidovic L, Altafaj X, Dumas ME, Macek B. An integrated workflow for enhanced taxonomic and functional coverage of the mouse fecal metaproteome. Gut Microbes 2021;13:1994836. [PMID: 34763597 DOI: 10.1080/19490976.2021.1994836] [Reference Citation Analysis]
24 Blank C, Easterly C, Gruening B, Johnson J, Kolmeder CA, Kumar P, May D, Mehta S, Mesuere B, Brown Z, Elias JE, Hervey WJ, McGowan T, Muth T, Nunn B, Rudney J, Tanca A, Griffin TJ, Jagtap PD. Disseminating Metaproteomic Informatics Capabilities and Knowledge Using the Galaxy-P Framework. Proteomes 2018;6:E7. [PMID: 29385081 DOI: 10.3390/proteomes6010007] [Cited by in Crossref: 29] [Cited by in F6Publishing: 18] [Article Influence: 7.3] [Reference Citation Analysis]
25 Heintz-Buschart A, Pandey U, Wicke T, Sixel-Döring F, Janzen A, Sittig-Wiegand E, Trenkwalder C, Oertel WH, Mollenhauer B, Wilmes P. The nasal and gut microbiome in Parkinson's disease and idiopathic rapid eye movement sleep behavior disorder. Mov Disord 2018;33:88-98. [PMID: 28843021 DOI: 10.1002/mds.27105] [Cited by in Crossref: 190] [Cited by in F6Publishing: 167] [Article Influence: 38.0] [Reference Citation Analysis]
26 Qian G, Ho JWK. Challenges and emerging systems biology approaches to discover how the human gut microbiome impact host physiology. Biophys Rev 2020;12:851-63. [PMID: 32638331 DOI: 10.1007/s12551-020-00724-2] [Cited by in Crossref: 3] [Cited by in F6Publishing: 1] [Article Influence: 1.5] [Reference Citation Analysis]
27 Miller IJ, Rees ER, Ross J, Miller I, Baxa J, Lopera J, Kerby RL, Rey FE, Kwan JC. Autometa: automated extraction of microbial genomes from individual shotgun metagenomes. Nucleic Acids Res 2019;47:e57. [PMID: 30838416 DOI: 10.1093/nar/gkz148] [Cited by in Crossref: 22] [Cited by in F6Publishing: 18] [Article Influence: 7.3] [Reference Citation Analysis]
28 Haga SB. Individualizing pharmacogenomic test results in the context of the microbiome. Per Med 2020;17:459-68. [PMID: 33026284 DOI: 10.2217/pme-2020-0077] [Cited by in Crossref: 1] [Article Influence: 0.5] [Reference Citation Analysis]
29 Young RB, Marcelino VR, Chonwerawong M, Gulliver EL, Forster SC. Key Technologies for Progressing Discovery of Microbiome-Based Medicines. Front Microbiol 2021;12:685935. [PMID: 34239510 DOI: 10.3389/fmicb.2021.685935] [Cited by in F6Publishing: 1] [Reference Citation Analysis]
30 Kim CY, Lee M, Yang S, Kim K, Yong D, Kim HR, Lee I. Human reference gut microbiome catalog including newly assembled genomes from under-represented Asian metagenomes. Genome Med 2021;13:134. [PMID: 34446072 DOI: 10.1186/s13073-021-00950-7] [Cited by in Crossref: 2] [Cited by in F6Publishing: 1] [Article Influence: 2.0] [Reference Citation Analysis]
31 Zhu R, Lang T, Yan W, Zhu X, Huang X, Yin Q, Li Y. Gut Microbiota: Influence on Carcinogenesis and Modulation Strategies by Drug Delivery Systems to Improve Cancer Therapy. Adv Sci (Weinh) 2021;8:2003542. [PMID: 34026439 DOI: 10.1002/advs.202003542] [Cited by in Crossref: 2] [Article Influence: 2.0] [Reference Citation Analysis]
32 Zhang X, Figeys D. Perspective and Guidelines for Metaproteomics in Microbiome Studies. J Proteome Res 2019;18:2370-80. [PMID: 31009573 DOI: 10.1021/acs.jproteome.9b00054] [Cited by in Crossref: 28] [Cited by in F6Publishing: 23] [Article Influence: 9.3] [Reference Citation Analysis]
33 Kaysen A, Heintz-Buschart A, Muller EEL, Narayanasamy S, Wampach L, Laczny CC, Graf N, Simon A, Franke K, Bittenbring J, Wilmes P, Schneider JG. Integrated meta-omic analyses of the gastrointestinal tract microbiome in patients undergoing allogeneic hematopoietic stem cell transplantation. Transl Res 2017;186:79-94.e1. [PMID: 28686852 DOI: 10.1016/j.trsl.2017.06.008] [Cited by in Crossref: 16] [Cited by in F6Publishing: 16] [Article Influence: 3.2] [Reference Citation Analysis]
34 Lehmann T, Schallert K, Vilchez-Vargas R, Benndorf D, Püttker S, Sydor S, Schulz C, Bechmann L, Canbay A, Heidrich B, Reichl U, Link A, Heyer R. Metaproteomics of fecal samples of Crohn's disease and Ulcerative Colitis. J Proteomics 2019;201:93-103. [PMID: 31009805 DOI: 10.1016/j.jprot.2019.04.009] [Cited by in Crossref: 18] [Cited by in F6Publishing: 11] [Article Influence: 6.0] [Reference Citation Analysis]
35 Busi SB, Pramateftaki P, Brandani J, Fodelianakis S, Peter H, Halder R, Wilmes P, Battin TJ. Optimised biomolecular extraction for metagenomic analysis of microbial biofilms from high-mountain streams. PeerJ 2020;8:e9973. [PMID: 33194372 DOI: 10.7717/peerj.9973] [Cited by in Crossref: 5] [Article Influence: 2.5] [Reference Citation Analysis]
36 Zhang S, Cao X, Huang H. Sampling Strategies for Three-Dimensional Spatial Community Structures in IBD Microbiota Research. Front Cell Infect Microbiol 2017;7:51. [PMID: 28286741 DOI: 10.3389/fcimb.2017.00051] [Cited by in Crossref: 10] [Cited by in F6Publishing: 11] [Article Influence: 2.0] [Reference Citation Analysis]
37 Zoppi J, Guillaume JF, Neunlist M, Chaffron S. MiBiOmics: an interactive web application for multi-omics data exploration and integration. BMC Bioinformatics 2021;22:6. [PMID: 33407076 DOI: 10.1186/s12859-020-03921-8] [Cited by in Crossref: 4] [Cited by in F6Publishing: 4] [Article Influence: 4.0] [Reference Citation Analysis]
38 Lonsdale D. Thiamin. Adv Food Nutr Res 2018;83:1-56. [PMID: 29477220 DOI: 10.1016/bs.afnr.2017.11.001] [Cited by in Crossref: 13] [Cited by in F6Publishing: 8] [Article Influence: 3.3] [Reference Citation Analysis]
39 Nyholm L, Koziol A, Marcos S, Botnen AB, Aizpurua O, Gopalakrishnan S, Limborg MT, Gilbert MTP, Alberdi A. Holo-Omics: Integrated Host-Microbiota Multi-omics for Basic and Applied Biological Research. iScience 2020;23:101414. [PMID: 32777774 DOI: 10.1016/j.isci.2020.101414] [Cited by in Crossref: 7] [Cited by in F6Publishing: 8] [Article Influence: 3.5] [Reference Citation Analysis]
40 Tisza MJ, Buck CB. A catalog of tens of thousands of viruses from human metagenomes reveals hidden associations with chronic diseases. Proc Natl Acad Sci U S A 2021;118:e2023202118. [PMID: 34083435 DOI: 10.1073/pnas.2023202118] [Cited by in Crossref: 2] [Cited by in F6Publishing: 2] [Article Influence: 2.0] [Reference Citation Analysis]
41 Heintz-buschart A, Guerra C, Djukic I, Cesarz S, Chatzinotas A, Patoine G, Sikorski J, Buscot F, Küsel K, Wegner C, Eisenhauer N. Microbial diversity-ecosystem function relationships across environmental gradients. RIO 2020;6:e52217. [DOI: 10.3897/rio.6.e52217] [Cited by in Crossref: 4] [Cited by in F6Publishing: 1] [Article Influence: 2.0] [Reference Citation Analysis]
42 Shaffer M, Borton MA, McGivern BB, Zayed AA, La Rosa SL, Solden LM, Liu P, Narrowe AB, Rodríguez-Ramos J, Bolduc B, Gazitúa MC, Daly RA, Smith GJ, Vik DR, Pope PB, Sullivan MB, Roux S, Wrighton KC. DRAM for distilling microbial metabolism to automate the curation of microbiome function. Nucleic Acids Res 2020;48:8883-900. [PMID: 32766782 DOI: 10.1093/nar/gkaa621] [Cited by in Crossref: 36] [Cited by in F6Publishing: 26] [Article Influence: 18.0] [Reference Citation Analysis]
43 Wenzel L, Heyer R, Schallert K, Löser L, Wünschiers R, Reichl U, Benndorf D. SDS-PAGE fractionation to increase metaproteomic insight into the taxonomic and functional composition of microbial communities for biogas plant samples. Eng Life Sci 2018;18:498-509. [PMID: 32624931 DOI: 10.1002/elsc.201800062] [Cited by in Crossref: 7] [Cited by in F6Publishing: 1] [Article Influence: 1.8] [Reference Citation Analysis]
44 Zhang X, Li L, Mayne J, Ning Z, Stintzi A, Figeys D. Assessing the impact of protein extraction methods for human gut metaproteomics. J Proteomics 2018;180:120-7. [PMID: 28705725 DOI: 10.1016/j.jprot.2017.07.001] [Cited by in Crossref: 54] [Cited by in F6Publishing: 35] [Article Influence: 10.8] [Reference Citation Analysis]
45 [DOI: 10.1101/2020.11.02.360933] [Cited by in Crossref: 3] [Cited by in F6Publishing: 2] [Reference Citation Analysis]
46 Martínez Arbas S, Narayanasamy S, Herold M, Lebrun LA, Hoopmann MR, Li S, Lam TJ, Kunath BJ, Hicks ND, Liu CM, Price LB, Laczny CC, Gillece JD, Schupp JM, Keim PS, Moritz RL, Faust K, Tang H, Ye Y, Skupin A, May P, Muller EEL, Wilmes P. Roles of bacteriophages, plasmids and CRISPR immunity in microbial community dynamics revealed using time-series integrated meta-omics. Nat Microbiol 2021;6:123-35. [PMID: 33139880 DOI: 10.1038/s41564-020-00794-8] [Cited by in Crossref: 14] [Cited by in F6Publishing: 8] [Article Influence: 7.0] [Reference Citation Analysis]
47 Mokhtari P, Metos J, Anandh Babu PV. Impact of type 1 diabetes on the composition and functional potential of gut microbiome in children and adolescents: possible mechanisms, current knowledge, and challenges. Gut Microbes 2021;13:1-18. [PMID: 34101547 DOI: 10.1080/19490976.2021.1926841] [Reference Citation Analysis]
48 Ren Z, Liu Q, Li W, Wu X, Dong Y, Huang Y. Profiling of Diagnostic Information of and Latent Susceptibility to Bacterial Keratitis From the Perspective of Ocular Bacterial Microbiota. Front Cell Infect Microbiol 2021;11:645907. [PMID: 34055665 DOI: 10.3389/fcimb.2021.645907] [Reference Citation Analysis]
49 Elhag DA, Kumar M, Al Khodor S. Exploring the Triple Interaction between the Host Genome, the Epigenome, and the Gut Microbiome in Type 1 Diabetes. Int J Mol Sci 2020;22:E125. [PMID: 33374418 DOI: 10.3390/ijms22010125] [Cited by in Crossref: 2] [Cited by in F6Publishing: 3] [Article Influence: 1.0] [Reference Citation Analysis]
50 de Nies L, Lopes S, Busi SB, Galata V, Heintz-Buschart A, Laczny CC, May P, Wilmes P. PathoFact: a pipeline for the prediction of virulence factors and antimicrobial resistance genes in metagenomic data. Microbiome 2021;9:49. [PMID: 33597026 DOI: 10.1186/s40168-020-00993-9] [Cited by in Crossref: 3] [Cited by in F6Publishing: 2] [Article Influence: 3.0] [Reference Citation Analysis]
51 Queirós P, Delogu F, Hickl O, May P, Wilmes P. Mantis: flexible and consensus-driven genome annotation. Gigascience 2021;10:giab042. [PMID: 34076241 DOI: 10.1093/gigascience/giab042] [Cited by in Crossref: 2] [Cited by in F6Publishing: 2] [Article Influence: 2.0] [Reference Citation Analysis]
52 Rosen CE, Palm NW. Functional Classification of the Gut Microbiota: The Key to Cracking the Microbiota Composition Code: Functional classifications of the gut microbiota reveal previously hidden contributions of indigenous gut bacteria to human health and disease. Bioessays 2017;39. [PMID: 28976007 DOI: 10.1002/bies.201700032] [Cited by in Crossref: 17] [Cited by in F6Publishing: 14] [Article Influence: 3.4] [Reference Citation Analysis]
53 Abdool Karim SS, Baxter C, Passmore JS, McKinnon LR, Williams BL. The genital tract and rectal microbiomes: their role in HIV susceptibility and prevention in women. J Int AIDS Soc 2019;22:e25300. [PMID: 31144462 DOI: 10.1002/jia2.25300] [Cited by in Crossref: 17] [Cited by in F6Publishing: 18] [Article Influence: 8.5] [Reference Citation Analysis]
54 Herold M, Martínez Arbas S, Narayanasamy S, Sheik AR, Kleine-Borgmann LAK, Lebrun LA, Kunath BJ, Roume H, Bessarab I, Williams RBH, Gillece JD, Schupp JM, Keim PS, Jäger C, Hoopmann MR, Moritz RL, Ye Y, Li S, Tang H, Heintz-Buschart A, May P, Muller EEL, Laczny CC, Wilmes P. Integration of time-series meta-omics data reveals how microbial ecosystems respond to disturbance. Nat Commun 2020;11:5281. [PMID: 33077707 DOI: 10.1038/s41467-020-19006-2] [Cited by in Crossref: 9] [Cited by in F6Publishing: 5] [Article Influence: 4.5] [Reference Citation Analysis]
55 Noecker C, Chiu HC, McNally CP, Borenstein E. Defining and Evaluating Microbial Contributions to Metabolite Variation in Microbiome-Metabolome Association Studies. mSystems 2019;4:e00579-19. [PMID: 31848305 DOI: 10.1128/mSystems.00579-19] [Cited by in Crossref: 22] [Cited by in F6Publishing: 15] [Article Influence: 7.3] [Reference Citation Analysis]
56 Laczny CC, Kiefer C, Galata V, Fehlmann T, Backes C, Keller A. BusyBee Web: metagenomic data analysis by bootstrapped supervised binning and annotation. Nucleic Acids Res 2017;45:W171-9. [PMID: 28472498 DOI: 10.1093/nar/gkx348] [Cited by in Crossref: 39] [Cited by in F6Publishing: 27] [Article Influence: 13.0] [Reference Citation Analysis]
57 Salinas I, Magadán S. Omics in fish mucosal immunity. Developmental & Comparative Immunology 2017;75:99-108. [DOI: 10.1016/j.dci.2017.02.010] [Cited by in Crossref: 35] [Cited by in F6Publishing: 27] [Article Influence: 7.0] [Reference Citation Analysis]
58 Stolfi C, Maresca C, Monteleone G, Laudisi F. Implication of Intestinal Barrier Dysfunction in Gut Dysbiosis and Diseases. Biomedicines 2022;10:289. [DOI: 10.3390/biomedicines10020289] [Reference Citation Analysis]
59 Campos B, Colbourne JK, Brown JB, Viant MR, Biales AD, Gallagher K, Henry TR, Sappington KG, Marshall S, Whale G. How omics technologies can enhance chemical safety regulation: perspectives from academia, government, and industry. Environ Toxicol Chem 2018;37:1252-9. [DOI: 10.1002/etc.4079] [Cited by in Crossref: 9] [Cited by in F6Publishing: 7] [Article Influence: 2.3] [Reference Citation Analysis]
60 Vorholt JA, Vogel C, Carlström CI, Müller DB. Establishing Causality: Opportunities of Synthetic Communities for Plant Microbiome Research. Cell Host & Microbe 2017;22:142-55. [DOI: 10.1016/j.chom.2017.07.004] [Cited by in Crossref: 171] [Cited by in F6Publishing: 125] [Article Influence: 34.2] [Reference Citation Analysis]
61 Santos-Júnior CD, Pan S, Zhao XM, Coelho LP. Macrel: antimicrobial peptide screening in genomes and metagenomes. PeerJ 2020;8:e10555. [PMID: 33384902 DOI: 10.7717/peerj.10555] [Cited by in Crossref: 2] [Cited by in F6Publishing: 2] [Article Influence: 1.0] [Reference Citation Analysis]
62 Hooks KB, O'Malley MA. Contrasting Strategies: Human Eukaryotic Versus Bacterial Microbiome Research. J Eukaryot Microbiol 2020;67:279-95. [PMID: 31583780 DOI: 10.1111/jeu.12766] [Cited by in Crossref: 10] [Cited by in F6Publishing: 6] [Article Influence: 3.3] [Reference Citation Analysis]
63 Oduaran OH, Tamburini FB, Sahibdeen V, Brewster R, Gómez-Olivé FX, Kahn K, Norris SA, Tollman SM, Twine R, Wade AN, Wagner RG, Lombard Z, Bhatt AS, Hazelhurst S. Gut microbiome profiling of a rural and urban South African cohort reveals biomarkers of a population in lifestyle transition. BMC Microbiol 2020;20:330. [PMID: 33129264 DOI: 10.1186/s12866-020-02017-w] [Cited by in Crossref: 3] [Cited by in F6Publishing: 4] [Article Influence: 1.5] [Reference Citation Analysis]
64 Jiang D, Armour CR, Hu C, Mei M, Tian C, Sharpton TJ, Jiang Y. Microbiome Multi-Omics Network Analysis: Statistical Considerations, Limitations, and Opportunities. Front Genet 2019;10:995. [PMID: 31781153 DOI: 10.3389/fgene.2019.00995] [Cited by in Crossref: 30] [Cited by in F6Publishing: 26] [Article Influence: 10.0] [Reference Citation Analysis]
65 Khare A. Experimental systems biology approaches reveal interaction mechanisms in model multispecies communities. Trends Microbiol 2021:S0966-842X(21)00071-8. [PMID: 33865676 DOI: 10.1016/j.tim.2021.03.012] [Reference Citation Analysis]
66 Zheng J, Guo Y, Hu B, Zhu L, Yang Y, Li S, Li N, Liu H. Serum metabolomic profiles reveal the impact of BuZangTongLuo formula on metabolic pathways in diabetic mice with hindlimb ischemia. Journal of Ethnopharmacology 2020;258:112928. [DOI: 10.1016/j.jep.2020.112928] [Cited by in Crossref: 1] [Cited by in F6Publishing: 1] [Article Influence: 0.5] [Reference Citation Analysis]
67 Belda I, Williams TC, de Celis M, Paulsen IT, Pretorius IS. Seeding the idea of encapsulating a representative synthetic metagenome in a single yeast cell. Nat Commun 2021;12:1599. [PMID: 33707418 DOI: 10.1038/s41467-021-21877-y] [Cited by in Crossref: 1] [Cited by in F6Publishing: 1] [Article Influence: 1.0] [Reference Citation Analysis]
68 Kleiner M. Metaproteomics: Much More than Measuring Gene Expression in Microbial Communities. mSystems 2019;4:e00115-19. [PMID: 31117019 DOI: 10.1128/mSystems.00115-19] [Cited by in Crossref: 41] [Cited by in F6Publishing: 18] [Article Influence: 13.7] [Reference Citation Analysis]
69 Shetty SA, Lahti L. Microbiome data science. J Biosci 2019;44. [DOI: 10.1007/s12038-019-9930-2] [Cited by in Crossref: 6] [Cited by in F6Publishing: 2] [Article Influence: 2.0] [Reference Citation Analysis]
70 Liberti A, Natarajan O, Atkinson CGF, Sordino P, Dishaw LJ. Reflections on the Use of an Invertebrate Chordate Model System for Studies of Gut Microbial Immune Interactions. Front Immunol 2021;12:642687. [PMID: 33717199 DOI: 10.3389/fimmu.2021.642687] [Cited by in Crossref: 2] [Cited by in F6Publishing: 2] [Article Influence: 2.0] [Reference Citation Analysis]
71 Martínez Arbas S, Busi SB, Queirós P, de Nies L, Herold M, May P, Wilmes P, Muller EEL, Narayanasamy S. Challenges, Strategies, and Perspectives for Reference-Independent Longitudinal Multi-Omic Microbiome Studies. Front Genet 2021;12:666244. [PMID: 34194470 DOI: 10.3389/fgene.2021.666244] [Cited by in Crossref: 1] [Cited by in F6Publishing: 1] [Article Influence: 1.0] [Reference Citation Analysis]
72 Muller EE, Faust K, Widder S, Herold M, Martínez Arbas S, Wilmes P. Using metabolic networks to resolve ecological properties of microbiomes. Current Opinion in Systems Biology 2018;8:73-80. [DOI: 10.1016/j.coisb.2017.12.004] [Cited by in Crossref: 33] [Cited by in F6Publishing: 9] [Article Influence: 8.3] [Reference Citation Analysis]
73 Liang Y, Xie SB, Wu CH, Hu Y, Zhang Q, Li S, Fan YG, Leng RX, Pan HF, Xiong HB, Ye DQ. Coagulation cascade and complement system in systemic lupus erythematosus. Oncotarget 2018;9:14862-81. [PMID: 29599912 DOI: 10.18632/oncotarget.23206] [Cited by in Crossref: 9] [Cited by in F6Publishing: 7] [Article Influence: 1.8] [Reference Citation Analysis]
74 Hildebrand F, Gossmann TI, Frioux C, Özkurt E, Myers PN, Ferretti P, Kuhn M, Bahram M, Nielsen HB, Bork P. Dispersal strategies shape persistence and evolution of human gut bacteria. Cell Host Microbe 2021;29:1167-1176.e9. [PMID: 34111423 DOI: 10.1016/j.chom.2021.05.008] [Cited by in Crossref: 4] [Cited by in F6Publishing: 5] [Article Influence: 4.0] [Reference Citation Analysis]
75 Kim M, Tagkopoulos I. Data integration and predictive modeling methods for multi-omics datasets. Mol Omics 2018;14:8-25. [DOI: 10.1039/c7mo00051k] [Cited by in Crossref: 40] [Cited by in F6Publishing: 19] [Article Influence: 10.0] [Reference Citation Analysis]
76 Schmidt TSB, Raes J, Bork P. The Human Gut Microbiome: From Association to Modulation. Cell 2018;172:1198-215. [PMID: 29522742 DOI: 10.1016/j.cell.2018.02.044] [Cited by in Crossref: 285] [Cited by in F6Publishing: 238] [Article Influence: 95.0] [Reference Citation Analysis]
77 Blanco-Míguez A, Fdez-Riverola F, Sánchez B, Lourenço A. Resources and tools for the high-throughput, multi-omic study of intestinal microbiota. Brief Bioinform 2019;20:1032-56. [PMID: 29186315 DOI: 10.1093/bib/bbx156] [Cited by in Crossref: 8] [Cited by in F6Publishing: 6] [Article Influence: 4.0] [Reference Citation Analysis]
78 Qin Q, Chen Y, Li Y, Wei J, Zhou X, Le F, Hu H, Chen T. Intestinal Microbiota Play an Important Role in the Treatment of Type I Diabetes in Mice With BefA Protein. Front Cell Infect Microbiol 2021;11:719542. [PMID: 34604109 DOI: 10.3389/fcimb.2021.719542] [Reference Citation Analysis]
79 Costello Z, Martin HG. A machine learning approach to predict metabolic pathway dynamics from time-series multiomics data. NPJ Syst Biol Appl 2018;4:19. [PMID: 29872542 DOI: 10.1038/s41540-018-0054-3] [Cited by in Crossref: 83] [Cited by in F6Publishing: 65] [Article Influence: 20.8] [Reference Citation Analysis]
80 Tanca A, Manghina V, Fraumene C, Palomba A, Abbondio M, Deligios M, Silverman M, Uzzau S. Metaproteogenomics Reveals Taxonomic and Functional Changes between Cecal and Fecal Microbiota in Mouse. Front Microbiol 2017;8:391. [PMID: 28352255 DOI: 10.3389/fmicb.2017.00391] [Cited by in Crossref: 37] [Cited by in F6Publishing: 36] [Article Influence: 7.4] [Reference Citation Analysis]
81 Wang Y, Guan LL. Translational multi-omics microbiome research for strategies to improve cattle production and health. Emerg Top Life Sci 2022:ETLS20210257. [PMID: 35311904 DOI: 10.1042/ETLS20210257] [Reference Citation Analysis]
82 Chhabra P, Spano AJ, Bowers D, Ren T, Moore DJ, Timko MP, Wu M, Brayman KL. Evidence for the Role of the Cecal Microbiome in Maintenance of Immune Regulation and Homeostasis. Ann Surg 2018;268:541-9. [PMID: 29994931 DOI: 10.1097/SLA.0000000000002930] [Cited by in Crossref: 5] [Cited by in F6Publishing: 2] [Article Influence: 1.7] [Reference Citation Analysis]
83 Williams CL, Caraballo-rodríguez AM, Allaband C, Zarrinpar A, Knight R, Gauglitz JM. Wildlife-microbiome interactions and disease: exploring opportunities for disease mitigation across ecological scales. Drug Discovery Today: Disease Models 2018;28:105-15. [DOI: 10.1016/j.ddmod.2019.08.012] [Cited by in Crossref: 6] [Cited by in F6Publishing: 1] [Article Influence: 1.5] [Reference Citation Analysis]
84 Xu J, Zhang Q, Zheng J, Yuan B, Feng Y. Mass spectrometry-based fecal metabolome analysis. TrAC Trends in Analytical Chemistry 2019;112:161-74. [DOI: 10.1016/j.trac.2018.12.027] [Cited by in Crossref: 15] [Cited by in F6Publishing: 10] [Article Influence: 5.0] [Reference Citation Analysis]
85 Onyango SO, Juma J, De Paepe K, Van de Wiele T. Oral and Gut Microbial Carbohydrate-Active Enzymes Landscape in Health and Disease. Front Microbiol 2021;12:653448. [PMID: 34956106 DOI: 10.3389/fmicb.2021.653448] [Reference Citation Analysis]
86 Peters DL, Wang W, Zhang X, Ning Z, Mayne J, Figeys D. Metaproteomic and Metabolomic Approaches for Characterizing the Gut Microbiome. Proteomics 2019;19:e1800363. [PMID: 31321880 DOI: 10.1002/pmic.201800363] [Cited by in Crossref: 9] [Cited by in F6Publishing: 8] [Article Influence: 3.0] [Reference Citation Analysis]
87 Kartal E, Schmidt TSB, Molina-Montes E, Rodríguez-Perales S, Wirbel J, Maistrenko OM, Akanni WA, Alashkar Alhamwe B, Alves RJ, Carrato A, Erasmus HP, Estudillo L, Finkelmeier F, Fullam A, Glazek AM, Gómez-Rubio P, Hercog R, Jung F, Kandels S, Kersting S, Langheinrich M, Márquez M, Molero X, Orakov A, Van Rossum T, Torres-Ruiz R, Telzerow A, Zych K, Benes V, Zeller G, Trebicka J, Real FX, Malats N, Bork P; MAGIC Study investigators., PanGenEU Study investigators. A faecal microbiota signature with high specificity for pancreatic cancer. Gut 2022:gutjnl-2021-324755. [PMID: 35260444 DOI: 10.1136/gutjnl-2021-324755] [Reference Citation Analysis]
88 Wang Y, Eum JH, Harrison RE, Valzania L, Yang X, Johnson JA, Huck DT, Brown MR, Strand MR. Riboflavin instability is a key factor underlying the requirement of a gut microbiota for mosquito development. Proc Natl Acad Sci U S A 2021;118:e2101080118. [PMID: 33827929 DOI: 10.1073/pnas.2101080118] [Cited by in Crossref: 6] [Cited by in F6Publishing: 3] [Article Influence: 6.0] [Reference Citation Analysis]
89 Milanese A, Mende DR, Paoli L, Salazar G, Ruscheweyh HJ, Cuenca M, Hingamp P, Alves R, Costea PI, Coelho LP, Schmidt TSB, Almeida A, Mitchell AL, Finn RD, Huerta-Cepas J, Bork P, Zeller G, Sunagawa S. Microbial abundance, activity and population genomic profiling with mOTUs2. Nat Commun 2019;10:1014. [PMID: 30833550 DOI: 10.1038/s41467-019-08844-4] [Cited by in Crossref: 91] [Cited by in F6Publishing: 72] [Article Influence: 30.3] [Reference Citation Analysis]
90 Starr AE, Deeke SA, Li L, Zhang X, Daoud R, Ryan J, Ning Z, Cheng K, Nguyen LVH, Abou-samra E, Lavallée-adam M, Figeys D. Proteomic and Metaproteomic Approaches to Understand Host–Microbe Interactions. Anal Chem 2017;90:86-109. [DOI: 10.1021/acs.analchem.7b04340] [Cited by in Crossref: 24] [Cited by in F6Publishing: 20] [Article Influence: 4.8] [Reference Citation Analysis]
91 Jin S, Wetzel D, Schirmer M. Deciphering mechanisms and implications of bacterial translocation in human health and disease. Curr Opin Microbiol 2022;67:102147. [PMID: 35461008 DOI: 10.1016/j.mib.2022.102147] [Reference Citation Analysis]
92 Guo B, Yang B, Pang X, Chen T, Chen F, Cheng KW. Fucoxanthin modulates cecal and fecal microbiota differently based on diet. Food Funct 2019;10:5644-55. [PMID: 31433413 DOI: 10.1039/c9fo01018a] [Cited by in Crossref: 22] [Cited by in F6Publishing: 9] [Article Influence: 7.3] [Reference Citation Analysis]
93 Fischer A, Dotzek J, Walther D, Greiner S. Graph-based models of the Oenothera mitochondrial genome capture the enormous complexity of higher plant mitochondrial DNA organization. NAR Genomics and Bioinformatics 2022;4:lqac027. [DOI: 10.1093/nargab/lqac027] [Reference Citation Analysis]
94 Xu P, Liu P, Zhou C, Shi Y, Wu Q, Yang Y, Li G, Hu G, Guo X. A Multi-Omics Study of Chicken Infected by Nephropathogenic Infectious Bronchitis Virus. Viruses 2019;11:E1070. [PMID: 31744152 DOI: 10.3390/v11111070] [Cited by in Crossref: 4] [Cited by in F6Publishing: 3] [Article Influence: 1.3] [Reference Citation Analysis]
95 Lu ZM, Wang ZM, Zhang XJ, Mao J, Shi JS, Xu ZH. Microbial ecology of cereal vinegar fermentation: insights for driving the ecosystem function. Curr Opin Biotechnol 2018;49:88-93. [PMID: 28843369 DOI: 10.1016/j.copbio.2017.07.006] [Cited by in Crossref: 24] [Cited by in F6Publishing: 20] [Article Influence: 4.8] [Reference Citation Analysis]
96 Magnúsdóttir S, Thiele I. Modeling metabolism of the human gut microbiome. Curr Opin Biotechnol 2018;51:90-6. [PMID: 29258014 DOI: 10.1016/j.copbio.2017.12.005] [Cited by in Crossref: 72] [Cited by in F6Publishing: 49] [Article Influence: 14.4] [Reference Citation Analysis]
97 Zhong H, Ren H, Lu Y, Fang C, Hou G, Yang Z, Chen B, Yang F, Zhao Y, Shi Z, Zhou B, Wu J, Zou H, Zi J, Chen J, Bao X, Hu Y, Gao Y, Zhang J, Xu X, Hou Y, Yang H, Wang J, Liu S, Jia H, Madsen L, Brix S, Kristiansen K, Liu F, Li J. Distinct gut metagenomics and metaproteomics signatures in prediabetics and treatment-naïve type 2 diabetics. EBioMedicine 2019;47:373-83. [PMID: 31492563 DOI: 10.1016/j.ebiom.2019.08.048] [Cited by in Crossref: 22] [Cited by in F6Publishing: 23] [Article Influence: 7.3] [Reference Citation Analysis]
98 Quinn TP. Visualizing balances of compositional data: A new alternative to balance dendrograms. F1000Res 2018;7:1278. [PMID: 30228880 DOI: 10.12688/f1000research.15858.1] [Cited by in Crossref: 10] [Cited by in F6Publishing: 5] [Article Influence: 2.5] [Reference Citation Analysis]
99 Schmidt TS, Hayward MR, Coelho LP, Li SS, Costea PI, Voigt AY, Wirbel J, Maistrenko OM, Alves RJ, Bergsten E, de Beaufort C, Sobhani I, Heintz-Buschart A, Sunagawa S, Zeller G, Wilmes P, Bork P. Extensive transmission of microbes along the gastrointestinal tract. Elife. 2019;8. [PMID: 30747106 DOI: 10.7554/elife.42693] [Cited by in Crossref: 87] [Cited by in F6Publishing: 64] [Article Influence: 29.0] [Reference Citation Analysis]
100 Villapol S. Gastrointestinal symptoms associated with COVID-19: impact on the gut microbiome. Transl Res 2020;226:57-69. [PMID: 32827705 DOI: 10.1016/j.trsl.2020.08.004] [Cited by in Crossref: 67] [Cited by in F6Publishing: 65] [Article Influence: 33.5] [Reference Citation Analysis]
101 Miro-Blanch J, Yanes O. Epigenetic Regulation at the Interplay Between Gut Microbiota and Host Metabolism. Front Genet 2019;10:638. [PMID: 31338107 DOI: 10.3389/fgene.2019.00638] [Cited by in Crossref: 43] [Cited by in F6Publishing: 38] [Article Influence: 14.3] [Reference Citation Analysis]
102 White RA, Rivas-ubach A, Borkum MI, Köberl M, Bilbao A, Colby SM, Hoyt DW, Bingol K, Kim Y, Wendler JP, Hixson KK, Jansson C. The state of rhizospheric science in the era of multi-omics: A practical guide to omics technologies. Rhizosphere 2017;3:212-21. [DOI: 10.1016/j.rhisph.2017.05.003] [Cited by in Crossref: 28] [Cited by in F6Publishing: 7] [Article Influence: 5.6] [Reference Citation Analysis]
103 Narayanasamy S, Jarosz Y, Muller EE, Heintz-Buschart A, Herold M, Kaysen A, Laczny CC, Pinel N, May P, Wilmes P. IMP: a pipeline for reproducible reference-independent integrated metagenomic and metatranscriptomic analyses. Genome Biol 2016;17:260. [PMID: 27986083 DOI: 10.1186/s13059-016-1116-8] [Cited by in Crossref: 72] [Cited by in F6Publishing: 57] [Article Influence: 12.0] [Reference Citation Analysis]
104 Bayer G, Ganobis CM, Allen-Vercoe E, Philpott DJ. Defined gut microbial communities: promising tools to understand and combat disease. Microbes Infect 2021;23:104816. [PMID: 33785422 DOI: 10.1016/j.micinf.2021.104816] [Cited by in Crossref: 1] [Cited by in F6Publishing: 1] [Article Influence: 1.0] [Reference Citation Analysis]
105 Laloo AE, Wei J, Wang D, Narayanasamy S, Vanwonterghem I, Waite D, Steen J, Kaysen A, Heintz-buschart A, Wang Q, Schulz B, Nouwens A, Wilmes P, Hugenholtz P, Yuan Z, Bond PL. Mechanisms of Persistence of the Ammonia-Oxidizing Bacteria Nitrosomonas to the Biocide Free Nitrous Acid. Environ Sci Technol 2018;52:5386-97. [DOI: 10.1021/acs.est.7b04273] [Cited by in Crossref: 29] [Cited by in F6Publishing: 22] [Article Influence: 7.3] [Reference Citation Analysis]
106 Salvato F, Hettich RL, Kleiner M. Five key aspects of metaproteomics as a tool to understand functional interactions in host-associated microbiomes. PLoS Pathog 2021;17:e1009245. [PMID: 33630960 DOI: 10.1371/journal.ppat.1009245] [Cited by in Crossref: 3] [Cited by in F6Publishing: 1] [Article Influence: 3.0] [Reference Citation Analysis]
107 Paul W, Marta C, Tom VDW. Resolving host–microbe interactions in the gut: the promise of in vitro models to complement in vivo research. Current Opinion in Microbiology 2018;44:28-33. [DOI: 10.1016/j.mib.2018.07.001] [Cited by in Crossref: 13] [Cited by in F6Publishing: 9] [Article Influence: 3.3] [Reference Citation Analysis]
108 Michaelsen TY, Brandt J, Singleton CM, Kirkegaard RH, Wiesinger J, Segata N, Albertsen M. The Signal and the Noise: Characteristics of Antisense RNA in Complex Microbial Communities. mSystems 2020;5:e00587-19. [PMID: 32047059 DOI: 10.1128/mSystems.00587-19] [Reference Citation Analysis]
109 Cooper RO, Vavra JM, Cressler CE. Targeted Manipulation of Abundant and Rare Taxa in the Daphnia magna Microbiota with Antibiotics Impacts Host Fitness Differentially. mSystems 2021;6:e00916-20. [PMID: 33824198 DOI: 10.1128/mSystems.00916-20] [Cited by in Crossref: 3] [Cited by in F6Publishing: 2] [Article Influence: 3.0] [Reference Citation Analysis]
110 Lacroix V, Cassard A, Mas E, Barreau F. Multi-Omics Analysis of Gut Microbiota in Inflammatory Bowel Diseases: What Benefits for Diagnostic, Prognostic and Therapeutic Tools? Int J Mol Sci 2021;22:11255. [PMID: 34681921 DOI: 10.3390/ijms222011255] [Reference Citation Analysis]
111 de Groot PF, Belzer C, Aydin Ö, Levin E, Levels JH, Aalvink S, Boot F, Holleman F, van Raalte DH, Scheithauer TP, Simsek S, Schaap FG, Olde Damink SWM, Roep BO, Hoekstra JB, de Vos WM, Nieuwdorp M. Distinct fecal and oral microbiota composition in human type 1 diabetes, an observational study. PLoS One 2017;12:e0188475. [PMID: 29211757 DOI: 10.1371/journal.pone.0188475] [Cited by in Crossref: 78] [Cited by in F6Publishing: 72] [Article Influence: 15.6] [Reference Citation Analysis]
112 Berard AR, Perner M, Mutch S, Farr Zuend C, McQueen P, Burgener AD. Understanding mucosal and microbial functionality of the female reproductive tract by metaproteomics: Implications for HIV transmission. Am J Reprod Immunol 2018;80:e12977. [PMID: 29790240 DOI: 10.1111/aji.12977] [Cited by in Crossref: 7] [Cited by in F6Publishing: 6] [Article Influence: 1.8] [Reference Citation Analysis]
113 Heyer R, Schallert K, Zoun R, Becher B, Saake G, Benndorf D. Challenges and perspectives of metaproteomic data analysis. J Biotechnol 2017;261:24-36. [PMID: 28663049 DOI: 10.1016/j.jbiotec.2017.06.1201] [Cited by in Crossref: 101] [Cited by in F6Publishing: 73] [Article Influence: 20.2] [Reference Citation Analysis]
114 Volkova A, Ruggles KV. Predictive Metagenomic Analysis of Autoimmune Disease Identifies Robust Autoimmunity and Disease Specific Microbial Signatures. Front Microbiol 2021;12:621310. [PMID: 33746917 DOI: 10.3389/fmicb.2021.621310] [Cited by in Crossref: 4] [Cited by in F6Publishing: 5] [Article Influence: 4.0] [Reference Citation Analysis]
115 Marfil-Sánchez A, Zhang L, Alonso-Pernas P, Mirhakkak M, Mueller M, Seelbinder B, Ni Y, Santhanam R, Busch A, Beemelmanns C, Ermolaeva M, Bauer M, Panagiotou G. An integrative understanding of the large metabolic shifts induced by antibiotics in critical illness. Gut Microbes 2021;13:1993598. [PMID: 34793277 DOI: 10.1080/19490976.2021.1993598] [Reference Citation Analysis]
116 Ezzamouri B, Shoaie S, Ledesma-Amaro R. Synergies of Systems Biology and Synthetic Biology in Human Microbiome Studies. Front Microbiol 2021;12:681982. [PMID: 34531833 DOI: 10.3389/fmicb.2021.681982] [Reference Citation Analysis]
117 Dong X, Liu C, Dozmorov M. Review of multi-omics data resources and integrative analysis for human brain disorders. Brief Funct Genomics 2021;20:223-34. [PMID: 33969380 DOI: 10.1093/bfgp/elab024] [Cited by in Crossref: 1] [Cited by in F6Publishing: 2] [Article Influence: 1.0] [Reference Citation Analysis]
118 Ballarin L, Karahan A, Salvetti A, Rossi L, Manni L, Rinkevich B, Rosner A, Voskoboynik A, Rosental B, Canesi L, Anselmi C, Pinsino A, Tohumcu BE, Jemec Kokalj A, Dolar A, Novak S, Sugni M, Corsi I, Drobne D. Stem Cells and Innate Immunity in Aquatic Invertebrates: Bridging Two Seemingly Disparate Disciplines for New Discoveries in Biology. Front Immunol 2021;12:688106. [PMID: 34276677 DOI: 10.3389/fimmu.2021.688106] [Cited by in F6Publishing: 1] [Reference Citation Analysis]
119 Kunath BJ, Minniti G, Skaugen M, Hagen LH, Vaaje-kolstad G, Eijsink VGH, Pope PB, Arntzen MØ. Metaproteomics: Sample Preparation and Methodological Considerations. In: Capelo-martínez J, editor. Emerging Sample Treatments in Proteomics. Cham: Springer International Publishing; 2019. pp. 187-215. [DOI: 10.1007/978-3-030-12298-0_8] [Cited by in Crossref: 11] [Cited by in F6Publishing: 7] [Article Influence: 3.7] [Reference Citation Analysis]
120 Veiga P, Tap J, Derrien M. [Gut microbiota, the key for a better diet?]. Med Sci (Paris) 2016;32:999-1002. [PMID: 28008841 DOI: 10.1051/medsci/20163211016] [Cited by in Crossref: 1] [Article Influence: 0.2] [Reference Citation Analysis]
121 Liu Z, Ma A, Mathé E, Merling M, Ma Q, Liu B. Network analyses in microbiome based on high-throughput multi-omics data. Brief Bioinform 2021;22:1639-55. [PMID: 32047891 DOI: 10.1093/bib/bbaa005] [Cited by in Crossref: 8] [Cited by in F6Publishing: 8] [Article Influence: 4.0] [Reference Citation Analysis]
122 Surana NK. Moving Microbiome Science from the Bench to the Bedside: a Physician-Scientist Perspective. mSystems 2019;4:e00160-19. [PMID: 31138724 DOI: 10.1128/mSystems.00160-19] [Cited by in Crossref: 1] [Cited by in F6Publishing: 1] [Article Influence: 0.3] [Reference Citation Analysis]
123 Christel S, Herold M, Bellenberg S, El Hajjami M, Buetti-Dinh A, Pivkin IV, Sand W, Wilmes P, Poetsch A, Dopson M. Multi-omics Reveals the Lifestyle of the Acidophilic, Mineral-Oxidizing Model Species Leptospirillum ferriphilumT. Appl Environ Microbiol 2018;84:e02091-17. [PMID: 29150517 DOI: 10.1128/AEM.02091-17] [Cited by in Crossref: 32] [Cited by in F6Publishing: 21] [Article Influence: 8.0] [Reference Citation Analysis]
124 Bauer E, Thiele I. From Network Analysis to Functional Metabolic Modeling of the Human Gut Microbiota. mSystems 2018;3:e00209-17. [PMID: 29600286 DOI: 10.1128/mSystems.00209-17] [Cited by in Crossref: 50] [Cited by in F6Publishing: 27] [Article Influence: 12.5] [Reference Citation Analysis]
125 Duvallet C, Larson K, Snapper S, Iosim S, Lee A, Freer K, May K, Alm E, Rosen R. Aerodigestive sampling reveals altered microbial exchange between lung, oropharyngeal, and gastric microbiomes in children with impaired swallow function. PLoS One 2019;14:e0216453. [PMID: 31107879 DOI: 10.1371/journal.pone.0216453] [Cited by in Crossref: 9] [Cited by in F6Publishing: 10] [Article Influence: 3.0] [Reference Citation Analysis]
126 Zhao M, Su XQ, Nian B, Chen LJ, Zhang DL, Duan SM, Wang LY, Shi XY, Jiang B, Jiang WW, Lv CY, Wang DP, Shi Y, Xiao Y, Wu JL, Pan YH, Ma Y. Integrated Meta-omics Approaches To Understand the Microbiome of Spontaneous Fermentation of Traditional Chinese Pu-erh Tea. mSystems 2019;4:e00680-19. [PMID: 31744906 DOI: 10.1128/mSystems.00680-19] [Cited by in Crossref: 28] [Cited by in F6Publishing: 6] [Article Influence: 9.3] [Reference Citation Analysis]
127 Mehta S, Kumar P, Crane M, Johnson JE, Sajulga R, Nguyen DDA, McGowan T, Arntzen MØ, Griffin TJ, Jagtap PD. Updates on metaQuantome Software for Quantitative Metaproteomics. J Proteome Res 2021;20:2130-7. [PMID: 33683127 DOI: 10.1021/acs.jproteome.0c00960] [Cited by in Crossref: 2] [Cited by in F6Publishing: 3] [Article Influence: 2.0] [Reference Citation Analysis]
128 Wampach L, Heintz-Buschart A, Fritz JV, Ramiro-Garcia J, Habier J, Herold M, Narayanasamy S, Kaysen A, Hogan AH, Bindl L, Bottu J, Halder R, Sjöqvist C, May P, Andersson AF, de Beaufort C, Wilmes P. Birth mode is associated with earliest strain-conferred gut microbiome functions and immunostimulatory potential. Nat Commun 2018;9:5091. [PMID: 30504906 DOI: 10.1038/s41467-018-07631-x] [Cited by in Crossref: 90] [Cited by in F6Publishing: 86] [Article Influence: 22.5] [Reference Citation Analysis]