Microbial community profiling for human microbiome projects: Tools, techniques, and challenges Export

@article{citeulike:4381962, abstract = {10.1101/gr.085464.108 High-throughput sequencing studies and new software tools are revolutionizing microbial community analyses, yet the variety of experimental and computational methods can be daunting. In this review, we discuss some of the different approaches to community profiling, highlighting strengths and weaknesses of various experimental approaches, sequencing methodologies, and analytical methods. We also address one key question emerging from various Human Microbiome Projects: Is there a substantial core of abundant organisms or lineages that we all share? It appears that in some human body habitats, such as the hand and the gut, the diversity among individuals is so great that we can rule out the possibility that any species is at high abundance in all individuals: It is possible that the focus should instead be on higher-level taxa or on functional genes instead.}, author = {Hamady, Micah and Knight, Rob}, citeulike-article-id = {4381962}, citeulike-linkout-0 = {http://dx.doi.org/10.1101/gr.085464.108}, citeulike-linkout-1 = {http://genome.cshlp.org/content/gr.085464.108v1//.abstract}, citeulike-linkout-2 = {http://genome.cshlp.org/content/gr.085464.108v1//.full.pdf}, citeulike-linkout-3 = {http://view.ncbi.nlm.nih.gov/pubmed/19383763}, citeulike-linkout-4 = {http://www.hubmed.org/display.cgi?uids=19383763}, day = {21}, doi = {10.1101/gr.085464.108}, journal = {Genome Research}, keywords = {16s, clustering, human, methods, microbiome, otu, review}, month = {July}, number = {7}, pages = {1141--1152}, posted-at = {2009-07-01 22:03:21}, priority = {2}, title = {Microbial community profiling for human microbiome projects: Tools, techniques, and challenges}, url = {http://dx.doi.org/10.1101/gr.085464.108}, volume = {19}, year = {2009} }

TY - JOUR ID - citeulike:4381962 L3 - citeulike-article-id:4381962 N2 - 10.1101/gr.085464.108 High-throughput sequencing studies and new software tools are revolutionizing microbial community analyses, yet the variety of experimental and computational methods can be daunting. In this review, we discuss some of the different approaches to community profiling, highlighting strengths and weaknesses of various experimental approaches, sequencing methodologies, and analytical methods. We also address one key question emerging from various Human Microbiome Projects: Is there a substantial core of abundant organisms or lineages that we all share? It appears that in some human body habitats, such as the hand and the gut, the diversity among individuals is so great that we can rule out the possibility that any species is at high abundance in all individuals: It is possible that the focus should instead be on higher-level taxa or on functional genes instead. IS - 7 JF - Genome Research EP - 1152 TI - Microbial community profiling for human microbiome projects: Tools, techniques, and challenges VL - 19 SP - 1141 KW - 16s KW - clustering KW - human KW - methods KW - microbiome KW - otu KW - review AU - Hamady, Micah AU - Knight, Rob PY - 2009/07/21/ UR - http://dx.doi.org/10.1101/gr.085464.108 ER -