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Bioinformatics, ISSN 1367-4803, 10/2019
Abstract Summary Phylogenetic comparative methods are powerful but presently under-utilized ways to identify microbial genes underlying differences in... 
Journal Article
Trends in Genetics, ISSN 0168-9525, 11/2019
Journal Article
Genome Biology, ISSN 1474-7596, 03/2015, Volume 16, Issue 1, p. 51
Average genome size is an important, yet often overlooked, property of microbial communities. We developed MicrobeCensus to rapidly and accurately estimate... 
ACCURATE | EVOLUTION | CATALOG | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | BIAS | GENES | GENETICS & HEREDITY | DIVERSITY | GUT MICROBIOTA | PREDICTION | Metagenomics | Genome, Bacterial | Metagenome - genetics | Microbiota - genetics | Genome Size | Humans | Sequence Analysis, DNA | Taxonomy | Genomics | Genes | Bias | Microbiomes | Carbohydrate metabolism | Genomes | Metabolism | Data bases | Acids | Software | Bioinformatics | Methods | Method
Journal Article
Briefings in Bioinformatics, ISSN 1467-5463, 01/2011, Volume 12, Issue 1, pp. 41 - 51
Journal Article
Cell, ISSN 0092-8674, 08/2016, Volume 166, Issue 5, pp. 1103 - 1116
Shotgun metagenomics and computational analysis are used to compare the taxonomic and functional profiles of microbial communities. Leveraging this approach to... 
SEQUENCES | SINGLE-CELL GENOMICS | BIOCHEMISTRY & MOLECULAR BIOLOGY | GENE-EXPRESSION | ASSIGNMENT | ECOLOGY | CONTAMINATION | DIVERSITY | DIFFERENTIAL EXPRESSION ANALYSIS | PACIFIC BIOSCIENCES | CHALLENGES | CELL BIOLOGY | Microbiota - genetics | Humans | Classification | Computational Biology | Metagenomics - standards | Models, Statistical | Metagenome
Journal Article
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 02/2019, Volume 116, Issue 6, pp. 2175 - 2180
Journal Article
Molecular biology of the cell, ISSN 1059-1524, 06/2019, Volume 30, Issue 12, pp. 1359 - 1368
We provide guidelines for using statistical methods to analyze the types of experiments reported in cellular and molecular biology journals such as . Our aim... 
MBoC Technical
Journal Article
NATURE GENETICS, ISSN 1061-4036, 08/2019, Volume 51, Issue 8, pp. 1198 - 1200
[...]enhancer-promoter pairs that are independent (for example, on different chromosomes) may not be identically distributed. [...]both parts of the IID... 
REGULATOR | GENETICS & HEREDITY | Domains | Problems | Genomics | Machine learning | Dependence | Genomes | Biology | Chromosomes | Artificial intelligence
Journal Article
Molecular biology and evolution, 08/2018, Volume 35, Issue 8, p. 2034
Some of the fastest evolving regions of the human genome are conserved noncoding elements with many human-specific DNA substitutions. These human accelerated... 
Algorithms | Animals | Computer Simulation | Humans | Selection, Genetic | Hominidae - growth & development | Models, Genetic | Hominidae - genetics | Gene Conversion | Evolution, Molecular
Journal Article
by Methé, Barbara A and Nelson, Karen E and Pop, Mihai and Creasy, Heather H and Giglio, Michelle G and Huttenhower, Curtis and Gevers, Dirk and Petrosino, Joseph F and Abubucker, Sahar and Badger, Jonathan H and Chinwalla, Asif T and Earl, Ashlee M and Fitzgerald, Michael G and Fulton, Robert S and Hallsworth-Pepin, Kymberlie and Lobos, Elizabeth A and Madupu, Ramana and Magrini, Vincent and Martin, John C and Mitreva, Makedonka and Muzny, Donna M and Sodergren, Erica J and Versalovic, James and Wollam, Aye M and Worley, Kim C and Wortman, Jennifer R and Young, Sarah K and Zeng, Qiandong and Aagaard, Kjersti M and Abolude, Olukemi O and Allen-Vercoe, Emma and Alm, Eric J and Alvarado, Lucia and Andersen, Gary L and Anderson, Scott and Appelbaum, Elizabeth and Arachchi, Harindra M and Armitage, Gary and Arze, Cesar A and Ayvaz, Tulin and Baker, Carl C and Begg, Lisa and Belachew, Tsegahiwot and Bhonagiri, Veena and Bihan, Monika and Blaser, Martin J and Bloom, Toby and Bonazzi, Vivien R and Brooks, Paul and Buck, Gregory A and Buhay, Christian J and Busam, Dana A and Campbell, Joseph L and Canon, Shane R and Cantarel, Brandi L and Chain, Patrick S and Chen, I-Min A and Chen, Lei and Chhibba, Shaila and Chu, Ken and Ciulla, Dawn M and Clemente, Jose C and Clifton, Sandra W and Conlan, Sean and Crabtree, Jonathan and Cutting, Mary A and Davidovics, Noam J and Davis, Catherine C and Desantis, Todd Z and Deal, Carolyn and Delehaunty, Kimberley D and Dewhirst, Floyd E and Deych, Elena and Ding, Yan and Dooling, David J and Dugan, Shannon P and Michael Dunne, W and Scott Durkin, A and Edgar, Robert C and Erlich, Rachel L and Farmer, Candace N and Farrell, Ruth M and Faust, Karoline and Feldgarden, Michael and Felix, Victor M and Fisher, Sheila and Fodor, Anthony A and Forney, Larry and Foster, Leslie and Di Francesco, Valentina and Friedman, Jonathan and Friedrich, Dennis C and Fronick, Catrina C and Fulton, Lucinda L and Gao, Hongyu and Garcia, Nathalia and Giannoukos, Georgia and Giblin, Christina and Giovanni, Maria Y and Goldberg, Jonathan M and ... and Human Microbiome Project Consortiu and Human Microbiome Project Consortium and The Human Microbiome Project Consortium and Joint Genome Institute (JGI)
Nature, ISSN 0028-0836, 06/2012, Volume 486, Issue 7402, pp. 215 - 221
A variety of microbial communities and their genes (the microbiome) exist throughout the human body, with fundamental roles in human health and disease. The... 
MULTIDISCIPLINARY SCIENCES | CATALOG | Young Adult | Reference Standards | Humans | Adolescent | Metagenomics - methods | RNA, Ribosomal, 16S - genetics | Adult | Female | Male | Statistics as Topic | Bacteria - genetics | Metagenome | Genetic research | Microbiological research | Genomes | Research | Microbiota (Symbiotic organisms) | Studies | Medicine | Microbiology | Publications | Taxonomy | Genomics | Data processing | Manuscripts
Journal Article
by Huttenhower, Curtis and Gevers, Dirk and Knight, Rob and Abubucker, Sahar and Badger, Jonathan H and Chinwalla, Asif T and Creasy, Heather H and Earl, Ashlee M and Fitzgerald, Michael G and Fulton, Robert S and Giglio, Michelle G and Hallsworth-Pepin, Kymberlie and Lobos, Elizabeth A and Madupu, Ramana and Magrini, Vincent and Martin, John C and Mitreva, Makedonka and Muzny, Donna M and Sodergren, Erica J and Versalovic, James and Wollam, Aye M and Worley, Kim C and Wortman, Jennifer R and Young, Sarah K and Zeng, Qiandong and Aagaard, Kjersti M and Abolude, Olukemi O and Allen-Vercoe, Emma and Alm, Eric J and Alvarado, Lucia and Andersen, Gary L and Anderson, Scott and Appelbaum, Elizabeth and Arachchi, Harindra M and Armitage, Gary and Arze, Cesar A and Ayvaz, Tulin and Baker, Carl C and Begg, Lisa and Belachew, Tsegahiwot and Bhonagiri, Veena and Bihan, Monika and Blaser, Martin J and Bloom, Toby and Bonazzi, Vivien and Paul Brooks, J and Buck, Gregory A and Buhay, Christian J and Busam, Dana A and Campbell, Joseph L and Canon, Shane R and Cantarel, Brandi L and Chain, Patrick S. G and Chen, I-Min A and Chen, Lei and Chhibba, Shaila and Chu, Ken and Ciulla, Dawn M and Clemente, Jose C and Clifton, Sandra W and Conlan, Sean and Crabtree, Jonathan and Cutting, Mary A and Davidovics, Noam J and Davis, Catherine C and Desantis, Todd Z and Deal, Carolyn and Delehaunty, Kimberley D and Dewhirst, Floyd E and Deych, Elena and Ding, Yan and Dooling, David J and Dugan, Shannon P and Michael Dunne, Wm and Scott Durkin, A and Edgar, Robert C and Erlich, Rachel L and Farmer, Candace N and Farrell, Ruth M and Faust, Karoline and Feldgarden, Michael and Felix, Victor M and Fisher, Sheila and Fodor, Anthony A and Forney, Larry J and Foster, Leslie and Di Francesco, Valentina and Friedman, Jonathan and Friedrich, Dennis C and Fronick, Catrina C and Fulton, Lucinda L and Gao, Hongyu and Garcia, Nathalia and Giannoukos, Georgia and Giblin, Christina and Giovanni, Maria Y and Goldberg, Jonathan M and Goll, Johannes and Gonzalez, Antonio and Griggs, Allison and ... and Human Microbiome Project Consortiu and Human Microbiome Project Consortium and The Human Microbiome Project Consortium and Joint Genome Institute (JGI)
Nature, ISSN 0028-0836, 06/2012, Volume 486, Issue 7402, pp. 207 - 214
Journal Article