jmeppley's library 1106 articles Export

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	Metagenome of a Versatile Chemolithoautotroph from Expanding Oceanic Dead Zones [My Copy] Science, Vol. 326, No. 5952. (23 October 2009), pp. 578-582. by David A. Walsh, Elena Zaikova, Charles G. Howes, et al.Young C. Song, Jody J. Wright, Susannah G. Tringe, Philippe D. Tortell, Steven J. Hallam posted to sup05 sulfur-oxidation omz marine-microbiology community-genomics chemolithoautotroph by jmeppley on 2009-11-06 01:08:11 as
	Wrinkles in the rare biosphere: pyrosequencing errors lead to artificial inflation of diversity estimates [My Copy] Environmental Microbiology, Vol. 9999, No. 9999. (2009) by Victor Kunin, Anna Engelbrektson, Howard Ochman, Philip Hugenholtz posted to sequencing-error rrna pyrosequencing diversity 454-sequencing 16s-rrna by jmeppley on 2009-09-14 18:28:56 as along with 2 people and 1 group jgill skembel iSEEM
	Bias in assessments of marine SAR11 biodiversity in environmental fosmid and BAC libraries? [My Copy] The ISME journal (2 July 2009) by Roi Feingersch, Oded Béjà posted to biodiversity community-genomics fosmid-libraries sar11 sequencing sequencing-bias by jmeppley on 2009-07-24 15:21:37 as
	Bias in assessments of marine microbial biodiversity in fosmid libraries as evaluated by pyrosequencing. [My Copy] The ISME journal, Vol. 3, No. 7. (2 July 2009), pp. 792-796. by B. Temperton, D. Field, A. Oliver, et al.B. Tiwari, M. Mühling, I. Joint, J. A. Gilbert posted to fosmid-libraries pyrosequencing sequencing sequencing-bias by jmeppley on 2009-07-24 14:08:27 as along with 1 person Thaverkamp
	Binning sequences using very sparse labels within a metagenome [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (28 April 2008), 215. by Chon K. Chan, Arthur Hsu, Saman Halgamuge, Sen L. Tang posted to community-genomics metagenomics-binning sequence-assembly sequence-clusters by jmeppley on 2009-06-15 17:33:16 as along with 13 people and 3 groups skembel esyoun sriesenfeld dakelley Thaverkamp idoerg azazello druvus alexl mjetten werwiesel jlgreen djkt Bioinformatics microbiology_nijmegen iSEEM
	Microbial community structure and its functional implications [My Copy] Nature, Vol. 459, No. 7244. (14 May 2009), pp. 193-199. by Jed A. Fuhrman posted to biogeochemistry community-structure microbial-community microbial-ecology by jmeppley on 2009-05-14 19:04:22 as along with 4 people and 1 group hwright Thaverkamp djkt skembel iSEEM
	The microbial ocean from genomes to biomes [My Copy] Nature, Vol. 459, No. 7244. (14 May 2009), pp. 200-206. by Edward F. Delong posted to biogeochemistry marine-ecology marine-microbiology microbial-ecology by jmeppley on 2009-05-14 19:03:16 as along with 6 people and 2 groups roys stajich Thaverkamp neils djkt skembel Mycology iSEEM
	Population genomics and the bacterial species concept. [My Copy] Methods in molecular biology (Clifton, N.J.), Vol. 532 (2009), pp. 367-377. by M. A. Riley, M. Lizotte-Waniewski posted to horizontal-gene-transfer microbial-species population-genetics by jmeppley on 2009-04-16 14:51:19 as along with 4 people and 1 group jasontsai Zephyrus Thaverkamp AaronDarling Microbial-Ecology
	Molecular eco-systems biology: towards an understanding of community function [My Copy] Nature Reviews Microbiology, Vol. 6, No. 9. (30 June 2008), pp. 693-699. by Jeroen Raes, Peer Bork posted to community-genomics microbial-ecology systems-biology by jmeppley on 2008-12-05 17:55:25 as along with 1 person tomhebbron
	Toward a standards-compliant genomic and metagenomic publication record. [My Copy] Omics : a journal of integrative biology, Vol. 12, No. 2. (June 2008), pp. 157-160. by G. M. Garrity, D. Field, N. Kyrpides, et al.L. Hirschman, S. A. Sansone, S. Angiuoli, J. R. Cole, F. O. Glöckner, E. Kolker, G. Kowalchuk, M. A. Moran, D. Ussery, O. White posted to genomics bioinformatics by jmeppley on 2008-09-02 02:37:23 as
	Multivariate analyses in microbial ecology [My Copy] FEMS Microbiology Ecology, Vol. 62, No. 2. (2007), pp. 142-160. by Alban Ramette posted to ecological-statistics microbial-ecology by jmeppley on 2008-04-29 21:07:20 as along with 5 people and 1 group l00cas druvus Stenuite Olaf_Ilzins vrich Microbial-Ecology
	DEGseq: an R package for identifying differentially expressed genes from RNA-seq data. [My Copy] Bioinformatics (Oxford, England) (24 October 2009), btp612. by Likun Wang, Zhixing Feng, Xi Wang, Xiaowo Wang, Xuegong Zhang posted to software-library second-generation-sequencing r by jmeppley on 2009-11-02 21:30:11 as along with 6 people ramonvidal heliopais GeeSharpMinor juokcho natstreet druvus
	Seeking unique and common biological themes in multiple gene lists or datasets: pathway pattern extraction pipeline for pathway-level comparative analysis [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 200. by Ming Yi, Uma Mudunuri, Anney Che, Robert Stephens posted to comparative-metagenomics pathway-analysis by jmeppley on 2009-06-30 14:55:39 as along with 5 people and 1 group ptrobajo Effie shikin renatomilani barriot NaCTeM
	Genome assembly reborn: recent computational challenges [My Copy] Brief Bioinform, Vol. 10, No. 4. (1 July 2009), pp. 354-366. by Mihai Pop posted to assembly by jmeppley on 2009-06-09 13:50:29 as along with 28 people and 1 group cthachuk GustavoLacerda n00c agbiotec shabhonam pachorip APRegier jmcq stevebs jonilaserson michaelbarton inesdesantiago GeeSharpMinor bertelsen aprasad ananta_samudra sandfire mlangill fgibson ppgardne TRHvidsten pengchy robsyme nuin kiekyon natstreet druvus idoerg Journal picks
	Microbial oceanography in a sea of opportunity [My Copy] Nature, Vol. 459, No. 7244. (14 May 2009), pp. 180-184. by Chris Bowler, David M. Karl, Rita R. Colwell posted to geochemical-cycles geomicrobiology marine-ecosystem marine-microbiology microbial-ecology by jmeppley on 2009-05-14 14:41:50 as along with 3 people and 1 group hwright Thaverkamp skembel Microbial-Ecology
	On the origin of prokaryotic species. [My Copy] Genome research, Vol. 19, No. 5. (May 2009), pp. 744-756. by W. Ford Doolittle, Olga Zhaxybayeva posted to community-genomics microbial-species population-genetics by jmeppley on 2009-05-05 14:15:23 as along with 3 people and 1 group neils Thaverkamp inquil Microbial-Ecology
	Phylogenetic Signals in DNA Composition: Limitations and Prospects [My Copy] Mol Biol Evol, Vol. 26, No. 5. (1 May 2009), pp. 1163-1169. by Jan Mrazek posted to community-genomics metagenomics-binning by jmeppley on 2009-04-21 20:20:18 as along with 5 people and 1 group dakelley skembel djkt druvus nuin iSEEM
	Metagenomics reveals our incomplete knowledge of global diversity. [My Copy] Bioinformatics (Oxford, England) (13 July 2008) by Miguel Pignatelli, Gabriel Aparicio, Ignacio Blanquer, Vicente Hernández, Andrés Moya, Javier Tamames posted to community-genomics diversity microbial-diversity by jmeppley on 2009-04-16 14:48:32 as along with 10 people and 3 groups hwright Thaverkamp microrita skembel druvus vaulot reyez djkt bootsy nuin Papers recommended by the Roscoff Plankton Group Microbial-Ecology iSEEM
	Estimating the extent of horizontal gene transfer in metagenomic sequences [My Copy] BMC Genomics, Vol. 9, No. 1. (2008) by Javier Tamames, Andres Moya posted to community-genomics hgt-detection horizontal-gene-transfer microbial-ecology population-genetics by jmeppley on 2009-04-16 14:46:44 as along with 3 people and 1 group Thaverkamp neils karfunkel Microbial-Ecology
	Divergence in the Face of Gene Flow: The Case of Two Newts (Amphibia: Salamandridae) [My Copy] Mol Biol Evol, Vol. 26, No. 4. (1 April 2009), pp. 829-841. by Krystyna Nadachowska, Wieslaw Babik posted to evolution gene-flow population-genetics speciation by jmeppley on 2009-04-03 12:12:01 as along with 1 person operon
	KEGGgraph: a graph approach to KEGG PATHWAY in R and bioconductor. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 11. (1 June 2009), pp. 1470-1471. by Jitao David D. Zhang, Stefan Wiemann posted to annotation bioinformatics genomics kegg software software-library visualization by jmeppley on 2009-03-31 21:40:31 as along with 15 people Thaverkamp daforerog Vincent_Rouilly kiara coela guhjy dolchan neils VGreiff nuin chrisamiller renatomilani natstreet phoenixzxl druvus
	Metagenomics: Concept, methodology, ecological inference and recent advances. [My Copy] Biotechnology journal (13 March 2009) by Jagtar Singh, Arvind Behal, Neha Singla, et al.Amit Joshi, Niti Birbian, Sukhdeep Singh, Vandana Bali, Navneet Batra posted to community-genomics microbial-ecology review by jmeppley on 2009-03-27 12:49:25 as along with 1 person Thaverkamp
	Generalized linear mixed models: a practical guide for ecology and evolution. [My Copy] Trends in ecology & evolution (Personal edition), Vol. 24, No. 3. (28 March 2009), pp. 127-135. by Benjamin M. Bolker, Mollie E. Brooks, Connie J. Clark, et al.Shane W. Geange, John R. Poulsen, M. Henry Stevens, Jada-Simone S. White posted to ecology evolution model model-selection model-verification statistics by jmeppley on 2009-03-16 21:16:08 as along with 15 people and 1 group kaiserm pauljohn32 mariawolters cbniles roodubh Gorzomagnificent neteler flips tonamswish AndrewD kevinpdavies guhjy iBartomeus pepime dmajka behavior_flexibility
	Application of 'next-generation' sequencing technologies to microbial genetics [My Copy] Nat Rev Micro, Vol. advanced online publication, No. 4. (23 February 2009), pp. 287-296. by Daniel MacLean, Jonathan D. G. Jones, David J. Studholme posted to communtiy-genomics microbial-genetics by jmeppley on 2009-03-16 15:18:16 as along with 9 people and 1 group nfparrish n00c kinestetika katholt jlgreen roys robsyme hpaces druvus iSEEM
	DIYA: a bacterial annotation pipeline for any genomics lab. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 7. (1 April 2009), pp. 962-963. by Andrew C. Stewart, Brian Osborne, Timothy D. Read posted to annotation software by jmeppley on 2009-03-05 14:17:31 as along with 5 people azazello jamselem robfsouza druvus dswan
	Experience using web services for biological sequence analysis. [My Copy] Briefings in bioinformatics, Vol. 9, No. 6. (11 November 2008), pp. 493-505. by Heinz Stockinger, Teresa Attwood, Shahid Nadeem N. Chohan, et al.Richard Côté, Philippe Cudré-Mauroux, Laurent Falquet, Pedro Fernandes, Robert D. Finn, Taavi Hupponen, Eija Korpelainen, Alberto Labarga, Aurelie Laugraud, Tania Lima, Evangelos Pafilis, Marco Pagni, Steve Pettifer, Isabelle Phan, Nazim Rahman posted to bioinformatics software by jmeppley on 2008-12-30 12:19:15 as along with 13 people and 1 group daforerog pekrau svozil behindtherabbit dswan allysonlister alaninmcr Cortel kshameer guhjy druvus dullhunk nuin Bioinformatics
	ProfileGrids as a new visual representation of large multiple sequence alignments: a case study of the RecA protein family [My Copy] BMC Bioinformatics, Vol. 9 (22 December 2008), 554. by Alberto, Aaron C. Abajian posted to bioinformatics sequence-alignment software visualization by jmeppley on 2008-12-24 15:24:10 as along with 1 person nuin
	Better Bioinformatics Through Usability Analysis. [My Copy] Bioinformatics (Oxford, England) (9 December 2008) by Davide Bolchini, Anthony Finkelstein, Vito Perrone, Sylvia Nagl posted to bioinformatics software visualization by jmeppley on 2008-12-18 15:52:50 as along with 20 people and 1 group FabienneGranier guhjy svozil pkonings dbk rmhirsk niallhaslam renatomilani chrisamiller Yanno fgibson zimbo1 druvus allysonlister dswan behindtherabbit neils dullhunk sjcockell nuin Bioinformatics
	Capturing whole-genome characteristics in short sequences using a naïve Bayesian classifier. [My Copy] Genome Res, Vol. 11, No. 8. (August 2001), pp. 1404-1409. by R. Sandberg, G. Winberg, C. I. Bränden, A. Kaske, I. Ernberg, J. Cöster posted to bayesian classification recombination-detection by jmeppley on 2008-09-30 19:02:40 as along with 4 people esyoun azazello bluto karfunkel
	Should software hold data hostage? [My Copy] Nat Biotechnol, Vol. 22, No. 8. (August 2004), pp. 1037-1038. by H. S. Wiley, G. S. Michaels posted to bioinformatics software by jmeppley on 2008-09-05 13:31:37 as along with 2 people and 1 group irenas hpiwowar dbk-lab
	A Standard MIGS/MIMS Compliant XML Schema: Toward the Development of the Genomic Contextual Data Markup Language (GCDML) [My Copy] OMICS: A Journal of Integrative Biology, Vol. 12, No. 2. (2008), pp. 115-121. by Renzo Kottmann, Tanya Gray, Sean Murphy, et al.Leonid Kagan, Saul Kravitz, Thierry Lombardot, Dawn Field, Frank O. Glockner posted to bioinformatics genomics software by jmeppley on 2008-09-05 13:30:24 as along with 2 people idoerg sconlan
	Millimeter-scale genetic gradients and community-level molecular convergence in a hypersaline microbial mat [My Copy] Mol Syst Biol, Vol. 4 (3 June 2008) by Victor Kunin, Jeroen Raes, Kirk J. Harris, et al.John R. Spear, Jeffrey J. Walker, Natalia Ivanova, Christian von Mering, Brad M. Bebout, Norman R. Pace, Peer Bork, Philip Hugenholtz posted to biofilm biofilm-ecology community-genomics gradient microbial-genetics by jmeppley on 2008-09-02 02:54:06 as along with 4 people and 1 group Thaverkamp idoerg rabu hpaces Microbial-Ecology
	Integrated data analysis for genome-wide research. [My Copy] EXS, Vol. 97 (2007), pp. 309-329. by M. Steinfath, D. Repsilber, M. Scholz, D. Walther, J. Selbig posted to comparative-genomics genomics statistics by jmeppley on 2008-05-14 18:15:46 as along with 1 person lh1
	Macrofungal diversity and community ecology in mature and regrowth wet eucalypt forest in Tasmania: A multivariate study [My Copy] Austral Ecology, Vol. 27, No. 2. (2002), pp. 149-161. by J. M. Packham, T. W. May, M. J. Brown, T. J. Wardlaw, A. K. Mills posted to ecological-statistics by jmeppley on 2008-04-29 14:09:54 as
	Pyrobayes: an improved base caller for SNP discovery in pyrosequences [My Copy] Nat Meth, Vol. 5, No. 2. (13 February 2008), pp. 179-181. by Aaron R. Quinlan, Donald A. Stewart, Michael P. Stromberg, Gabor T. Marth posted to 454-sequencing base-calling software by jmeppley on 2008-04-17 21:25:40 as along with 9 people and 1 group n00c jonilaserson natstreet druvus hpaces orzenil azazello guhjy mariakmejia gatech-compgenomics
	Principal Component Analyses of Assemblage Structure Data: Utility of Tests Based on Eigenvalues [My Copy] Ecology, Vol. 72, No. 1. (1991), pp. 341-347. by Gary D. Grossman, David M. Nickerson, Mary C. Freeman posted to comparative-ecology ecological-statistics ecology principal-components-analysis statistics by jmeppley on 2008-01-10 19:35:10 as
	Intercontinental Comparison of Small-Lake Fish Assemblages: The Balance between Local and Regional Processes [My Copy] The American Naturalist, Vol. 136, No. 3. (1990), pp. 345-375. by William M. Tonn, John J. Magnuson, Martti Rask, Jorma Toivonen posted to comparative-ecology by jmeppley on 2008-01-10 19:32:06 as
	METAGENOMICS: Genomic Analysis of Microbial Communities [My Copy] Annual Review of Genetics, Vol. 38, No. 1., 525. by Christian S. Riesenfeld, Patrick D. Schloss, Jo Handelsman posted to community-genomics by jmeppley on 2008-01-10 18:31:52 as
	Molecular diversity and ecology of microbial plankton [My Copy] Nature, Vol. 437, No. 7057. (14 September 2005), pp. 343-348. by Stephen J. Giovannoni, Ulrich Stingl posted to diversity evolution marine-microbiology microbial-ecology by jmeppley on 2008-01-10 18:13:24 as along with 6 people and 4 groups hwright Stenuite jdelcampo beatrizfernandez vrich jlgreen African_Lakes_Limnology Microbial-Ecology Green Lab iSEEM
	Quantitative distribution of presumptive archaeal and bacterial nitrifiers in Monterey Bay and the North Pacific Subtropical Gyre [My Copy] Environmental Microbiology, Vol. 9, No. 5. (May 2007), pp. 1162-1175. by Mincer, J. Tracy, Church, et al.J. Matthew, Taylor, Lance Trent, Preston, Christina, Karl, M. David, Delong, F. Edward posted to delong-lab marine-microbiology by jmeppley on 2007-09-19 02:09:39 as along with 3 people and 2 groups michC kinestetika vrich anammox microbiology_nijmegen
	Microbial population genomics and ecology [My Copy] Current Opinion in Microbiology, Vol. 5, No. 5. (1 October 2002), pp. 520-524. by Edward F. Delong posted to community-genomics microbial-diversity by jmeppley on 2007-03-08 04:31:11 as
	Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. [My Copy] J Bacteriol, Vol. 180, No. 18. (September 1998), pp. 4765-4774. by P. Hugenholtz, B. M. Goebel, N. R. Pace posted to microbial-diversity by jmeppley on 2007-03-08 04:24:50 as along with 1 person and 1 group jdelcampo Microbial-Ecology
	Genomic analysis of the uncultivated marine crenarchaeote Cenarchaeum symbiosum [My Copy] PNAS, Vol. 103, No. 48. (28 November 2006), pp. 18296-18301. by Steven J. Hallam, Konstantinos T. Konstantinidis, Nik Putnam, et al.Christa Schleper, Yoh-Ichi Watanabe, Junichi Sugahara, Christina Preston, de La, Paul M. Richardson, Edward F. Delong posted to community-genomics microbial-genomics recombination z-paper-fer1-fer2-species by jmeppley on 2007-03-03 19:51:40 as along with 1 person cmzmasek
	Genomic and Metabolic Studies of the Impact of Probiotics on a Model Gut Symbiont and Host [My Copy] PLoS Biology, Vol. 4, No. 12. (1 December 2006), e413. by Justin L. Sonnenburg, Christina T. Chen, Jeffrey I. Gordon posted to genomics human-microbiology probiotics by jmeppley on 2006-12-13 18:11:13 as along with 1 person aswin
	The New Bioinformatics: Integrating Ecological Data from the Gene to the Biosphere [My Copy] Vol. 37, No. 1. (2006), pp. 519-544. by Matthew B. Jones, Mark P. Schildhauer, O. J. Reichman, Shawn Bowers posted to bioinformatics ecology genetics scale by jmeppley on 2006-12-10 19:02:35 as along with 2 people heavner maburkitt
	The Posterior and the Prior in Bayesian Phylogenetics [My Copy] - Annual Review of Ecology, Evolution, and Systematics, Vol. 37, No. 1. (2006), pp. 19-42. by Michael E. Alfaro, Mark T. Holder posted to bayesian phylogenetics review by jmeppley on 2006-12-10 19:00:16 as
	Bacterial populations as perfect gases: genomic integrity and diversification tensions in Helicobacter pylori [My Copy] Nat Rev Micro, Vol. 4, No. 11. (November 2006), pp. 826-836. by Josephine Kang, Martin J. Blaser posted to diversity horizontal-gene-transfer microbial-species speciation by jmeppley on 2006-10-16 19:42:47 as
	Habitat complexity facilitates coexistence in a tropical ant community. [My Copy] Oecologia, Vol. 149, No. 3. (September 2006), pp. 465-473. by M. Sarty, K. L. Abbott, P. J. Lester posted to coexistence diversity-heterogeneity envvironmetal-heterogeneity habitat-heterogeneity heterogeneity by jmeppley on 2006-09-01 23:12:07 as
	Who's your neighbor? New computational approaches for functional genomics. [My Copy] Nat Biotechnol, Vol. 18, No. 6. (June 2000), pp. 609-613. by M. Y. Galperin, E. V. Koonin posted to comparative-genomics function-prediction functional-genomics phylogenetics by jmeppley on 2006-08-18 16:09:28 as along with 4 people bicko balajis eweaver bluto
	Biodiversity Loss Threatens Human Well-Being [My Copy] PLoS Biology, Vol. 4, No. 8. (1 August 2006) by Sandra Díaz, Joseph Fargione, Stuart F. Chapin, David Tilman posted to biodiversity environmental-public-health by jmeppley on 2006-08-15 17:08:15 as along with 2 people and 2 groups PBubb Flit biodiversity_conservation Global_biodiversity_model

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refworks-import	173
community-genomics	133
ecology	124
model	120
evolution	117
software	95
horizontal-gene-transfer	91
diversity	83
microbial-ecology	72
bacteria	59
stability	57
genomics	51
bioinformatics	49
biofilm	48
food-web	48
microbial-diversity	48
ecosystem	47
z-paper-background	44
microbial-species	42
phylogenetics	42
statistics	40
genetics	39
population-genetics	39
community-structure	36
z-paper-fer1-fer2-species	35
acid-mine-drainage	34
marine-microbiology	34
recombination	34
comparative-genomics	32
microbial-community	31
iron-oxidation	30
community-ecology	29
hgt-detection	28
proteomics	28
archaea	26
kinetics	26
thiobacillus-ferrooxidans	26
visualization	26
ecological-interaction	25
population-dynamics	25
trophic-level	25
16s-rrna	24
microorganism	24
predator-prey	24
complexity	23
biodiversity	22
microbiology	22
thiobacillus	22
biooxidation	21
escherichia-coli	21
gene-expression	21
iron	21
microcosm	21
network	21
scale	21
simulation	21
community	19
human-microbiology	19
microarray	18
population-structure	18
competition	17
pyrite	17
selection	17
tree-of-life	17
acidophile	16
coexistence	16
ecoclassics	16
metabolism	16
redox	16
x-models	16
annotation	15
leptospirillum	15
productivity	15
speciation	15
assembly	14
classification	14
microbial-genomics	14
adaptation	13
clustering	13
diversity-stability	13
ecological-statistics	13
leptospirillum-ferrooxidans	13
regulation	13
comparative-metagenomics	12
x-amd-model-params	12
biogeochemistry	11
delong-lab	11
marine-ecosystem	11
mutualism	11
principal-components-analysis	11
sequence-alignment	11
sulfur	11
x-bioinf-software	11
z-paper-quals-modelling-proposal	11
bayesian	10
parameters	10
rrna	10
systems-biology	10
454-sequencing	9
coevolution	9
connectance	9
environment	9
environmental-public-health	9
ferroplasma	9
growth	9
hgt-mosaic-genome	9
individual-based-model	9
model-discrimination	9
r	9
soil	9
x-biofilm	9
x-diversity-stability	9
x-fer2-strains	9
x-ib-153-papers	9
canonical-correlation-analysis	8
control	8
density-dependence	8
disturbance	8
experimental-design	8
fluorescent-in-situ-hybridization	8
model-fitting	8
second-generation-sequencing	8
sequence-assembly	8
sequencing	8
x-microbial-species	8
x-microcosm	8
x-recomb-frequency	8
x-stability	8
z-paper-strainer	8
climate-change	7
community-composition	7
diversity-heterogeneity	7
gene-flow	7
metabolic-control-analysis	7
recombination-divergence	7
software-library	7
x-exp-design	7
z-class-evoeco	7
chaos	6
confocal-laser-microscopy	6
evolution-experiment	6
gos	6
growth-rate	6
host-parasite	6
hydronephrosis	6
iron-mountain	6
model-validation	6
model-verification	6
niche	6
perturbation	6
phylogenetic-tree	6
population	6
pyrosequencing	6
quasispecies	6
sp-nov	6
sulfate-reducing-bacteria	6
system	6
transcriptomics	6
x-community-structure	6
x-evolutionary-ecology	6
x-individual-based-model	6
x-mca-tca	6
alternative-stable-states	5
dynamics	5
epidemiology	5
gen-nov	5
geomicrobiology	5
gradient	5
heterogeneity	5
metagenomics	5
metapopulation	5
mutation-rate	5
nitrogen	5
parameter-estimation	5
persistence	5
population-growth	5
recombination-detection	5
review	5
significance	5
succession	5
thermodynamics	5
validation	5
x-coalescence-model	5
x-nonequilibrium	5
x-recomb-evidence	5
x-recombination-detection	5
biofilm-ecology	4
bioremediation	4
cladistic-analysis	4
comparative-ecology	4
economics-ecology	4
evolutionary-ecology	4
extremophile	4
ferroplasma-acidarmanus	4
ferroplasma-acidiphilum	4
freshwater-ecology	4
general-equivalence-theorem	4
group-selection	4
habitat	4
hgt-detection-software	4
intercellular-communication	4
invasive-species	4
metabolic-network	4
metaproteomics	4
microbial-genetics	4
model-selection	4
network-structure	4
nitrogen-fixation	4
oxidation	4
phylogeny	4
prochlorococcus	4
quorum-sensing	4
sequence-clusters	4
spatial-scale	4
station-aloha	4
statistical-model	4
sulfate-reduction	4
thermophile	4
t-optimum	4
variability	4
x-biofilm-ecology	4
x-genomics	4
x-multiple-stable-states	4
x-oxidation-models	4
bacillus	3
biofilm-structure	3
cellular-automaton	3
consortia	3
cooperation	3
diffusion	3
diversity-productivity	3
economics	3
extinction	3
hgt-archaea	3
information-techonology	3
interaction-strength	3
metagenomics-binning	3
microbial-interaction	3
microbial-populations	3
mitochondrial-dna	3
multi-variable	3
neural-network	3
neutral-model	3
nutrient-enrichment	3
optimal-design	3
parallel-processing	3
pcr	3
phage	3
primary-production	3
proteins	3
recombination-rrna	3
resource	3
response-surface	3
sampling	3
scaling	3
sexual-reproduction	3
spatial-pattern	3
species-area-relationship	3
stochastic	3
sustainability	3
x-community-gene-expression	3
x-disturbance	3
x-espm	3
x-iron-mountain-mine	3
x-marine-nitrogen	3
x-oscillations	3
abundance	2
biofilm-formation	2
blast	2
canonical-discriminant-analysis	2
cellular-differentiation	2
chemolithoautotroph	2
community-metabolism	2
community-stability	2
communtiy-genomics	2
compute-clusters	2
conservation	2
correlation	2
correlative-coherence	2
differential-equation	2
dispersal	2
diversity-gradient	2
ecosystem-health	2
ecosystem-size	2
electron-transfer	2
envvironmetal-heterogeneity	2
eukaryote	2
exopolysaccharide	2
feedback	2
fisher	2
flux-analysis	2
fosmid-libraries	2
functional-genomics	2
functional-response	2
function-prediction	2
fundamental-concepts-in-genetics	2
fuzzy-logic	2
generalist	2
genomic-islands	2
geochemical-cycles	2
habitat-fragmentation	2
habitat-heterogeneity	2
hgt-mechanism	2
hmm	2
hyperthermophile	2
internet	2
intestinal-fauna	2
iron-reduction	2
marine-ecology	2
maximum-likelihood	2
microbial-biomass	2
mlst	2
nested-clade-analysis	2
neutral-mutation-hypothesis	2
niche-construction	2
nitrogen-uptake	2
noise	2
nonequilibrium-thermodynamics	2
oscillations	2
oxidoreductase	2
perturbation-experiments	2
ph	2
physics	2
population-divergence	2
population-model	2
probiotics	2
public-health	2
python	2
ratio-dependence	2
recombination-mechanism	2
reduction	2
sar11	2
seasonal-variation	2
sequencing-bias	2
shotgun-sequencing	2
single-nucleotide-polymorphisms	2
snp	2
specialist-generalist	2
sulfolobus	2
sulfur-oxidation	2
symbiosis	2
synteny	2
synthetic-biology	2
tandem-mass-spectrometry	2
temporal-scale	2
temporal-variation	2
thermoplasma	2
thermoplasma-acidophilum	2
thiobacillus-caldus	2
threshold	2
toxic-metal	2
transcriptome	2
transposons	2
x-community-genomics	2
x-microbial-diversity	2
z-paper-quals-proposal	2
acidiphilium	1
adaptive-surface	1
aerobic-biofilms	1
algorithm	1
aligment	1
alignment	1
allee-effect	1
allelopathy	1
amplification	1
anaerobic-bacteria	1
ants	1
aquatic-ecosystem	1
atpase	1
autocorrelation	1
automated-image-analysis	1
bacteriophage	1
base-calling	1
biocontrol	1
biofuels	1
bioreactors	1
biosphere	1
biplot	1
c	1
cdna	1
chemotaxis	1
chimerism	1
cladogenesis	1
cloud-computing	1
coaggregation	1
codon-usage	1
collaboration	1
community-matrix	1
community-microbiology	1
complex-system-dynamics	1
contact-process	1
convergent-evolgution	1
cosmology	1
covariance-effect	1
covariation	1
crispr	1
culture	1
cytochrom	1
data-sharing	1
developmental-biology	1
directional-selection	1
discrete-time	1
dissolved-oxygen-concentration	1
distance-measures	1
distributed-computing	1
distributed-control	1
dna	1
ecological-communities	1
ecological-systems	1
effective-population-size	1
einstein	1
empirical-evidence	1
endosymbiosis	1
epigenetics	1
eutrophication	1
evolution-and-sex	1
evolutionary-stable-strategy	1
evolution-of-sex	1
evoultion	1
exploratory-experimentation	1
exponential-fitting	1
ferriphilum	1
file-format	1
forecasting	1
game-theory	1
gene-frequency	1
gene-interaction	1
gene-order	1
general-relativity	1
gene-regulation	1
genetic-correlation	1
genetic-diversity	1
genetic-drift	1
gpu	1
gut-microbes	1
habitat-change	1
habitat-destruction	1
halorubrum	1
hermaphrodite	1
hot-aloha	1
hypercycles	1
hypothesis-testing	1
incomplete-data	1
indicator-species	1
indirect-effects	1
in-situ-detection	1
intermediate-disturbance-hypothesis	1
island-biogeography	1
kegg	1
keystone-species	1
kin-selection	1
k-selection	1
laboratory	1
low-oxygen	1
management	1
mass-spectrometry	1
mass-transfer	1
mechanistic-model	1
metabolic-pathways	1
metal-organic-complexes	1
metal-reduction	1
methylation	1
microbes	1
microbial-ecosytems	1
microbially-influenced-corrosion	1
mismatch-repair	1
mitrogen	1
molecular-mechanismms	1
monte-carlo-estimation	1
mrna	1
mutation	1
natural-communities	1
natural-selection	1
neisseria	1
nifh	1
non-coding-dna	1
nonlinear-spline-model	1
novel-gene	1
null-model	1
nutrient-starvation	1
nutrient-uptake	1
omz	1
origin-of-life	1
origin-of-replication	1
overcrowding-effect	1
partial-differential-equations	1
partially-specified-model	1
pathway-analysis	1
perl	1
phenotypic-plasticity	1
phlogenetics	1
phlogenetic-tree	1
phosphorus	1
phylogenies	1
phylogenitics	1
phylogeography	1
phynotypic-plasticity	1
plankton	1
population-ecology	1
prisoners-dilemma	1
punctuation	1
purification	1
qualitative	1
radio-observations	1
reaction-kinetics	1
recruitment	1
regression	1
resampling	1
rescue-effect	1
resilience	1
rhodopsin	1
sability	1
sampling_bias	1
saturation	1
scientific-method	1
seed	1
self-organization	1
semi-mechanistic-model	1
semiparametric-model	1
sensitivity-analysis	1
sequence-visualization	1
sequencing-error	1
shake-flask	1
short-reads	1
signalling	1
signal-transduction	1
single-cell-sequencing	1
small-rna	1
small-world	1
small-world-network	1
sociobiology	1
space-time-continuum	1
spatial-dynamics	1
special-relativity	1
species-distribution	1
spline	1
stabilizing-selection	1
stabillity	1
stable-isotope-tagging	1
staistical-analysis	1
stoichiometry	1
stress-resistance	1
sulfite-reductase	1
sulfolobales	1
sup05	1
superspreader	1
switching-model	1
synechoccus	1
systematic-formulation	1
technology	1
temperature	1
terminology	1
thermotoga	1
thiooxidans	1
topology	1
tree-balance	1
tree-symmetry	1
trpohic-control-analysis	1
uce	1
variable-population	1
vertebrate	1
web-service	1
wright	1
x-evolutionary-ecoloty	1
x-intra-species-diversity	1
x-microarray	1
x-models-generic	1
x-recomb-mechanism	1
x-spatial-scale	1
yield-effort-curve	1
z-talk-mgsem	1

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