| Rank |
Title |
Journal |
Year |
PubWeight™‹?› |
|
1
|
The RAST Server: rapid annotations using subsystems technology.
|
BMC Genomics
|
2008
|
175.18
|
|
2
|
The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes.
|
Nucleic Acids Res
|
2005
|
29.61
|
|
3
|
The National Microbial Pathogen Database Resource (NMPDR): a genomics platform based on subsystem annotation.
|
Nucleic Acids Res
|
2006
|
11.15
|
|
4
|
Annotation of bacterial and archaeal genomes: improving accuracy and consistency.
|
Chem Rev
|
2007
|
8.23
|
|
5
|
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications.
|
Nat Biotechnol
|
2011
|
7.53
|
|
6
|
The Earth Microbiome Project: Meeting report of the "1 EMP meeting on sample selection and acquisition" at Argonne National Laboratory October 6 2010.
|
Stand Genomic Sci
|
2010
|
6.30
|
|
7
|
Meeting report: the terabase metagenomics workshop and the vision of an Earth microbiome project.
|
Stand Genomic Sci
|
2010
|
4.70
|
|
8
|
The complete Corynebacterium glutamicum ATCC 13032 genome sequence and its impact on the production of L-aspartate-derived amino acids and vitamins.
|
J Biotechnol
|
2003
|
4.40
|
|
9
|
The Genomic Standards Consortium.
|
PLoS Biol
|
2011
|
3.99
|
|
10
|
A predator unmasked: life cycle of Bdellovibrio bacteriovorus from a genomic perspective.
|
Science
|
2004
|
3.87
|
|
11
|
Whole genome analysis of the marine Bacteroidetes'Gramella forsetii' reveals adaptations to degradation of polymeric organic matter.
|
Environ Microbiol
|
2006
|
3.79
|
|
12
|
The Biological Observation Matrix (BIOM) format or: how I learned to stop worrying and love the ome-ome.
|
Gigascience
|
2012
|
3.24
|
|
13
|
Insights into genome plasticity and pathogenicity of the plant pathogenic bacterium Xanthomonas campestris pv. vesicatoria revealed by the complete genome sequence.
|
J Bacteriol
|
2005
|
3.12
|
|
14
|
Using the metagenomics RAST server (MG-RAST) for analyzing shotgun metagenomes.
|
Cold Spring Harb Protoc
|
2010
|
2.74
|
|
15
|
Genome sequence of the ubiquitous hydrocarbon-degrading marine bacterium Alcanivorax borkumensis.
|
Nat Biotechnol
|
2006
|
2.69
|
|
16
|
The GAAS metagenomic tool and its estimations of viral and microbial average genome size in four major biomes.
|
PLoS Comput Biol
|
2009
|
2.61
|
|
17
|
Finding novel genes in bacterial communities isolated from the environment.
|
Bioinformatics
|
2006
|
2.55
|
|
18
|
The genome of deep-sea vent chemolithoautotroph Thiomicrospira crunogena XCL-2.
|
PLoS Biol
|
2006
|
2.43
|
|
19
|
Complete genome sequence of the myxobacterium Sorangium cellulosum.
|
Nat Biotechnol
|
2007
|
2.43
|
|
20
|
PathFinder: reconstruction and dynamic visualization of metabolic pathways.
|
Bioinformatics
|
2002
|
2.43
|
|
21
|
Metagenomics - a guide from sampling to data analysis.
|
Microb Inform Exp
|
2012
|
2.42
|
|
22
|
Complete genome sequence and analysis of Wolinella succinogenes.
|
Proc Natl Acad Sci U S A
|
2003
|
2.10
|
|
23
|
Unlocking the potential of metagenomics through replicated experimental design.
|
Nat Biotechnol
|
2012
|
2.08
|
|
24
|
Development of joint application strategies for two microbial gene finders.
|
Bioinformatics
|
2004
|
2.00
|
|
25
|
The United States of America and scientific research.
|
PLoS One
|
2010
|
1.98
|
|
26
|
Genome of the epsilonproteobacterial chemolithoautotroph Sulfurimonas denitrificans.
|
Appl Environ Microbiol
|
2007
|
1.82
|
|
27
|
Complete genome sequence and analysis of the multiresistant nosocomial pathogen Corynebacterium jeikeium K411, a lipid-requiring bacterium of the human skin flora.
|
J Bacteriol
|
2005
|
1.77
|
|
28
|
BACCardI--a tool for the validation of genomic assemblies, assisting genome finishing and intergenome comparison.
|
Bioinformatics
|
2004
|
1.73
|
|
29
|
Structure, fluctuation and magnitude of a natural grassland soil metagenome.
|
ISME J
|
2012
|
1.66
|
|
30
|
EMMA: a platform for consistent storage and efficient analysis of microarray data.
|
J Biotechnol
|
2003
|
1.62
|
|
31
|
The M5nr: a novel non-redundant database containing protein sequences and annotations from multiple sources and associated tools.
|
BMC Bioinformatics
|
2012
|
1.61
|
|
32
|
Functional analysis of metagenomes and metatranscriptomes using SEED and KEGG.
|
BMC Bioinformatics
|
2011
|
1.48
|
|
33
|
Whole-genome sequence of Listeria welshimeri reveals common steps in genome reduction with Listeria innocua as compared to Listeria monocytogenes.
|
J Bacteriol
|
2006
|
1.48
|
|
34
|
Meeting Report: BioSharing at ISMB 2010.
|
Stand Genomic Sci
|
2010
|
1.47
|
|
35
|
Bacterial community structure and functional contributions to emergence of health or necrotizing enterocolitis in preterm infants.
|
Microbiome
|
2013
|
1.43
|
|
36
|
Transcriptional changes in response to arbuscular mycorrhiza development in the model plant Medicago truncatula.
|
Mol Plant Microbe Interact
|
2003
|
1.36
|
|
37
|
The missing link: Bordetella petrii is endowed with both the metabolic versatility of environmental bacteria and virulence traits of pathogenic Bordetellae.
|
BMC Genomics
|
2008
|
1.34
|
|
38
|
Hybrid pathogenicity island PAGI-5 contributes to the highly virulent phenotype of a Pseudomonas aeruginosa isolate in mammals.
|
J Bacteriol
|
2008
|
1.33
|
|
39
|
Construction of a large signature-tagged mini-Tn5 transposon library and its application to mutagenesis of Sinorhizobium meliloti.
|
Appl Environ Microbiol
|
2006
|
1.31
|
|
40
|
Construction and validation of a Sinorhizobium meliloti whole genome DNA microarray: genome-wide profiling of osmoadaptive gene expression.
|
J Biotechnol
|
2003
|
1.30
|
|
41
|
REGANOR: a gene prediction server for prokaryotic genomes and a database of high quality gene predictions for prokaryotes.
|
Appl Bioinformatics
|
2006
|
1.27
|
|
42
|
The Sequence Analysis and Management System -- SAMS-2.0: data management and sequence analysis adapted to changing requirements from traditional sanger sequencing to ultrafast sequencing technologies.
|
J Biotechnol
|
2009
|
1.26
|
|
43
|
The genome sequence of the tomato-pathogenic actinomycete Clavibacter michiganensis subsp. michiganensis NCPPB382 reveals a large island involved in pathogenicity.
|
J Bacteriol
|
2008
|
1.22
|
|
44
|
The future of microbial metagenomics (or is ignorance bliss?).
|
ISME J
|
2010
|
1.20
|
|
45
|
A platform-independent method for detecting errors in metagenomic sequencing data: DRISEE.
|
PLoS Comput Biol
|
2012
|
1.18
|
|
46
|
The founding charter of the Genomic Observatories Network.
|
Gigascience
|
2014
|
1.16
|
|
47
|
Draft genome sequence of Alcaligenes faecalis subsp. faecalis NCIB 8687 (CCUG 2071).
|
J Bacteriol
|
2012
|
1.16
|
|
48
|
GISMO--gene identification using a support vector machine for ORF classification.
|
Nucleic Acids Res
|
2006
|
1.14
|
|
49
|
Predicted Relative Metabolomic Turnover (PRMT): determining metabolic turnover from a coastal marine metagenomic dataset.
|
Microb Inform Exp
|
2011
|
1.14
|
|
50
|
From genomics to metagenomics.
|
Curr Opin Biotechnol
|
2012
|
1.13
|
|
51
|
Meeting Report from the Genomic Standards Consortium (GSC) Workshop 10.
|
Stand Genomic Sci
|
2010
|
1.13
|
|
52
|
Meeting Report from the Genomic Standards Consortium (GSC) Workshop 9.
|
Stand Genomic Sci
|
2010
|
1.10
|
|
53
|
Construction and validation of cDNA-based Mt6k-RIT macro- and microarrays to explore root endosymbioses in the model legume Medicago truncatula.
|
J Biotechnol
|
2004
|
1.06
|
|
54
|
Connecting genotype to phenotype in the era of high-throughput sequencing.
|
Biochim Biophys Acta
|
2011
|
1.05
|
|
55
|
Laser capture microdissection and metagenomic analysis of intact mucosa-associated microbial communities of human colon.
|
Appl Microbiol Biotechnol
|
2010
|
1.05
|
|
56
|
Intestinal tissues induce an SNP mutation in Pseudomonas aeruginosa that enhances its virulence: possible role in anastomotic leak.
|
PLoS One
|
2012
|
1.04
|
|
57
|
Development of bioinformatic tools to support EST-sequencing, in silico- and microarray-based transcriptome profiling in mycorrhizal symbioses.
|
Phytochemistry
|
2006
|
1.04
|
|
58
|
Metagenomes and metatranscriptomes from the L4 long-term coastal monitoring station in the Western English Channel.
|
Stand Genomic Sci
|
2010
|
1.01
|
|
59
|
Multiphasic analysis of the temporal development of the distal gut microbiota in patients following ileal pouch anal anastomosis.
|
Microbiome
|
2013
|
0.96
|
|
60
|
Combined transcriptome profiling reveals a novel family of arbuscular mycorrhizal-specific Medicago truncatula lectin genes.
|
Mol Plant Microbe Interact
|
2005
|
0.94
|
|
61
|
A metagenomics portal for a democratized sequencing world.
|
Methods Enzymol
|
2013
|
0.93
|
|
62
|
Metagenomic profiling of a microbial assemblage associated with the California mussel: a node in networks of carbon and nitrogen cycling.
|
PLoS One
|
2010
|
0.93
|
|
63
|
Bioinformatics support for high-throughput proteomics.
|
J Biotechnol
|
2003
|
0.92
|
|
64
|
Maternal activation of gap genes in the hover fly Episyrphus.
|
Development
|
2010
|
0.92
|
|
65
|
Comparative genomics of the pIPO2/pSB102 family of environmental plasmids: sequence, evolution, and ecology of pTer331 isolated from Collimonas fungivorans Ter331.
|
FEMS Microbiol Ecol
|
2008
|
0.91
|
|
66
|
Draft genome sequence of Achromobacter piechaudii strain HLE.
|
J Bacteriol
|
2012
|
0.90
|
|
67
|
Meeting report: GSC M5 roundtable at the 13th International Society for Microbial Ecology meeting in Seattle, WA, USA August 22-27, 2010.
|
Stand Genomic Sci
|
2010
|
0.90
|
|
68
|
The complete genome sequence for putative H₂- and S-oxidizer Candidatus Sulfuricurvum sp., assembled de novo from an aquifer-derived metagenome.
|
Environ Microbiol
|
2014
|
0.88
|
|
69
|
Building a BRIDGE for the integration of heterogeneous data from functional genomics into a platform for systems biology.
|
J Biotechnol
|
2003
|
0.87
|
|
70
|
Rapid quantification of sequence repeats to resolve the size, structure and contents of bacterial genomes.
|
BMC Genomics
|
2013
|
0.86
|
|
71
|
Meeting Report: Metagenomics, Metadata and MetaAnalysis (M3) at ISMB 2010.
|
Stand Genomic Sci
|
2010
|
0.85
|
|
72
|
Short-read reading-frame predictors are not created equal: sequence error causes loss of signal.
|
BMC Bioinformatics
|
2012
|
0.84
|
|
73
|
BMP signaling components in embryonic transcriptomes of the hover fly Episyrphus balteatus (Syrphidae).
|
BMC Genomics
|
2011
|
0.84
|
|
74
|
Report of the 13(th) Genomic Standards Consortium Meeting, Shenzhen, China, March 4-7, 2012.
|
Stand Genomic Sci
|
2012
|
0.84
|
|
75
|
Whole genome shotgun sequencing guided by bioinformatics pipelines--an optimized approach for an established technique.
|
J Biotechnol
|
2003
|
0.81
|
|
76
|
Comparing expression level-dependent features in codon usage with protein abundance: an analysis of 'predictive proteomics'.
|
Proteomics
|
2004
|
0.80
|
|
77
|
Conceptualizing a Genomics Software Institute (GSI).
|
Stand Genomic Sci
|
2012
|
0.77
|
|
78
|
Meeting Report: "Metagenomics, Metadata and Meta-analysis" (M3) Workshop at the Pacific Symposium on Biocomputing 2010.
|
Stand Genomic Sci
|
2010
|
0.76
|
|
79
|
Draft genome sequence of Agrobacterium albertimagni strain AOL15.
|
J Bacteriol
|
2012
|
0.76
|
|
80
|
Meeting report of the RNA Ontology Consortium January 8-9, 2011.
|
Stand Genomic Sci
|
2011
|
0.75
|
|
81
|
Meeting report: the 2 annual argonne soils workshop, argonne national laboratory, chicago illinois, USA, october 6-8, 2010.
|
Stand Genomic Sci
|
2011
|
0.75
|
|
82
|
Metagenomics: A foundling finds its feet.
|
Stand Genomic Sci
|
2010
|
0.75
|
|
83
|
MG-RAST version 4-lessons learned from a decade of low-budget ultra-high-throughput metagenome analysis.
|
Brief Bioinform
|
2017
|
0.75
|
|
84
|
Federation in genomics pipelines: techniques and challenges.
|
Brief Bioinform
|
2017
|
0.75
|