FOAM (Functional Ontology Assignments for Metagenomes): a Hidden Markov Model (HMM) database with environmental focus (Q34509978)

2 August 2017

FOAM (Functional Ontology Assignments for Metagenomes): a Hidden Markov Model (HMM) database with environmental focus (English)

1 reference

2 August 2017

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0 references

1 reference

8

David D Myrold

1 reference

2 August 2017

Jenni Hultman

3

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Susannah G. Tringe

object named as

Susannah G Tringe

10

0 references

Janet K Jansson

object named as

Janet K Jansson

13

0 references

Konstantinos Mavromatis

12

object named as

Konstantinos Mavromatis

1 reference

2 August 2017

7

Rachel Mackelprang

1 reference

2 August 2017

5

Regina Lamendella

1 reference

2 August 2017

Emmanuel Prestat

1

1 reference

2 August 2017

Maude M David

2

1 reference

2 August 2017

Neslihan Taş

4

1 reference

2 August 2017

Jill Dvornik

6

1 reference

2 August 2017

Ari Jumpponen

9

1 reference

2 August 2017

Elizabeth Holman

11

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2 August 2017

language of work or name

English

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publication date

26 September 2014

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2 August 2017

Nucleic Acids Research

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2 August 2017

42

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2 August 2017

19

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2 August 2017

e145

1 reference

Creative Commons Attribution-NonCommercial 4.0 International

2 August 2017

start time

3 May 2017

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

describes a project that uses

Cytoscape

1 reference

9 June 2022

https://europepmc.org/search?query=(METHODS:'Cytoscape')

based on heuristic

inferred from PubMed Central ID database lookup

cites work

Soil microbial community responses to a decade of warming as revealed by comparative metagenomics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

FunGene: the functional gene pipeline and repository

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

Metagenomes of tropical soil-derived anaerobic switchgrass-adapted consortia with and without iron

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

Pathview: an R/Bioconductor package for pathway-based data integration and visualization

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

The PhyloFacts FAT-CAT web server: ortholog identification and function prediction using fast approximate tree classification

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

Scaling metagenome sequence assembly with probabilistic de Bruijn graphs

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

Voronto: mapper for expression data to ontologies.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

Metagenome, metatranscriptome and single-cell sequencing reveal microbial response to Deepwater Horizon oil spill

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

Metagenomics - a guide from sampling to data analysis

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

Metagenomic analysis of a permafrost microbial community reveals a rapid response to thaw

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

Accelerated Profile HMM Searches

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

GLAMM: Genome-Linked Application for Metabolic Maps

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

iPath2.0: interactive pathway explorer

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

A catalog of reference genomes from the human microbiome

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

FastTree 2--approximately maximum-likelihood trees for large alignments

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

A human gut microbial gene catalogue established by metagenomic sequencing

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

BLAST+: architecture and applications

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

The Pfam protein families database

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

The metagenomics of disease-suppressive soils - experiences from the METACONTROL project

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

KEGG for linking genomes to life and the environment

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

The universal protein resource (UniProt)

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

PhyloFacts: an online structural phylogenomic encyclopedia for protein functional and structural classification

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

The TIGRFAMs database of protein families

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

Gene ontology: tool for the unification of biology

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

Basic local alignment search tool

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4231724

Omics for understanding microbial functional dynamics.

7 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FNAR%2FGKU702

21 January 2018

Identifiers

DOI

10.1093/NAR/GKU702

1 reference

2 August 2017

1 reference

2 August 2017

1 reference