GeneFarm, structural and functional annotation of Arabidopsis gene and protein families by a network of experts (Q24797180)

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6 January 2020

title

GeneFarm, structural and functional annotation of Arabidopsis gene and protein families by a network of experts (English)

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6 January 2020

7

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J. Mark Cock

4

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6 January 2020

Richard Cooke

5

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6 January 2020

Cyril Pommier

29

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Stephane Rombauts

33

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Michel Schneider

35

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Ian Small

37

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Michael Tognolli

41

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19

Elisabeth Jamet

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6 January 2020

Sébastien Aubourg

1

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Véronique Brunaud

2

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Clémence Bruyère

3

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Annick Cottet

6

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6 January 2020

Patrice Déhais

8

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Gilbert Deléage

9

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Aymeric Duclert

10

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Manuel Echeverria

11

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Aimée Eschbach

12

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Denis Falconet

13

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Ghislain Filippi

14

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Christine Gaspin

15

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Christophe Geourjon

16

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Jean-Michel Grienenberger

17

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Guy Houlné

18

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Frédéric Lechauve

20

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Olivier Leleu

21

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Philippe Leroy

22

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Régis Mache

23

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Christian Meyer

24

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Hafed Nedjari

25

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Ioan Negrutiu

26

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Valérie Orsini

27

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Eric Peyretaillade

28

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Jeroen Raes

30

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Jean-Loup Risler

31

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Stéphane Rivière

32

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Pierre Rouzé

34

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Philippe Schwob

36

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6 January 2020

Ghislain Soumayet-Kampetenga

38

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Darko Stankovski

39

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Claire Toffano

40

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6 January 2020

Michel Caboche

42

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6 January 2020

Alain Lecharny

43

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6 January 2020

language of work or name

English

0 references

publication date

1 January 2005

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6 January 2020

published in

Nucleic Acids Research

1 reference

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6 January 2020

volume

33

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6 January 2020

page(s)

D641-6

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6 January 2020

issue

Database issue

1 reference

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Genome-wide analysis of Arabidopsis pentatricopeptide repeat proteins reveals their essential role in organelle biogenesis

6 January 2020

cites work

1 reference

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The Pfam protein families database

7 April 2017

1 reference

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UniProt: the Universal Protein knowledgebase

7 April 2017

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GeneMark.hmm: new solutions for gene finding

7 April 2017

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Analysis of the genome sequence of the flowering plant Arabidopsis thaliana

7 April 2017

1 reference

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The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003

7 April 2017

1 reference

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Prediction of protein secondary structure at better than 70% accuracy

7 April 2017

1 reference

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The Gene Ontology Annotation (GOA) Database: sharing knowledge in Uniprot with Gene Ontology

7 April 2017

1 reference

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Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies

7 April 2017

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Whole genome sequence comparisons and "full-length" cDNA sequences: a combined approach to evaluate and improve Arabidopsis genome annotation

7 April 2017

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Carpe diem. Retooling the publish or perish model into the share and survive model

28 September 2017

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PlantGDB, plant genome database and analysis tools

28 September 2017

1 reference

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PHYTOPROT: a database of clusters of plant proteins

28 September 2017

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FLAGdb++: a database for the functional analysis of the Arabidopsis genome

28 September 2017

1 reference

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European consortia building integrated resources for Arabidopsis functional genomics.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=540069

EUGENE'HOM: A generic similarity-based gene finder using multiple homologous sequences

28 September 2017

1 reference

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Computational discovery of internal micro-exons

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=540069

The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community

28 September 2017

1 reference

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Current methods of gene prediction, their strengths and weaknesses

28 September 2017

1 reference

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Identification of related proteins with weak sequence identity using secondary structure information

28 September 2017

1 reference

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In Arabidopsis thaliana, 1% of the genome codes for a novel protein family unique to plants

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=540069

Evaluation of gene prediction software using a genomic data set: application to Arabidopsis thaliana sequences

28 September 2017

1 reference

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Identification and application of the concepts important for accurate and reliable protein secondary structure prediction

28 September 2017

1 reference

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Evidence for an ancient chromosomal duplication in Arabidopsis thaliana by sequencing and analyzing a 400-kb contig at the APETALA2 locus on chromosome 4.

28 September 2017

1 reference

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Predicting functions from protein sequences--where are the bottlenecks?

30 May 2018

1 reference

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Predotar: A tool for rapidly screening proteomes for N-terminal targeting sequences.

30 May 2018

1 reference

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Automatic annotation of protein function based on family identification

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=540069

Refined annotation of the Arabidopsis genome by complete expressed sequence tag mapping.

28 November 2018

1 reference

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Annotation of the Arabidopsis genome

28 November 2018

1 reference

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Open annotation offers a democratic solution to genome sequencing

28 November 2018

1 reference

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SOPMA: significant improvements in protein secondary structure prediction by consensus prediction from multiple alignments.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=540069

The challenges of genome sequence annotation or "the devil is in the details"

28 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/15608279

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Modeling the percolation of annotation errors in a database of protein sequences

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/15608279

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/GKI115

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15608279%20AND%20SRC:MED&resulttype=core&format=json

6 January 2020

DBLP publication ID

journals/nar/AubourgBB05

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15608279%20AND%20SRC:MED&resulttype=core&format=json

6 January 2020

1 reference