greenphyl.org

GreenPhyl v4

Is a web resource designed for comparative and functional genomics in plants. The database contains a catalogue of gene families based on gene predictions of genomes, covering a broad taxonomy of green plants. Result of our automatic clustering is manually annotated and analyzed by a phylogenetic-based approach to predict homologous relationships. It supports evolution and functional studies to identify candidate gene affecting agronomic traits in crops. Version 4 update 1. Release Notes of version 4.

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GreenPhyl v4 | greenphyl.org Reviews

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Is a web resource designed for comparative and functional genomics in plants. The database contains a catalogue of gene families based on gene predictions of genomes, covering a broad taxonomy of green plants. Result of our automatic clustering is manually annotated and analyzed by a phylogenetic-based approach to predict homologous relationships. It supports evolution and functional studies to identify candidate gene affecting agronomic traits in crops. Version 4 update 1. Release Notes of version 4.

<META> KEYWORDS

1 quick search

2 advanced family search

3 search using go

4 gene family lists

5 annotated families

6 phylum/species specific

7 transcription factors

8 go browser

9 orphans

10 greenphyl v1 families

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quick search,advanced family search,search using go,gene family lists,annotated families,phylum/species specific,transcription factors,go browser,orphans,greenphyl v1 families,greenphyl v2 families,greenphyl v3 families,custom families,toolbox,treepattern

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GreenPhyl v4 | greenphyl.org Reviews

https://greenphyl.org

Is a web resource designed for comparative and functional genomics in plants. The database contains a catalogue of gene families based on gene predictions of genomes, covering a broad taxonomy of green plants. Result of our automatic clustering is manually annotated and analyzed by a phylogenetic-based approach to predict homologous relationships. It supports evolution and functional studies to identify candidate gene affecting agronomic traits in crops. Version 4 update 1. Release Notes of version 4.

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greenphyl.org

1

GreenPhyl v4 - GO Browser

http://www.greenphyl.org/cgi-bin/go_browser.cgi

Gene Family Ontology Browser. Organic substance metabolic process. Nitrogen compound metabolic process. Regulation of metabolic process. Positive regulation of metabolic process. Negative regulation of metabolic process. Regulation of cellular process. Positive regulation of cellular process. Negative regulation of cellular process. Response to chemical stimulus. Cellular response to stimulus. Response to abiotic stimulus. Response to endogenous stimulus. Response to external stimulus. Modification of mo...

2

GreenPhyl v4 - Statistics

http://www.greenphyl.org/cgi-bin/statistics.cgi

Clusters ( = 5 sequences and level 1). Clusters with available phylogeny. Total of classified sequences (w/o splice-forms). Percent of total number of sequences. Sequences mapped to SwissProt. Sequences with InterPro domain. 629872 wallclock secs (25.15 usr 0.41 sys = 25.56 CPU) @ 0.04/s (n=1).

3

GreenPhyl v4 - InterPro Domain Distribution

http://www.greenphyl.org/cgi-bin/ipr2genomes.cgi

Display InterPro domain distribution by sequence and by species. IPR domains can be selected using special operators to identify different combinations:. Search the number of sequences (by species) having the IPR domain X, Y. Search the number of sequences (by species) having the IPR domain X OR the IPR domain I (without redundancy). Search the number of sequences having the domain X AND the domain I. Search the number of sequences having the domain X but NOT having the IPR domain I. W-X Y-Z=( W-X) Y)-Z.

4

GreenPhyl v4 - GreenPhyl Family Lists

http://www.greenphyl.org/cgi-bin/family_lists.cgi

5

GreenPhyl v4 - TreePattern

http://www.greenphyl.org/cgi-bin/treepattern.cgi

Pattern string (copy to save, replace to load). Click here for an example). Enter a taxa scientific name:.

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bioversityinternational.org

Conservation and availability of banana

http://www.bioversityinternational.org/research-portfolio/conservation-use-of-bananas-tree-crops/banana

Bioversity International: research for development in agricultural and tree biodiversity. 1st International Agrobiodiversity Congress 2016. Run for Biodiversity (IT). Central and South America. West and Central Africa. East and Southern Africa. Central and South Asia. Bioversity International USA, Inc. Is the official blog of M. Ann Tutwiler, Director General, Bioversity International. Why agricultural biodiversity matters. Farms, forests, landscapes. Adaptation to climate change. How we are funded.

podb3.nibb.ac.jp

The Plant Organelles Database 3

http://podb3.nibb.ac.jp/Organellome/external_links.php

The Plant Organelles Database 3. AtPID (Arabidopsis thaliana Protein Interactome Database). Http:/ www.megabionet.org/atpid/webfile/. Http:/ cocoagendb.cirad.fr/. Http:/ www.genoscope.cns.fr/spip/Vitis-vinifera-e.html. Gramene (A Resource for Comparative Grass Genomics). Http:/ www.gramene.org/. GreenPhylDB (A phylogenomic database for plant comparative genomics). Http:/ www.greenphyl.org/cgi-bin/index.cgi. KATANA (Kaszusa Arabidopsis thaliana Annotation Abstract). Kazusa Full-length Tomato cDNA Database.

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greenphyl.org

GreenPhyl v4

Is a web resource designed for comparative and functional genomics in plants. The database contains a catalogue of gene families based on gene predictions of genomes, covering a broad taxonomy of green plants. Result of our automatic clustering is manually annotated and analyzed by a phylogenetic-based approach to predict homologous relationships. It supports evolution and functional studies to identify candidate gene affecting agronomic traits in crops. Version 4 update 1. Release Notes of version 4.

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