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<ul data-jig="ncbimenu" id="ui-ncbimenu-1" role="menubar">
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J - Translation, ribosomal structure and biogenesis</a>
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A - RNA processing and modification</a>
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K - Transcription</a>
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L - Replication, recombination and repair</a>
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B - Chromatin structure and dynamics</a>
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D - Cell cycle control, cell division, chromosome partitioning</a>
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Y - Nuclear structure</a>
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V - Defense mechanisms</a>
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T - Signal transduction mechanisms</a>
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M - Cell wall/membrane/envelope biogenesis</a>
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N - Cell motility</a>
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Z - Cytoskeleton</a>
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W - Extracellular structures</a>
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U - Intracellular trafficking, secretion, and vesicular transport</a>
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O - Posttranslational modification, protein turnover, chaperones</a>
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X - nan</a>
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C - Energy production and conversion</a>
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G - Carbohydrate transport and metabolism</a>
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E - Amino acid transport and metabolism</a>
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F - Nucleotide transport and metabolism</a>
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H - Coenzyme transport and metabolism</a>
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I - Lipid transport and metabolism</a>
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P - Inorganic ion transport and metabolism</a>
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Q - Secondary metabolites biosynthesis, transport and catabolism</a>
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R - General function prediction only</a>
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S - Function unknown</a>
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id="ui-ncbimenu-1_5">
|
||
COG Project
|
||
</a>
|
||
</li>
|
||
<li role="presentation" class="no-submenu">
|
||
<a href="mailto:cogs@ncbi.nlm.nih.gov" title="Web Services" class="uppercase"
|
||
role="menuitem" tabindex="-1"
|
||
id="ui-ncbimenu-1_6">
|
||
Contact
|
||
</a>
|
||
</li>
|
||
</ul>
|
||
</div>
|
||
</div>
|
||
</div>
|
||
</div>
|
||
|
||
|
||
|
||
<main id="main_content" accesskey="3">
|
||
|
||
<section class="usa-section cog_top_section">
|
||
<div class="usa-grid">
|
||
<h1>Web Services</h1>
|
||
<h2>COG</h2>
|
||
<ol>
|
||
<li>Get all COGs:<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/cog/" target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/
|
||
</a><br>
|
||
<b>JSON Format:</b> <a href="/research/cog/api/cog/?format=json" target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?format=json
|
||
</a>
|
||
</li>
|
||
<li>Filter COGs by gene tag: MK0280<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/cog/?gene=MK0280" target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?gene=MK0280
|
||
</a><br>
|
||
<b>JSON Format:</b> <a href="/research/cog/api/cog/?gene=MK0280&format=json"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?gene=MK0280&format=json
|
||
</a>
|
||
</li>
|
||
<li>Filter COGs by COG ID tag: COG0003<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/cog/?cog=COG0003" target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?cog=COG0003
|
||
</a><br>
|
||
<b>JSON Format:</b> <a href="/research/cog/api/cog/?cog=COG0003&format=json"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?cog=COG0003&format=json
|
||
</a>
|
||
</li>
|
||
<li>Filter COGs by assembly ID: GCA_000007185.1<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/cog/?assembly=GCA_000007185.1"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?assembly=GCA_000007185.1
|
||
</a><br>
|
||
<b>JSON Format:</b> <a href="/research/cog/api/cog/?assembly=GCA_000007185.1&format=json"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?assembly=GCA_000007185.1&format=json
|
||
</a>
|
||
</li>
|
||
<li>Filter COGs by organism name: Nitrosopumilus_maritimus_SCM1<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/cog/?organism=Nitrosopumilus_maritimus_SCM1"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?organism=Nitrosopumilus_maritimus_SCM1
|
||
</a><br>
|
||
<b>JSON Format:</b> <a
|
||
href="/research/cog/api/cog/?organism=Nitrosopumilus_maritimus_SCM1&format=json"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?organism=Nitrosopumilus_maritimus_SCM11&format=json
|
||
</a>
|
||
</li>
|
||
<li>Filter COGs by taxid: 1229908<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/cog/?taxid=1229908"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?taxid=1229908
|
||
</a><br>
|
||
<b>JSON Format:</b> <a
|
||
href="/research/cog/api/cog/?taxid=1229908&format=json"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?taxid=1229908&format=json
|
||
</a>
|
||
</li>
|
||
<li>Filter COGs by Taxonomic Category: ACTINOBACTERIA<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/cog/?category=ACTINOBACTERIA"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?category=ACTINOBACTERIA
|
||
</a><br>
|
||
<b>JSON Format:</b> <a
|
||
href="/research/cog/api/cog/?category=ACTINOBACTERIA&format=json"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?category=ACTINOBACTERIA&format=json
|
||
</a>
|
||
</li>
|
||
<li>Filter COGs by Taxonomic Category taxid: 651137<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/cog/?cat_taxid=651137"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?cat_taxid=651137
|
||
</a><br>
|
||
<b>JSON Format:</b> <a
|
||
href="/research/cog/api/cog/?cat_taxid=651137&format=json"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?cat_taxid=651137&format=json
|
||
</a>
|
||
</li>
|
||
<li>Filter COGs by Protein name: AJP49128.1<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/cog/?protein=AJP49128.1"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?protein=AJP49128.1
|
||
</a><br>
|
||
<b>JSON Format:</b> <a
|
||
href="/research/cog/api/cog/?protein=AJP49128.1&format=json"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?protein=AJP49128.1&format=json
|
||
</a>
|
||
</li>
|
||
</ol>
|
||
|
||
<h3>COG combined queries</h3>
|
||
<p>The search keywords (cog, assembly, organism, taxid, category, cat_taxid and protein) can be combined to
|
||
filter the COG lists.</p>
|
||
<ol>
|
||
<li>Filter COGs by COG id and Taxonomy Categories: COG0004 and CYANOBACTERIA<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/cog/?cog=COG0004&category=CYANOBACTERIA"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?cog=COG0004&category=CYANOBACTERIA
|
||
</a><br>
|
||
<b>JSON Format:</b> <a
|
||
href="/research/cog/api/cog/?cog=COG0004&category=CYANOBACTERIA&format=json"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?cog=COG0004&category=CYANOBACTERIA&format=json
|
||
</a>
|
||
</li>
|
||
<li>Filter COGs by COG id and organism: COG0004 and Escherichia_coli_K-12_sub_MG1655<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/cog/?cog=COG0004&organism=Escherichia_coli_K-12_sub_MG1655"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?cog=COG0004&organism=Escherichia_coli_K-12_sub_MG1655
|
||
</a><br>
|
||
<b>JSON Format:</b> <a
|
||
href="/research/cog/api/cog/?cog=COG0004&organism=Escherichia_coli_K-12_sub_MG1655&format=json"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cog/?cog=COG0004&organism=Escherichia_coli_K-12_sub_MG1655&format=json
|
||
</a>
|
||
</li>
|
||
</ol>
|
||
|
||
|
||
<h2>COG Definitions</h2>
|
||
<ol>
|
||
<li>Get all COG Definitions:<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/cogdef/" target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cogdef/
|
||
</a><br>
|
||
<b>JSON Format:</b> <a href="/research/cog/api/cogdef/?format=json" target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cogdef/?format=json
|
||
</a>
|
||
</li>
|
||
<li>Get specific COG Definitions by COG: COG0003<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/cogdef/?cog=COG0003" target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cogdef/?cog=COG0003
|
||
</a><br>
|
||
<b>JSON Format:</b> <a href="/research/cog/api/cogdef/?cog=COG0003&format=json"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cogdef/?cog=COG0003&format=json
|
||
</a>
|
||
</li>
|
||
<li>Get specific COG Definitions by name: Thiamin-binding stress-response protein YqgV, UPF0045
|
||
family<br>
|
||
<b>Web API:</b> <a
|
||
href="/research/cog/api/cogdef/?name=Thiamin-binding%20stress-response%20protein%20YqgV,%20UPF0045%20family"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cogdef/?name=Thiamin-binding%20stress-response%20protein%20YqgV,%20UPF0045%20family
|
||
</a><br>
|
||
<b>JSON Format:</b> <a
|
||
href="/research/cog/api/cogdef/?name=Thiamin-binding%20stress-response%20protein%20YqgV,%20UPF0045%20family&format=json"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/cogdef/?name=Thiamin-binding%20stress-response%20protein%20YqgV,%20UPF0045%20family&format=json
|
||
</a>
|
||
</li>
|
||
</ol>
|
||
|
||
<h2>Taxonomic Categories</h2>
|
||
<ol>
|
||
<li>Get all Taxonomic Categories:<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/taxonomy/" target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/taxonomy/
|
||
</a><br>
|
||
<b>JSON Format:</b> <a href="/research/cog/api/taxonomy/?format=json" target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/taxonomy/?format=json
|
||
</a>
|
||
</li>
|
||
<li>Get specific Taxonomic Category by name: ALPHAPROTEOBACTERIA<br>
|
||
<b>Web API:</b> <a href="/research/cog/api/taxonomy/?name=ALPHAPROTEOBACTERIA"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/taxonomy/?name=ALPHAPROTEOBACTERIA
|
||
</a><br>
|
||
<b>JSON Format:</b> <a
|
||
href="/research/cog/api/taxonomy/?name=ALPHAPROTEOBACTERIA&format=json"
|
||
target="_blank">
|
||
https://www.ncbi.nlm.nih.gov/research/cog/api/taxonomy/?name=ALPHAPROTEOBACTERIA&format=json
|
||
</a>
|
||
</li>
|
||
</ol>
|
||
|
||
</div>
|
||
</section>
|
||
|
||
</main>
|
||
|
||
|
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