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Hak-Min Kim NNO

3,499 bytes added, 16:06, 20 August 2019
Created page with "<p> </p> <p> </p> <p><span style="font-size:20px"><strong>Nomura’s jellyfish genome</strong></span></p> <hr /> <p> </p> <p><strong><span style="font-size..."
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<p><span style="font-size:20px"><strong>Nomura&rsquo;s jellyfish genome</strong></span></p>

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<p><strong><span style="font-size:16px">1. Raw data and project folder information</span></strong></p>

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<li><span style="font-size:16px">Project folder: Tiger서버 /BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/</span></li>
<li><span style="font-size:16px">Raw data information:</span>
<ol style="list-style-type:lower-roman">
<li><span style="font-size:16px">Pacbio reads: /BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/0.Rawdata/Falcon_input</span></li>
<li><span style="font-size:16px">Short &amp; Mate pair reads:</span>
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<li><span style="font-size:16px">/BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/0.Rawdata/ShortReads</span></li>
<li><span style="font-size:16px">/BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/0.Rawdata/MatePair</span></li>
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<li><span style="font-size:16px">Moleculo: /BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/0.Rawdata/TSLR</span></li>
<li><span style="font-size:16px">RNA 2 tissue: /BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/0.Rawdata/RNA</span></li>
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<p><span style="font-size:16px"><strong>2. Paper status</strong>: Published (The genome of the giant Nomura&#39;s jellyfish sheds light on the early evolution of active predation. <em>BMC biology</em>, 2019)</span></p>

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<p><strong><span style="font-size:16px">3. Analysis result</span></strong></p>

<ol style="list-style-type:upper-alpha">
<li><span style="font-size:16px">Assembly result: /BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/Final_assembly</span></li>
<li><span style="font-size:16px">Annotation result</span>
<ol style="list-style-type:lower-roman">
<li><span style="font-size:16px">Gene set: /BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/Final_GeneSet</span></li>
<li><span style="font-size:16px">Repeat result: /BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/10.RepeatAnnotation_9K/Repeat_9K/Report/all.gff</span></li>
<li><span style="font-size:16px">Domain annotation: /BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/Domain_ExpansionContraction/Domain/NemNom.pep.interproscan.tsv</span></li>
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<li><span style="font-size:16px">Orthologous gene cluster &amp; gene family expansion and contraction: /BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/GeneFamily_ExpansionContraction_final_20170124</span></li>
<li><span style="font-size:16px">Hox genes: /BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/Specific_topic_gene_examine/HoxGene_new/Final</span></li>
<li><span style="font-size:16px">Wnt genes: /BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/Specific_topic_gene_examine/Wnt_family</span></li>
<li><span style="font-size:16px">Retinoid acid receptor: /BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/Specific_topic_gene_examine/Retinoid_X_receptor</span></li>
<li><span style="font-size:16px">Venom candidate: /BiO/Research/Project1/TGI-Jellyfish-Genome-2015-04/Venom_with_hmmer_AurAur</span></li>
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<p><strong><span style="font-size:16px">4. Methods</span></strong></p>

<ol style="list-style-type:upper-alpha">
<li><span style="font-size:16px">All methods are described in the method &amp; material section of the published article.</span></li>
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