109 lines
4.2 KiB
HTML
109 lines
4.2 KiB
HTML
<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN">
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<html>
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<head>
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<title>BankIt Submission Help: TPA Table</title>
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<h1>Setting TPA Accessions</h1>
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<div class="border1"><p>BankIt accepts accessions for TPA submission in two
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ways, as a <strong>tab-delimited</strong> text file (as described below) or
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by applying the same accession(s) to all sequences in the set with a web form.
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</div>
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<h2>Reporting Primary Accession Numbers for Multiple TPA Sequence Submissions</h2>
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<div class="border1"><p>BankIt accepts primary accession numbers for multiple
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sequences in a two-column, tab-delimited table format. The table contains
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the Sequence_ID and Primary Accession Numbers for every sequence in the
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submission, as described below.</p>
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<p>Accession numbers for GenBank primary nucleotide data can be of the
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following format:
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<ul>
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<li>GenBank: U12345, AY987654, FJ345678, GQ123456</li>
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<li>GenBank EST data: CJ012345, CK334455</li>
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<li>WGS (Whole Genome Shotgun): AABB01000123, ABCD02000789 (must be the
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specific WGS record)</li>
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<li>Trace Archive: TI123456789, TI1133557799</li>
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</ul>
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Accession numbers of Reference Sequence (RefSeq) and CON(assembled) records
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cannot be cited since they do not represent primary sequence data.
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</p>
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</div>
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<h2>Contents of the TPA Accessions Table</h2>
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<div class="border1"><p>The first row in the table contains the headings for
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each column:Sequence_ID and Accession (these headings must be used verbatim)</p>
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<p>The first column contains the Sequence_IDs used to identify each sequence in the <a href="fasta.html">nucleotide FASTA file</a>.</p>
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<p>The second column contains the primary Accession numbers from which the TPA sequence was derived or assembled.</p>
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<p>Each sequence in the submission must have a line in the table. </p>
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<p>Each Sequence_ID may appear only once in the table.</p>
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<p>Multiple primary sequence Accession Numbers reported for a TPA sequence should be separated by comma.</p>
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<table class="example">
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<caption>Sample TPA Accessions Table</caption>
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<tr>
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<td nowrap> Sequence_ID </td>
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<td nowrap> Accession </td>
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</tr>
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<tr>
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<td nowrap> Seq1 </td>
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<td nowrap> DQ434518,DQ432823,DQ434519 </td>
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</tr>
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<tr>
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<td nowrap> Seq2 </td>
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<td nowrap> DQ433267 </td>
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</tr>
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<tr>
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<td nowrap> Seq3 </td>
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<td nowrap> DQ434582 </td>
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</tr>
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<tr>
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<td nowrap> Seq4 </td>
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<td nowrap> DQ433263,DQ433262,DQ433261,DQ434806 </td>
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</tr>
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<tr>
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<td nowrap> Seq5 </td>
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<td nowrap> DQ433569 </td>
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</tr>
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<tr>
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<td nowrap> Seq6 </td>
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<td nowrap> DQ434582 </td>
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</tr>
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<tr>
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<td nowrap> Seq7 </td>
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<td nowrap> DQ433889,DQ433888,DQ433066 </td>
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</tr>
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</table>
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<p><a href="sample_files/tpa-table-sample.txt">Sample TPA Accessions Table</a> (right-click to save) as a <strong>tab-delimited</strong> text file.</p>
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</div>
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<h2>Saving the TPA Accessions Table</h2>
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<div class="border1"><p>When using a spreadsheet program, be sure to save your file as <strong>tab-delimited</strong> text. If you are not sure that the "Save" option in your program will do this for you, use "Save As..."</p>
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<p>In Excel, select "Save As..." from the File menu. In the "Save as type:" pull-down menu, select "Text (Tab delimited) (*.txt)."</p>
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</div>
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