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<td colspan="5"><span class="issueDateMenu" >2011 JANUARY–FEBRUARY</span> <span class="issueNum">No. 378</span>
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<div class="actions">February 22, 2011 <span class="status">[posted]</span>
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<h1>NCBI To Discontinue Sequence Read Archive and Peptidome</h1>
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<p class="editorsnote"><em>[Editor's Note: This is a reprint of an announcement published on the NLM Web site on February 16, 2011. To be notified of announcements like this subscribe to <a href="//www.ncbi.nlm.nih.gov/feed/rss.cgi?ChanKey=ncbiannounce">NCBI Announcements</a>.] </em>
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</p>
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<h2>About SRA</h2>
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<p>
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Due to budget constraints, NCBI will be discontinuing its Sequence
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Read Archive (SRA) and Trace Archive repositories for high-throughput
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sequence data. Closure of the databases will occur in phases. SRA and
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Trace will stop accepting some types of submissions in the coming
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weeks, and all submissions within the next 12 months. Over the next
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several months, NCBI will be working with staff from NIH Institutes
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that fund large-scale sequencing efforts to develop an approach for
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future access to and storage of the existing data. NCBI will continue
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to support and develop information resources for biological data
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derived from next-generation sequencing such as genotypes, common
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variations, rare variations, sequence assemblies and gene expression
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data. We therefore encourage the research community to continue
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submissions of these data to the applicable databases, including:
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</p>
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<ul>
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<li>RNA-Seq and epigenomic data to GEO</li>
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<li>Variants, genotypes, phased haplotypes, and polymorphisms to
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dbVar, dbGaP and dbSNP</li>
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<li>Genomic assemblies to GenBank/WGS</li>
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<li>Transcript assemblies to GenBank/TSA</li>
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<li>16S ribosomal RNA and other targeted locus survey assemblies to GenBank<br /> <br /></li>
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</ul>
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<p>
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NCBI expects new applications will continue to emerge for next
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generation technology. We are excited to work with the community to
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develop strategies for archiving other summary experimental measures
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that are informative, efficient, and valuable to the biomedical
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research community.
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</p>
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<p>
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For further information about submissions, contact the <a href="//www.ncbi.nlm.nih.gov/sites/ehelp?&Ncbi_App=about&Page=news/16feb2011&">NCBI Help Desk</a>.
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</p>
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<h2>About Peptidome</h2>
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<p>Due to budgetary constraints NCBI will be discontinuing the
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Peptidome Repository. Over the next few weeks, we will phase out the
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online browser, query, and display interfaces.
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</p>
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<p>All existing data and metadata files will continue to be made
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available from our ftp server
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(<a
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href="ftp://ftp.ncbi.nih.gov/pub/peptidome/">ftp://ftp.ncbi.nih.gov/pub/peptidome/</a>)
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indefinitely. Those files are named according to their Peptidome
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accession numbers, allowing cited data to still be identified and
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downloaded. Furthermore, we will endeavor to deposit all Peptidome
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data in a different public mass spectrometry repository; information
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about this effort will follow soon.
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</p>
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<p>For those datasets that have been accessioned, but have not yet
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been made public, submitters have the option of withdrawing the data
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now and moving it to another repository. If we retain the data, it
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will move to the Peptidome FTP site on the date at which it is
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currently designated to go public.
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</p>
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<p>If you have any specific questions, please feel free to contact us
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at <a href="mailto:peptidome@ncbi.nlm.nih.gov">peptidome@ncbi.nlm.nih.gov</a>.
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<p class="citation">NCBI To Discontinue Sequence Read Archive and Peptidome. NLM Tech Bull. 2011 Jan-Feb;(378):e15.</p>
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