New download files and FTP directories for genome assemblies


You can now download new file types for species recently annotated by the NCBI Eukaryotic Genome Annotation Pipeline from the Assembly web pages and from the genomes/refseq FTP area. The new files types include alignments of annotated transcripts to the assembly in BAM format, all models predicted by Gnomon, and — for species that have been annotated multiple times —  files characterizing the feature-by-feature differences between the current and the previous annotation.

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Coming Soon: A New NIH Manuscript Submission (NIHMS) System!


Reflecting the National Library of Medicine’s (NLM) ongoing commitment to public access support at the National Institutes of Health (NIH) and beyond, we are pleased to announce that a new NIHMS system will be released in early 2020. This new system aims to streamline the submission process, ensure the continued quality of manuscripts made publicly accessible, and give authors and investigators more transparent options for avoiding processing delays.

Those familiar with the current NIHMS system will find the basic steps of submitting, reviewing, and approving manuscripts for inclusion in PMC unchanged in the new system. They will see an updated user interface that simplifies the login process for returning users; provides contextual help throughout; and offers user-friendly options for importing article metadata, requesting corrections, and taking over the Reviewer role for stalled submissions. Details of these updates and more are available in this video:

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December 11 Webinar: Running the NCBI Prokaryotic Genome Annotation Pipeline (PGAP) on your own data


On Wednesday, December 11, 2019 at 12 PM, NCBI staff will present a webinar that will show you how to use NCBI’s PGAP (https://github.com/ncbi/pgap) on your own data to predict genes on bacterial and archaeal genomes using the same inputs and applications used inside NCBI. You can run PGAP your own machine, a compute farm, or in the Cloud. Plus, you can now submit genome sequences annotated by your copy of PGAP to GenBank.  Attend the webinar to learn more!

  • Date and time: Wed, Dec 11, 2019 12:00 PM – 12:45 PM EDT
  • Register

After registering, you will receive a confirmation email with information about attending the webinar. A few days after the live presentation, you can view the recording on the NCBI YouTube channel. You can learn about future webinars on the Webinars and Courses page.