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RSAT

@RSATools

Modular software suite for the analysis of cis-regulatory elements in genome sequences 💻🖥️

 France
rsat.eu/
Joined July 2017
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  • Following85
  • Followers342
Replying to @RSATools
Just published at doi.org/10.1093/nar/gkac312
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The #footprintDB collection of transcription factors, motifs and regulatory sequences has just been updated, see release notes here: bioinfoperl.blogspot.com/202… @RSATools @jaspar_db
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Check out our latest article in @NAR_Open, featuring the latest updates for @RSATools ! academic.oup.com/nar/advance…
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Three new plant genomes added to @RSATools from @ensemblgenomes and the @NCBI: Hordeum_vulgare.MorexV3 Lupinus_albus.CNRS_Lalb_10 Lupinus_albus.La_Amiga31 You can now use them to analyze regulatory sequences at plants.rsat.eu , enjoy!
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The #RSATplants server will be down over the weekend for maintenance. We apologize for the inconvenience this might cause, we are working to improve services.
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Please welcome the latest plants added to @RSATools from @ensemblgenomes: Hordeum_vulgare.MorexV3_pseudomolecules_assembly.52 Olea_europaea.OLEA9.52 (cv Farga) You can now use in you analysis of regulatory sequences at plants.rsat.eu
Image from RSAT (@RSATools)
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Upon user request, we have added the Cannabis sativa genome to plants.rsat.eu. 🌱
Image from RSAT (@RSATools)
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As requested by one of users, now the Acidovorax radicis N35 genome is available in the Prokaryotes server !🦠 Don’t hesitate to ask if you need a specific organism 👩🏽‍💻
Image from RSAT (@RSATools)
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Interested in plant biology and how to study genetic regulation? Checkout this article from @BrunoContrerasM and @NajlaKsouri 🌱🍑
BContrerasMoreira (@BrunoContrerasM) profile pictureBContrerasMoreira@BrunoContrerasM15 Jan 2021
Well done @NajlaKsouri @EEAD_CSIC @IAMZCIHEAM
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We congratulate @RSATools co-lead developer @mthomaschollier on her new position!!
GenomiqueENS (@Genomique_ENS) profile pictureGenomiqueENS@Genomique_ENS16 Dec 2020
We welcome @mthomaschollier as the new scientific co-leader of the genomics platform @Genomique_ENS 🎉
Image from GenomiqueENS (@Genomique_ENS)
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Just added the pineapple genome and annotation to plants.rsat.eu from plants.ensembl.org/Ananas_co… to Rsat::Plants @ensembl
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1) Today's been a hell of a day for plant #pangenomes. In nature.com/articles/s41586-0… Walkowiak et al analyze up to 16 wheat cultivars to report on the global variation pool accessible to modern breeding
Image from BContrerasMoreira (@BrunoContrerasM)
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We have released bwa-mem2 v2.1 in which we address the main feedback that index of the reference was too big. The index size on disk is down by 8x and in memory by 4x with no impact on read mapping speed. #bwa-mem2 #bwamem2 #bwamem @lh3lh3 @wasim_galaxy github.com/bwa-mem2/bwa-mem2…
Release Bwa-mem2-2.1 · bwa-mem2/bwa-mem2

Release Bwa-mem2-2.1 · bwa-mem2/bwa-mem2

Release 2.1 of BWA-MEM2. Changes since the last release (2.0): Smaller index: the index size on disk is down by 8 times and in memory by 4 times due to moving to only one type of FM-index (2bit.6...

github.com
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If you're organising a virtual meeting and think it could benefit from being live-illustrated get in touch atjcagan.squarespace.com/#/c… #scicomm #sciart
Image from Alex Cagan (@ATJCagan)
Image from Alex Cagan (@ATJCagan)
Image from Alex Cagan (@ATJCagan)
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Thank to @BrunoContrerasM we now have the Tabaco Genome available in #RSATplants 🌱👩‍💻
BContrerasMoreira (@BrunoContrerasM) profile pictureBContrerasMoreira@BrunoContrerasM18 Sep 2020
Just added Nicotiana_tabacum.TN90.GCF_000715135.1.NCBI to the plants @RSATools server rsat.eead.csic.es/plants
Per users request, we have added the Aspergillus_sydowii.CBS593.v1.JGI genome from @MycoCosm to the Fungi server 🍄 mycocosm.jgi.doe.gov/Aspsy1
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More than 20 years ! Good coding and documentation practices pay off 💪🏽
Morgane Thomas-Chollier (@mthomaschollier) profile pictureMorgane Thomas-Chollier@mthomaschollier31 Aug 2020
Replying to @slecrom
Our 20 years still works 👍🏼 @RSATools, same for our friends @GenomicusDB (though few years younger) , both benefited from @IFB_Bioinfo funding few years ago
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New genome installed in the Prokaryotes server 🦠 Pseudomonas_aeruginosa_GCF_001469435.2_ASM146943v3 ncbi.nlm.nih.gov/assembly/GC…
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Using RSAT or participating in our courses or workshops? Please check out our new Code of Conduct, visible from all our servers embnet.ccg.unam.mx/rsat/code…
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The latest work by Najla Ksouri @EEAD_CSIC @RSATools on discovering regulatory motifs in proximal promoters of plants is now live on @biorxivpreprint Thoughts and comments welcome biorxiv.org/content/10.1101/…
Motif analysis in co-expression networks reveals regulatory elements in plants: The peach as a model

Motif analysis in co-expression networks reveals regulatory elements in plants: The peach as a model

Identification of functional regulatory elements encoded in plant genomes is a fundamental need to understand gene regulation. While much attention has been given to model species as Arabidopsis...

biorxiv.org
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