Questo articolo di @HelenBranswell (purtroppo dietro paywall) esprime la preoccupazione che hanno tanti scienziati nel mondo: la possibilità che #Trump rimuova i database di sequenze #Genbank e SRA, da sempre punto di riferimento per la ricerca biomedica. 🧬

Certo gli stessi dati sono archiviati anche nei database di ENA e DDBJ, ma si tratta di risorse che pochi conoscono. Se le banche dati americane dovessero sparire, sarebbe un problema serio per tutti!

https://www.statnews.com/2025/02/10/genbank-sra-nih-genetic-databases-trump-impact/

Meet PyNCBIminer!
This open-source, user-friendly software automates the assembly of large #DNA data sets from #GenBank for #phylogenetic reconstruction using the supermatrix method--and eliminates the need for large local #databases!
https://doi.org/10.1111/jse.13155
@WileyEcolEvol
#JSE #bioinformatics #BioinformaticsTools

https://ncbiinsights.ncbi.nlm.nih.gov/2023/05/01/sequences-genbank-sra/

#bioinformatics #genbank

https://ncbiinsights.ncbi.nlm.nih.gov/2024/10/24/genbank-release-263/

#bioinformatics #genbank

Taxonomy Identifiers (TaxId) for Biodiversity Genomics: a guide to getting TaxId for submission of data to public databases

https://wellcomeopenresearch.org/articles/9-591

#preprint #taxonomy #databases #INSCD #genbank #ENA #DDBJ

Our genome assembly was published back-to-back in Genome Biology and Evolution with the work of Yael Klirs and her co-authors (https://doi.org/10.1093/gbe/evae181), and our results are in very good agreement. I am very glad that it happened, because some of the features of #Oikopleura dioica's mitogenome were difficult to accept for #GenBank curators. I hope that our publications will lead them to revise their point of view and accept our gene annotation.

#US #CDC: Technical #Update: #Summary #Analysis of #Genetic #Sequence of a HPAI A(#H5N1) Virus Identified in a #Human in #Michigan, https://www.cdc.gov/flu/avianflu/spotlights/2023-2024/h5n1-technical-update-may-24-2024.html

This analysis supports conclusion that overall #risk to general public associated with the ongoing HPAI A(H5N1) #outbreak has not changed and remains low at this time. #Genome of the virus identified from patient in Michigan (A/Michigan/90/2024) is publicly posted in #GISAID (EPI_ISL_19162802) and has been submitted to #GenBank.

Projekt koordiniert von @jki_bund will Öko-Linsenanbau in Deutschland wiederbeleben. Dazu muss die #Linse züchterisch bzgl Winterhärte, Ertrag verbessert werden. Umfangreiche Testung mit regionalen Landsorten & #Genbank -Sortimenten @LeibnizIPK geplant.
https://nachrichten.idw-online.de/2024/05/08/neues-projekt-will-linsenanbau-in-deutschland-wiederbeleben

First SARS-CoV-2 genome was deposited in U.S. database earlier than previously known
https://www.science.org/content/article/first-sars-cov-2-genome-deposited-us-database-earlier-than-previously-known #SARS—CoV—2 #genome #GenBank #NIH #china

DNA sequences from type specimens and type strains - how to increase their number and improve their annotation in NCBI GenBank and related databases

https://doi.org/10.1093/sysbio/syad068

#mycology #fungi #prokaryotes #eukaryotes #TypeSpecimens #TypeStrains #NCBI #GenBank #sequence #databases

Database resources of the National Center for Biotechnology Information

https://doi.org/10.1093/nar/gkad1044

#ReferenceSequence #Databases #NCBI #GenBank #PubMed #SRA #RefSeq #Taxonomy #bioinformatics

DNA sequences from type specimens and type strains – how to increase their number and improve their annotation in NCBI GenBank and related databases

https://doi.org/10.1093/sysbio/syad068

#SequenceDatabase #GenBank #NCBI #annotation #TypeSpecimen #TypeStrain #BestPractice #biodiversity

#Biodiversity library will help preserve #genetic #diversity in #endangered_species

@USFWS #biobanking @Revive_Restore #genBank

https://arstechnica.com/science/2023/10/biodiversity-library-will-help-preserve-genetic-diversity-in-endangered-species/

The latest version of the #Fern Tree of Life, v1.5.0 (based on #GenBank release 256, 2023-06-15) is now live! Includes 570 complete plastome sequences and 5,750 fern species total. 🌿 🧬

https://fernphy.github.io/

GenBank release 255.0 (4/21/2023) is now available on the NCBI FTP site. This release has 23.44 trillion bases and 3.48 billion records https://ncbiinsights.ncbi.nlm.nih.gov/2023/05/03/genbank-release-255-0-is-available #genbank #genomics #dna #bioinformatics

More from our friends at #NCBI | Announcing the #GenBank and #SRA Data Processing Webpage | #OpenData #OpenScience | I like their documentation | https://ncbiinsights.ncbi.nlm.nih.gov/2023/01/10/genbank-sra-data-processing-webpage/

https://www.ncbi.nlm.nih.gov/sra/docs/sequence-data-processing/?utm_source=ncbi_insights&utm_medium=referral&utm_campaign=genbank-sra-data-processing-20230110

Repost from Twitter: Help my #bioinformatician friends. Does anyone have a RELIABLE way of converting multiple BioSample accessions into SRA accessions? #Bioinformatics #Genbank #Genomics :awesome_rotate: