Today we almost lost a lot of data in the in-house lab database because hundreds of files were accidentally deleted. Luckily we could recover them from a backup. I think a safer interface design and keeping backups are very important
@katsutomookamura.bsky.social
We’ve been building a personal lab knowledge system that connects protocols, materials, lab notebooks, raw data, and my own literature notes. I’m curious how AI will change the way scientists accumulate and reuse knowledge. I don’t know where this will end up, but I thought it might be interesting
The Knock-in Atlas server (rnabio.naist.jp/atlas/) will be down for maintenance: From: March 24, 5:00 PM (JST) To: March 26, 12:00 PM (JST) Sorry for the inconvenience!
The Knock-in Atlas
rnabio.naist.jp
And, for those of you who are interested in making gRNAs against gene introns for NHEJ-mediated knock-in, we also made lists guidelines and genome-wide lists of gRNAs for human and mouse. For more details, please visit rnabio.naist.jp/atlas/
The Knock-in Atlas
rnabio.naist.jp
@katsutomookamura.bsky.social · 11mo agoknock-in atlas: a web resource for targeted protein trap by CRISPR/Cas9 in human and mouse cell lines url: academic.oup.com/nar/article/... Our knock-in atlas paper is out! The collection now has >600 entries for 350 proteins (239 RNA binding proteins) tagged with the Venus fluorescent protein
knock-in atlas: a web resource for targeted protein trap by CRISPR/Cas9 in human and mouse cell lines url: academic.oup.com/nar/article/... Our knock-in atlas paper is out! The collection now has >600 entries for 350 proteins (239 RNA binding proteins) tagged with the Venus fluorescent protein
Validate User
academic.oup.com
The knock-in atlas website <https://rnabio.naist.jp/atlas/> will be down soon until next Monday October 20th morning (JST). Sorry for the inconvenience!
A new version of knock-in Atlas is available now at bioRxiv! The collection has now grown to 350 proteins www.biorxiv.org/content/10.1...
The Knock-In Atlas: A web resource for targeted protein trap by CRISPR/Cas9 in human and mouse cell lines
Various cell engineering techniques have been developed by leveraging the CRISPR-Cas9 technology, but large-scale resources for targeted gene knock-in are still limited. Here we introduce the Knock-in...
biorxiv.org
@katsutomookamura.bsky.social · 2y agoIn the mouse and human gRNA sites, you can search for your genes of interest. The gRNA scores and AlphaFold2 pLDDT scores around the tag-insertion sites are useful for finding good gRNAs (Regions with low pLDDT are preferred as such regions tend not to have tight structures.)
Want to tag a protein in cell lines? Check out our new preprint and website <https://yumahanaiatokamuralab.shinyapps.io/KnockInAtlas/>. We made a catalogue of gRNAs against human/mouse introns for inserting artificial exons for protein tagging at endogenous loci.
bioRxivpreprint@biorxivpreprint.bsky.social · 2y agoThe Knock-In Atlas: A web resource for targeted protein trap by CRISPR/Cas9 in human and mouse cell lines https://www.biorxiv.org/content/10.1101/2025.02.19.638564v1