Jakob M Goldmann
LightNews LightNews
jgoldmann.bsky.social
Jakob M Goldmann
@jgoldmann.bsky.social
57 followers 440 following 0 posts
Here for #bioinformatics / #computationalBiology of #Genomics, #Oncology and #Virology. Also loves #dataViz and open-source software.
Posts Replies Media Videos
Reposted by Jakob M Goldmann
haoyin.bsky.social
CellWhisperer

From Transcriptome to Text

A great LLM-Chatbot explorer for CELLxGENE & GEO & your own data!

Contrastive language image pretraining
Geneformer
BioBERT
>1 million bulk/pseudo-bulk transcriptomes

cellwhisperer.bocklab.org

#NatBiotech 2025
www.nature.com/articles/s41...
November 22, 2025 at 12:14 PM
Reposted by Jakob M Goldmann
sashagusevposts.bsky.social
I wrote a little bit about the "missing heritability" question and several recent studies that have brought it to a close. A short 🧵
The missing heritability question is now (mostly) answered
Not with a bang but with a whimper
theinfinitesimal.substack.com
November 21, 2025 at 10:34 PM
Reposted by Jakob M Goldmann
ekatrukha.bsky.social
Turns out, there are fully opened LIDAR point scans of the whole Netherlands surface available geotiles.nl With up to 25 cm.
It was hard not to load our building and around it into #bigvolumebrowser (22 M points + Fire LUT for height)
November 17, 2025 at 4:38 PM
Reposted by Jakob M Goldmann
ensembl.org
As new human assemblies become available on beta.ensembl.org - which human reference genome will you choose? This article explores the question with insights from Ensembl’s own Fergal Martin - www.nature.com/articles/s41...

#HumanGenomics #Pangenomes #ReferenceGenomes
Choose your human genome reference wisely - Nature Methods
Scientists can choose between multiple human genome references, and a pangenome reference is coming. Deciding what to use when is not quite straightforward.
www.nature.com
November 4, 2025 at 12:28 PM
Reposted by Jakob M Goldmann
tommytang.bsky.social
Benchmarking large-scale single-cell RNA-seq analysis www.biorxiv.org/content/10....
November 2, 2025 at 3:15 PM
Reposted by Jakob M Goldmann
erictopol.bsky.social
What do the naked mole rat and bowhead whale (lives to ~200 years) have in common to explain their remarkable longevity?
Enhanced DNA repair
www.nature.com/articles/s41...
erictopol.substack.com/p/a-long-awa...
Evidence for improved DNA repair in long-lived bowhead whale - Nature
Analysis of the longest-lived mammal, the bowhead whale, reveals an improved ability to repair DNA breaks, mediated by high levels of cold-inducible RNA-binding protein.  &nbs...
www.nature.com
October 29, 2025 at 4:26 PM
Reposted by Jakob M Goldmann
sokrypton.org
Is 3D dragging you down? Wish you could instead use the 2D ColabFold representation for all your work? 🤓

Introducing: py2Dmol 🧬

(feedback, suggestions, requests are welcome)
October 29, 2025 at 1:39 AM