Aziz Khan
@khanlab.bio
computational biologist at Stanford and interested in #generegulation, #cancer #genomics #epigenomics #openscience - https://khanlab.bio/
Reposted by Aziz Khan
JASPAR 2026 is out 🎉
The new release massively expands the TF motif collections and adds a dedicated DeepLearning collection of motifs learned from deep learning models.
Database: jaspar.elixir.no
Paper (NAR): doi.org/10.1093/nar/...
🧵1/2
The new release massively expands the TF motif collections and adds a dedicated DeepLearning collection of motifs learned from deep learning models.
Database: jaspar.elixir.no
Paper (NAR): doi.org/10.1093/nar/...
🧵1/2
JASPAR: An open-access database of transcription factor binding profiles
JASPAR is the largest open-access database of curated and non-redundant transcription factor (TF) binding profiles from six different taxonomic groups.
jaspar.elixir.no
December 3, 2025 at 2:43 PM
JASPAR 2026 is out 🎉
The new release massively expands the TF motif collections and adds a dedicated DeepLearning collection of motifs learned from deep learning models.
Database: jaspar.elixir.no
Paper (NAR): doi.org/10.1093/nar/...
🧵1/2
The new release massively expands the TF motif collections and adds a dedicated DeepLearning collection of motifs learned from deep learning models.
Database: jaspar.elixir.no
Paper (NAR): doi.org/10.1093/nar/...
🧵1/2
Ten simple rules for fostering #creativity in #research labs @plos.org by @mrillig.bsky.social
journals.plos.org/ploscompbiol...
journals.plos.org/ploscompbiol...
Ten simple rules for fostering creativity in research labs
Research lab groups are hotspots for the education of the next generation of scientists, and making these units work as creatively as possible is essential for solving pressing issues in biology, the ...
journals.plos.org
March 23, 2025 at 11:15 AM
Ten simple rules for fostering #creativity in #research labs @plos.org by @mrillig.bsky.social
journals.plos.org/ploscompbiol...
journals.plos.org/ploscompbiol...
Reposted by Aziz Khan
openRxiv has arrived!
We’re thrilled to announce the launch of openRxiv as an independent, researcher-led nonprofit to oversee bioRxiv and medRxiv, the world’s leading preprint servers for life and health sciences.
openrxiv.org/introducing-...
#openRxiv #OpenScience #Preprints #bioRxiv #medRxiv
We’re thrilled to announce the launch of openRxiv as an independent, researcher-led nonprofit to oversee bioRxiv and medRxiv, the world’s leading preprint servers for life and health sciences.
openrxiv.org/introducing-...
#openRxiv #OpenScience #Preprints #bioRxiv #medRxiv
March 11, 2025 at 1:18 PM
openRxiv has arrived!
We’re thrilled to announce the launch of openRxiv as an independent, researcher-led nonprofit to oversee bioRxiv and medRxiv, the world’s leading preprint servers for life and health sciences.
openrxiv.org/introducing-...
#openRxiv #OpenScience #Preprints #bioRxiv #medRxiv
We’re thrilled to announce the launch of openRxiv as an independent, researcher-led nonprofit to oversee bioRxiv and medRxiv, the world’s leading preprint servers for life and health sciences.
openrxiv.org/introducing-...
#openRxiv #OpenScience #Preprints #bioRxiv #medRxiv
Reposted by Aziz Khan
I’m super excited to share what I’ve been working on for the last (many) years: a spatial + genomic + transcriptomic characterization of how the breast cancer microenvironment evolves through immunotherapy! (1/x) 🧪🧬 🖥️ #AcademicSky #MLSky #ImmunoSky www.biorxiv.org/content/10.1...
Temporal and spatial composition of the tumor microenvironment predicts response to immune checkpoint inhibition
Immune checkpoint inhibition (ICI) has fundamentally changed cancer treatment. However, only a minority of patients with metastatic triple negative breast cancer (TNBC) benefit from ICI, and the deter...
www.biorxiv.org
January 29, 2025 at 4:17 PM
I’m super excited to share what I’ve been working on for the last (many) years: a spatial + genomic + transcriptomic characterization of how the breast cancer microenvironment evolves through immunotherapy! (1/x) 🧪🧬 🖥️ #AcademicSky #MLSky #ImmunoSky www.biorxiv.org/content/10.1...
Reposted by Aziz Khan
We share a lot of our ideas, code, datasets (that we spend years sanitizing) early. Often way before we release preprints. We do this so that others can use, build on, improve & even "beat" our approaches. But I want to say a few things about some simple expectations 1/
January 17, 2025 at 5:16 PM
We share a lot of our ideas, code, datasets (that we spend years sanitizing) early. Often way before we release preprints. We do this so that others can use, build on, improve & even "beat" our approaches. But I want to say a few things about some simple expectations 1/
Reposted by Aziz Khan
🧪 let's see the impact of 🔵 sky for finding expertise! My dept is in ASAP need of somebody with bioinformatics expertise to provide content for several course developments. Work is remote and contract, courses will be online asynch. Courses are for bio and data science majors. Pls spread the word! 🙏
January 13, 2025 at 6:41 PM
🧪 let's see the impact of 🔵 sky for finding expertise! My dept is in ASAP need of somebody with bioinformatics expertise to provide content for several course developments. Work is remote and contract, courses will be online asynch. Courses are for bio and data science majors. Pls spread the word! 🙏
If you're a JASPAR user, please give feedback!!
We want to make JASPAR (jaspar.elixir.no) even better for our users! Please share your experience and help us enhance the database by taking a quick survey: nettskjema.no/a/467842.
Your insights make a difference!
Your insights make a difference!
January 12, 2025 at 3:51 PM
If you're a JASPAR user, please give feedback!!
“Try not to become a man of success, but rather try to become a man of value.” — Albert Einstein
January 12, 2025 at 5:12 AM
“Try not to become a man of success, but rather try to become a man of value.” — Albert Einstein
Great move by Finland to downgrade Frontiers and MDPI journals, and others should follow retractionwatch.com/2024/12/24/f...
Finland Publication Forum will downgrade hundreds of Frontiers and MDPI journals
A committee of scholars in Finland has decided to downgrade 271 journals from Frontiers and MDPI in their quality rating system, in a move that may discourage researchers from submitting manuscript…
retractionwatch.com
December 27, 2024 at 1:51 AM
Great move by Finland to downgrade Frontiers and MDPI journals, and others should follow retractionwatch.com/2024/12/24/f...
Reposted by Aziz Khan
We want to make JASPAR even better for our users!
Please share your experience and ideas to help us enhance the database by taking a quick survey at nettskjema.no/a/467839.
Your insights make a difference! Thank you so much for your participation.
Please share your experience and ideas to help us enhance the database by taking a quick survey at nettskjema.no/a/467839.
Your insights make a difference! Thank you so much for your participation.
December 4, 2024 at 3:54 PM
We want to make JASPAR even better for our users!
Please share your experience and ideas to help us enhance the database by taking a quick survey at nettskjema.no/a/467839.
Your insights make a difference! Thank you so much for your participation.
Please share your experience and ideas to help us enhance the database by taking a quick survey at nettskjema.no/a/467839.
Your insights make a difference! Thank you so much for your participation.
Fun! While we were teaching a live Git/GitHub hands-on class and this happened — www.githubstatus.com/incidents/43...
Disruption with some GitHub services
GitHub's Status Page - Disruption with some GitHub services.
www.githubstatus.com
December 4, 2024 at 11:23 PM
Fun! While we were teaching a live Git/GitHub hands-on class and this happened — www.githubstatus.com/incidents/43...
Reposted by Aziz Khan
Good news, Altmetric has now started watching BlueSky for mentions of publications. And by the way, provides an easy comparison between this and the old site for a recent preprint of mine which I posted simultaneousl at both. Numbers speak by themselves !
December 2, 2024 at 6:35 PM
Good news, Altmetric has now started watching BlueSky for mentions of publications. And by the way, provides an easy comparison between this and the old site for a recent preprint of mine which I posted simultaneousl at both. Numbers speak by themselves !
Just wrapped up the first class of our reproducibility mini-course this term at Stanford! The energy and enthusiasm these ECRs bring to making science reproducible is truly inspiring. Their engagement, curiosity and commitment to rigor in research give me so much hope for the future of science.
December 3, 2024 at 4:08 AM
Just wrapped up the first class of our reproducibility mini-course this term at Stanford! The energy and enthusiasm these ECRs bring to making science reproducible is truly inspiring. Their engagement, curiosity and commitment to rigor in research give me so much hope for the future of science.
Late but excited to join Bluesky!
I’m a computational biologist interested #generegulation #cancergenomics, #openscience, science and health policy. Looking forward to connecting and re-building the community here!!
I’m a computational biologist interested #generegulation #cancergenomics, #openscience, science and health policy. Looking forward to connecting and re-building the community here!!
November 27, 2024 at 9:33 PM
Late but excited to join Bluesky!
I’m a computational biologist interested #generegulation #cancergenomics, #openscience, science and health policy. Looking forward to connecting and re-building the community here!!
I’m a computational biologist interested #generegulation #cancergenomics, #openscience, science and health policy. Looking forward to connecting and re-building the community here!!