Kasper D Hansen
@kasperdhansen.bsky.social
Professor @ JHU, statistical genomics, www.hansenlab.org
Reposted by Kasper D Hansen
Oops. Ooooooooooooops.
I do hope that nobody has been given or denied a job/promotion based on their SpringerNature citation counts in the past 15 years.
arxiv.org/pdf/2511.01675
h/t @nathlarigaldie.bsky.social
I do hope that nobody has been given or denied a job/promotion based on their SpringerNature citation counts in the past 15 years.
arxiv.org/pdf/2511.01675
h/t @nathlarigaldie.bsky.social
November 7, 2025 at 2:02 PM
Oops. Ooooooooooooops.
I do hope that nobody has been given or denied a job/promotion based on their SpringerNature citation counts in the past 15 years.
arxiv.org/pdf/2511.01675
h/t @nathlarigaldie.bsky.social
I do hope that nobody has been given or denied a job/promotion based on their SpringerNature citation counts in the past 15 years.
arxiv.org/pdf/2511.01675
h/t @nathlarigaldie.bsky.social
Reposted by Kasper D Hansen
Will definitely include this example in my next talk on how to name files!
✅ Full marks for "make it easy to guess what the heck something is, based on it name".
✅ Full marks for "make it easy to guess what the heck something is, based on it name".
Genuinely delighted to download a PhD thesis from a university repository where the author has neglected to remove the words "BITCH THIS IS YOUR THESIS" from the filename.
October 31, 2025 at 8:46 PM
Will definitely include this example in my next talk on how to name files!
✅ Full marks for "make it easy to guess what the heck something is, based on it name".
✅ Full marks for "make it easy to guess what the heck something is, based on it name".
Reposted by Kasper D Hansen
🚀 Bioconductor 3.22 is released!
Thanks to all developers and community members for contributing to the project!
🔗 Please see the full release announcement here: bioconductor.org/news/bioc_3_...
Thanks to all developers and community members for contributing to the project!
🔗 Please see the full release announcement here: bioconductor.org/news/bioc_3_...
Bioconductor - Bioconductor 3.22 Released
The Bioconductor project aims to develop and share open source software for precise and repeatable analysis of biological data. We foster an inclusive and collaborative community of developers and…
bioconductor.org
October 31, 2025 at 7:56 AM
🚀 Bioconductor 3.22 is released!
Thanks to all developers and community members for contributing to the project!
🔗 Please see the full release announcement here: bioconductor.org/news/bioc_3_...
Thanks to all developers and community members for contributing to the project!
🔗 Please see the full release announcement here: bioconductor.org/news/bioc_3_...
Reposted by Kasper D Hansen
We are hiring for a PhD-level Staff Scientist to join our teams in the Translational Neuroscience Division @lieberinstitute.bsky.social. This is an exciting opportunity to work at the intersection of human 🧠 neuroanatomy and molecular neuroscience
recruiting.paylocity.com/recruiting/j...
recruiting.paylocity.com/recruiting/j...
Lieber Institute For Brain Development - Staff Scientist I, Translational Neuroscience
A little about us:The Lieber Institute for Brain Development (LIBD) was established in 2010 to plot a new course in biomedical research that would change the lives of individuals affected with develop...
recruiting.paylocity.com
October 29, 2025 at 4:03 PM
We are hiring for a PhD-level Staff Scientist to join our teams in the Translational Neuroscience Division @lieberinstitute.bsky.social. This is an exciting opportunity to work at the intersection of human 🧠 neuroanatomy and molecular neuroscience
recruiting.paylocity.com/recruiting/j...
recruiting.paylocity.com/recruiting/j...
Reposted by Kasper D Hansen
This 1980s anti-drug ad, but about screen time
a close up of a young man 's face with headphones on .
ALT: a close up of a young man 's face with headphones on .
media.tenor.com
October 24, 2025 at 2:11 PM
This 1980s anti-drug ad, but about screen time
Reposted by Kasper D Hansen
Today at #ASHG25 I will talk about the work of a talented graduate student Dev Raj Bhattarai on cell type-specific isoform expression in Alzheimer's disease at the @nanoporetech.com Education Session (12pm Rm 153). Dev will also present his work today at poster 9228T.
October 16, 2025 at 12:30 PM
Today at #ASHG25 I will talk about the work of a talented graduate student Dev Raj Bhattarai on cell type-specific isoform expression in Alzheimer's disease at the @nanoporetech.com Education Session (12pm Rm 153). Dev will also present his work today at poster 9228T.
Today at #ASHG2025 Adam Davidovich will talk about our work on inheritance of DNA methylation patterns in mice with some interesting biology, including (to our knowledge) the first paramutation naturally occurring in mammals.
Room 210C at 11am.
Room 210C at 11am.
October 16, 2025 at 11:50 AM
Today at #ASHG2025 Adam Davidovich will talk about our work on inheritance of DNA methylation patterns in mice with some interesting biology, including (to our knowledge) the first paramutation naturally occurring in mammals.
Room 210C at 11am.
Room 210C at 11am.
It’s the time of the year where 98% of my feed will become posts from @michaelhoffman.bsky.social on ASHG
October 14, 2025 at 9:47 PM
It’s the time of the year where 98% of my feed will become posts from @michaelhoffman.bsky.social on ASHG
Reposted by Kasper D Hansen
New tool "bwt-svg" for making illustrations of the BWT and the many auxiliary arrays and other structures related to it. Pyodide-based no-installation-necessary interface here: benlangmead.github.io/bwt-svg/. (H/t to @robert.bio for pointing me to pyodide!) Full repo: github.com/benlangmead/....
October 14, 2025 at 8:48 PM
New tool "bwt-svg" for making illustrations of the BWT and the many auxiliary arrays and other structures related to it. Pyodide-based no-installation-necessary interface here: benlangmead.github.io/bwt-svg/. (H/t to @robert.bio for pointing me to pyodide!) Full repo: github.com/benlangmead/....
Reposted by Kasper D Hansen
Looking forward to presenting duoNovo at ASHG this week.
We use long-read sequencing to detect de novo variants without having to sequence both parents. It's conceptually straightforward, and performs very accurately among variants likely to be clinically relevant.
www.medrxiv.org/content/10.1...
We use long-read sequencing to detect de novo variants without having to sequence both parents. It's conceptually straightforward, and performs very accurately among variants likely to be clinically relevant.
www.medrxiv.org/content/10.1...
Identification of de novo variants from parent-proband duos via long-read sequencing
While de novo variants cause many Mendelian disorders, their detection currently requires sequencing of the proband and both biological parents. This is not feasible when only one parent is available,...
www.medrxiv.org
October 11, 2025 at 7:33 PM
Looking forward to presenting duoNovo at ASHG this week.
We use long-read sequencing to detect de novo variants without having to sequence both parents. It's conceptually straightforward, and performs very accurately among variants likely to be clinically relevant.
www.medrxiv.org/content/10.1...
We use long-read sequencing to detect de novo variants without having to sequence both parents. It's conceptually straightforward, and performs very accurately among variants likely to be clinically relevant.
www.medrxiv.org/content/10.1...
Reposted by Kasper D Hansen
RcppArmadillo 15 CRAN Transition: Offering Office Hours
Offering office hours to help in updating #rstats CRAN packages to RcppArmadillo 15.0.2 given CRAN 'Deadlines' for a number of the reverse-dependency packages. Details and booking link at blog post.
dirk.eddelbuettel.com/blog/2025/10...
Offering office hours to help in updating #rstats CRAN packages to RcppArmadillo 15.0.2 given CRAN 'Deadlines' for a number of the reverse-dependency packages. Details and booking link at blog post.
dirk.eddelbuettel.com/blog/2025/10...
October 10, 2025 at 2:34 PM
RcppArmadillo 15 CRAN Transition: Offering Office Hours
Offering office hours to help in updating #rstats CRAN packages to RcppArmadillo 15.0.2 given CRAN 'Deadlines' for a number of the reverse-dependency packages. Details and booking link at blog post.
dirk.eddelbuettel.com/blog/2025/10...
Offering office hours to help in updating #rstats CRAN packages to RcppArmadillo 15.0.2 given CRAN 'Deadlines' for a number of the reverse-dependency packages. Details and booking link at blog post.
dirk.eddelbuettel.com/blog/2025/10...
Reposted by Kasper D Hansen
This is a masterpiece. Simply excellent
www.instagram.com/reel/DMVGMIC...
www.instagram.com/reel/DMVGMIC...
August 14, 2025 at 3:54 PM
This is a masterpiece. Simply excellent
www.instagram.com/reel/DMVGMIC...
www.instagram.com/reel/DMVGMIC...
Reposted by Kasper D Hansen
Didn’t want to believe this was true. It’s true.
August 7, 2025 at 9:13 PM
Didn’t want to believe this was true. It’s true.
Reposted by Kasper D Hansen
Good discussion & study-design recommendations in this new preprint by @mikelove.bsky.social @klmohlke.bsky.social & colleagues:
Higher eQTL power reveals signals that boost GWAS colocalization 🧪🧬
www.biorxiv.org/content/10.1...
Higher eQTL power reveals signals that boost GWAS colocalization 🧪🧬
www.biorxiv.org/content/10.1...
Higher eQTL power reveals signals that boost GWAS colocalization
Expression quantitative trait locus (eQTL) studies in human cohorts typically detect at least one regulatory signal per gene, and have been proposed as a way to explain mechanisms of genetic liability...
www.biorxiv.org
August 6, 2025 at 12:45 PM
Good discussion & study-design recommendations in this new preprint by @mikelove.bsky.social @klmohlke.bsky.social & colleagues:
Higher eQTL power reveals signals that boost GWAS colocalization 🧪🧬
www.biorxiv.org/content/10.1...
Higher eQTL power reveals signals that boost GWAS colocalization 🧪🧬
www.biorxiv.org/content/10.1...
Reposted by Kasper D Hansen
My first conference ever was at IPAM as an undergrad, bringing me into scientific research.
When I branched out into new topics, my first conference as new faculty was also at IPAM.
My R35 was suspended. A lot of personal feelings, but more I worry for the future of the country.
When I branched out into new topics, my first conference as new faculty was also at IPAM.
My R35 was suspended. A lot of personal feelings, but more I worry for the future of the country.
NSF and NIH cut off almost 300 grants to UCLA. Story by @dangaristo.bsky.social www.science.org/content/arti...
August 3, 2025 at 3:03 PM
My first conference ever was at IPAM as an undergrad, bringing me into scientific research.
When I branched out into new topics, my first conference as new faculty was also at IPAM.
My R35 was suspended. A lot of personal feelings, but more I worry for the future of the country.
When I branched out into new topics, my first conference as new faculty was also at IPAM.
My R35 was suspended. A lot of personal feelings, but more I worry for the future of the country.
Reposted by Kasper D Hansen
“There’s no better example of how [HIV and COVID were] different than to look at what happened to Tony Fauci. Celebrated for leading the response to HIV, pilloried for playing the same leading role with COVID, he eventually needed a security service to protect him and his family”
"What’s it like to have lived through both HIV and COVID as an ID doctor?"
A new intern asked me that last week.
I didn’t answer it fully then -- but I did here. #IDSky blogs.jwatch.org/hiv-id-obser...
A new intern asked me that last week.
I didn’t answer it fully then -- but I did here. #IDSky blogs.jwatch.org/hiv-id-obser...
Two Pandemics, Compared: Reflections on HIV and COVID-19
“Dr. Sax, what’s it like to have lived through two pandemics as an ID doctor?” The question came from a brand-new intern during afternoon sign-out. I took a breath — because wow, were they different. ...
blogs.jwatch.org
July 7, 2025 at 8:35 PM
“There’s no better example of how [HIV and COVID were] different than to look at what happened to Tony Fauci. Celebrated for leading the response to HIV, pilloried for playing the same leading role with COVID, he eventually needed a security service to protect him and his family”
Reposted by Kasper D Hansen
June 25, 2025 at 2:46 PM
June 24, 2025 at 1:11 AM
Worth reading
A case study on the challenges of evaluating AI predictions in biology and the implications for published results.
1/2
rachel.fast.ai/posts/2025-0...
1/2
rachel.fast.ai/posts/2025-0...
Rachel Thomas, PhD - Deep learning gets the glory, deep fact checking gets ignored
an AI researcher going back to school for immunology
rachel.fast.ai
June 5, 2025 at 2:02 AM
Worth reading
Reposted by Kasper D Hansen
I've seen folks talk about how "in four years" they'll be able to get back to their planned projects and I really don't think that's going to work out. People & projects losing funding now will not be able to hit pause and come back once funding is restored. Hard-won progress & capacity will be lost
I worry that not enough of a big deal is being made about how long-term the devastation of these budget cuts to our scientific and health agencies will be, beyond the absolute ruin they will cause in the acute period.
June 3, 2025 at 8:51 PM
I've seen folks talk about how "in four years" they'll be able to get back to their planned projects and I really don't think that's going to work out. People & projects losing funding now will not be able to hit pause and come back once funding is restored. Hard-won progress & capacity will be lost
I am at StatGen 2025 in Minneapolis. I would be happy to chat with students or postdocs about research or career questions. Send me a DM.
May 21, 2025 at 1:41 PM
I am at StatGen 2025 in Minneapolis. I would be happy to chat with students or postdocs about research or career questions. Send me a DM.
Reposted by Kasper D Hansen
Apparently, transcriptomics is not the only field struggling with overly optimistic results from new deep learning techniques.
www.understandingai.org/p/i-got-fool...
www.understandingai.org/p/i-got-fool...
I got fooled by AI-for-science hype—here's what it taught me
I used AI in my plasma physics research and it didn’t go the way I expected.
www.understandingai.org
May 19, 2025 at 4:31 PM
Apparently, transcriptomics is not the only field struggling with overly optimistic results from new deep learning techniques.
www.understandingai.org/p/i-got-fool...
www.understandingai.org/p/i-got-fool...