Irfan Kathiriya
@irfankathiriya.bsky.social
Pediatric Cardiac Anesthesiologist | Developmental Biologist
Reposted by Irfan Kathiriya
CODA for the masses!
Valentina Matos-Romero, Ashley Kiemen and team have put together an ultra detailed protocol to use CODA for 3D single-cell mapping of tissues, organs, and organisms.
Use CODA by downloading this protocol here: www.biorxiv.org/content/10.1...
Valentina Matos-Romero, Ashley Kiemen and team have put together an ultra detailed protocol to use CODA for 3D single-cell mapping of tissues, organs, and organisms.
Use CODA by downloading this protocol here: www.biorxiv.org/content/10.1...
April 14, 2025 at 5:58 PM
CODA for the masses!
Valentina Matos-Romero, Ashley Kiemen and team have put together an ultra detailed protocol to use CODA for 3D single-cell mapping of tissues, organs, and organisms.
Use CODA by downloading this protocol here: www.biorxiv.org/content/10.1...
Valentina Matos-Romero, Ashley Kiemen and team have put together an ultra detailed protocol to use CODA for 3D single-cell mapping of tissues, organs, and organisms.
Use CODA by downloading this protocol here: www.biorxiv.org/content/10.1...
Reposted by Irfan Kathiriya
Today at 4pm: Cancer Center Friday Seminar | Ashley Kiemen, PhD, Johns Hopkins Inst for NanoBioTechnology "Integration of histology and multiplex imaging for targeted understanding of pancreatic cancer progression" cancer.ucsf.edu/seminars Host: @shainlab.bsky.social @ucsanfrancisco.bsky.social
November 14, 2025 at 8:49 PM
Today at 4pm: Cancer Center Friday Seminar | Ashley Kiemen, PhD, Johns Hopkins Inst for NanoBioTechnology "Integration of histology and multiplex imaging for targeted understanding of pancreatic cancer progression" cancer.ucsf.edu/seminars Host: @shainlab.bsky.social @ucsanfrancisco.bsky.social
Reposted by Irfan Kathiriya
We used CODA to generate 3D single-cell immuno maps around pre-cancer lesions of the human pancreas.
Highly heterogeneous.
Work by Prof. Ashley Kiemen and colleagues.
Read more about 3D immuno maps around pre-cancer lesions here: www.biorxiv.org/content/10.1...
Highly heterogeneous.
Work by Prof. Ashley Kiemen and colleagues.
Read more about 3D immuno maps around pre-cancer lesions here: www.biorxiv.org/content/10.1...
December 3, 2025 at 6:06 PM
We used CODA to generate 3D single-cell immuno maps around pre-cancer lesions of the human pancreas.
Highly heterogeneous.
Work by Prof. Ashley Kiemen and colleagues.
Read more about 3D immuno maps around pre-cancer lesions here: www.biorxiv.org/content/10.1...
Highly heterogeneous.
Work by Prof. Ashley Kiemen and colleagues.
Read more about 3D immuno maps around pre-cancer lesions here: www.biorxiv.org/content/10.1...
Reposted by Irfan Kathiriya
Proud of our CA1 Anesthesiology Intensive Research Residency (AIRR) residents. These research scholars are in our research-intensive 5-year residency designed to produce independent and innovative investigators in anesthesiology. More: anesthesia.ucsf.edu/news/meet-ou...
#research #anesthesiology
#research #anesthesiology
January 15, 2026 at 8:08 PM
Proud of our CA1 Anesthesiology Intensive Research Residency (AIRR) residents. These research scholars are in our research-intensive 5-year residency designed to produce independent and innovative investigators in anesthesiology. More: anesthesia.ucsf.edu/news/meet-ou...
#research #anesthesiology
#research #anesthesiology
Reposted by Irfan Kathiriya
Was a pleasure to present this piece of my postdoctoral work at #bcvs2025! If you missed it or are looking for more, check out our preprint: www.biorxiv.org/content/10.1...
July 24, 2025 at 5:27 PM
Was a pleasure to present this piece of my postdoctoral work at #bcvs2025! If you missed it or are looking for more, check out our preprint: www.biorxiv.org/content/10.1...
Reposted by Irfan Kathiriya
More to come soon, both in continuing to examine the genomic regulation, but also defining the cellular behaviors that are necessary for early heart tube formation. For now, huge thanks to @benoitbruneau.bsky.social for supporting me as we pursued this ambitious and open-ended project!
(8/8)
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September 3, 2025 at 10:04 PM
More to come soon, both in continuing to examine the genomic regulation, but also defining the cellular behaviors that are necessary for early heart tube formation. For now, huge thanks to @benoitbruneau.bsky.social for supporting me as we pursued this ambitious and open-ended project!
(8/8)
(8/8)
Reposted by Irfan Kathiriya
In what @benoitbruneau.bsky.social aptly described as our “lets go nuts” experiment, we confirmed this interaction by demonstrating that reduced Nr2f2 dosage partially rescues the Mef2c KO heart tube phenotype.
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(7/n)
September 3, 2025 at 10:04 PM
In what @benoitbruneau.bsky.social aptly described as our “lets go nuts” experiment, we confirmed this interaction by demonstrating that reduced Nr2f2 dosage partially rescues the Mef2c KO heart tube phenotype.
(7/n)
(7/n)
Reposted by Irfan Kathiriya
Excited to share that our manuscript “MEF2C controls segment-specific gene regulatory networks that direct heart tube morphogenesis” is now online @genesdev.bsky.social !
genesdev.cshlp.org/content/earl...
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genesdev.cshlp.org/content/earl...
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MEF2C controls segment-specific gene regulatory networks that direct heart tube morphogenesis
A biweekly scientific journal publishing high-quality research in molecular biology and genetics, cancer biology, biochemistry, and related fields
genesdev.cshlp.org
September 3, 2025 at 9:59 PM
Excited to share that our manuscript “MEF2C controls segment-specific gene regulatory networks that direct heart tube morphogenesis” is now online @genesdev.bsky.social !
genesdev.cshlp.org/content/earl...
(1/n)
genesdev.cshlp.org/content/earl...
(1/n)
Reposted by Irfan Kathiriya
nice to read a perspective in @genesdev.bsky.social on our recent paper genesdev.cshlp.org/content/earl...
MEF2C networks in heart tube development
A biweekly scientific journal publishing high-quality research in molecular biology and genetics, cancer biology, biochemistry, and related fields
genesdev.cshlp.org
September 26, 2025 at 6:19 PM
nice to read a perspective in @genesdev.bsky.social on our recent paper genesdev.cshlp.org/content/earl...
Reposted by Irfan Kathiriya
This month’s cover of @genesdev.bsky.social has @j-muncie-vasic.bsky.social’s embryos all in a row! Paper and commentary in the issue genesdev.cshlp.org/content/39/2...
Cover Photo — November/December 2025, 39 (23-24)
A biweekly scientific journal publishing high-quality research in molecular biology and genetics, cancer biology, biochemistry, and related fields
genesdev.cshlp.org
December 1, 2025 at 4:05 PM
This month’s cover of @genesdev.bsky.social has @j-muncie-vasic.bsky.social’s embryos all in a row! Paper and commentary in the issue genesdev.cshlp.org/content/39/2...
Reposted by Irfan Kathiriya
Now that the print issue is out, I'm excited to share that our manuscript is featured on the @genesdev.bsky.social cover! genesdev.cshlp.org/content/39/2...
December 2, 2025 at 1:10 AM
Now that the print issue is out, I'm excited to share that our manuscript is featured on the @genesdev.bsky.social cover! genesdev.cshlp.org/content/39/2...
Reposted by Irfan Kathiriya
New preprint with @gfudenberg.bsky.social
We find the rate of cohesin loop extrusion in cells is set by NIPBL dosage and tunes many aspects of chromosome folding.
This provides a molecular basis for NIPBL haploinsufficiency in humans. 🧵👇
www.biorxiv.org/content/10.1...
We find the rate of cohesin loop extrusion in cells is set by NIPBL dosage and tunes many aspects of chromosome folding.
This provides a molecular basis for NIPBL haploinsufficiency in humans. 🧵👇
www.biorxiv.org/content/10.1...
NIPBL dosage shapes genome folding by tuning the rate of cohesin loop extrusion
Cohesin loop extrusion is a major driver of chromosome folding, but how its dynamics are controlled to shape the genome remains elusive. Here we disentangle the contributions of the cohesin cofactors ...
www.biorxiv.org
August 16, 2025 at 3:03 AM
New preprint with @gfudenberg.bsky.social
We find the rate of cohesin loop extrusion in cells is set by NIPBL dosage and tunes many aspects of chromosome folding.
This provides a molecular basis for NIPBL haploinsufficiency in humans. 🧵👇
www.biorxiv.org/content/10.1...
We find the rate of cohesin loop extrusion in cells is set by NIPBL dosage and tunes many aspects of chromosome folding.
This provides a molecular basis for NIPBL haploinsufficiency in humans. 🧵👇
www.biorxiv.org/content/10.1...
Reposted by Irfan Kathiriya
Always fun collaborating on networks of cardiac development with Irfan, @benoitbruneau.bsky.social, and team!
good new this morning: manuscript accepted! Final form of this pubmed.ncbi.nlm.nih.gov/40894762/ coming soon to @dev-journal.bsky.social. Congratulations to everyone from @ucsanfrancisco.bsky.social @ucsfanesthesia.bsky.social @gladstoneinst.bsky.social, and Alex Clark in @jsauce7.bsky.social's lab.
Reduced TBX5 dosage undermines developmental control of atrial cardiomyocyte identity in a model of human atrial disease - PubMed
There is evidence for a shared genetic basis of atrial septal defects (ASDs) and atrial fibrillation (AF), but it remains unclear how genetic susceptibility leads to these distinct human atrial diseases. Here, we used directed differentiation of human induced pluripotent stem cell to ventricular or …
pubmed.ncbi.nlm.nih.gov
December 10, 2025 at 11:09 PM
Always fun collaborating on networks of cardiac development with Irfan, @benoitbruneau.bsky.social, and team!
Reposted by Irfan Kathiriya
January issue of @natcardiovascres.nature.com has our image on the cover! Also a research highlight on our paper @irfankathiriya.bsky.social @gladstoneinst.bsky.social @ucsfanesthesia.bsky.social www.nature.com/natcardiovas...
Nature Cardiovascular Research - TBX5 sets boundaries for a healthy heart
Kathiriya et al. identify a Tbx5 + /Mef2cAHF + cardiac progenitor lineage that demarcates the interventricular septum during development, and changes in this...
www.nature.com
January 16, 2026 at 4:31 PM
January issue of @natcardiovascres.nature.com has our image on the cover! Also a research highlight on our paper @irfankathiriya.bsky.social @gladstoneinst.bsky.social @ucsfanesthesia.bsky.social www.nature.com/natcardiovas...
Reposted by Irfan Kathiriya
Helping this mood is our latest now out in its final form! @irfankathiriya.bsky.social leading the teams with me. Thanks to the editors and reviewers (incl. @wythelab.bsky.social)for a pleasant and productive journey. More to come when the full issue is out. www.nature.com/articles/s44...
A disrupted compartment boundary underlies abnormal cardiac patterning and congenital heart defects - Nature Cardiovascular Research
Kathiriya et al. identify a cardiac progenitor lineage with expression of Tbx5 and anterior heart field-specific expression of Mef2c that bisects the intraventricular septum during development and sho...
www.nature.com
December 29, 2025 at 4:03 PM
Helping this mood is our latest now out in its final form! @irfankathiriya.bsky.social leading the teams with me. Thanks to the editors and reviewers (incl. @wythelab.bsky.social)for a pleasant and productive journey. More to come when the full issue is out. www.nature.com/articles/s44...
Reposted by Irfan Kathiriya
Here is a copy of last year's Twitter thread explaining our preprint - jump to (21) for the new stuff 👀
Synergy between cis-regulatory elements can render cohesin dispensable for distal enhancer function
now revised and journal accepted at www.science.org/doi/10.1126/...
🧵👇
Synergy between cis-regulatory elements can render cohesin dispensable for distal enhancer function
now revised and journal accepted at www.science.org/doi/10.1126/...
🧵👇
November 27, 2025 at 9:59 PM
Here is a copy of last year's Twitter thread explaining our preprint - jump to (21) for the new stuff 👀
Synergy between cis-regulatory elements can render cohesin dispensable for distal enhancer function
now revised and journal accepted at www.science.org/doi/10.1126/...
🧵👇
Synergy between cis-regulatory elements can render cohesin dispensable for distal enhancer function
now revised and journal accepted at www.science.org/doi/10.1126/...
🧵👇
Reposted by Irfan Kathiriya
truly amazing paper led by current postdoc Lisa Iwamoto-Stohl. "To our knowledge, this represents the first systematic evidence of proteomic asymmetry between sister blastomeres in the 2-cell mouse embryo." pubmed.ncbi.nlm.nih.gov/41344326/
Fertilization triggers early proteomic symmetry breaking in mammalian embryos - PubMed
While non-mammalian embryos often rely on spatial pre-patterning, mammalian development has long been thought to begin with equivalent blastomeres. However, emerging evidence challenges this. Here, using multiplexed and label-free single-cell proteomics, we identify over 300 asymmetrically abundant …
pubmed.ncbi.nlm.nih.gov
December 13, 2025 at 1:54 AM
truly amazing paper led by current postdoc Lisa Iwamoto-Stohl. "To our knowledge, this represents the first systematic evidence of proteomic asymmetry between sister blastomeres in the 2-cell mouse embryo." pubmed.ncbi.nlm.nih.gov/41344326/
Reposted by Irfan Kathiriya
Our 13th Annual Anesthesia Research Day featured a keynote address from Vivianne Tawfik, MD, PhD and presentations from our faculty and learners. There was also time to connect with colleagues while reviewing more than 45 poster presentations. More: anesthesia.ucsf.edu/ard25
#AnesthesiaResearch
#AnesthesiaResearch
December 16, 2025 at 10:18 PM
Our 13th Annual Anesthesia Research Day featured a keynote address from Vivianne Tawfik, MD, PhD and presentations from our faculty and learners. There was also time to connect with colleagues while reviewing more than 45 poster presentations. More: anesthesia.ucsf.edu/ard25
#AnesthesiaResearch
#AnesthesiaResearch
Reposted by Irfan Kathiriya
RESEARCH PAPER: MEF2C controls segment-specific gene regulatory networks that direct heart tube morphogenesis
By Muncie-Vasic et al. and Benoit Bruneau
➡️ https://genesdev.cshlp.org/content/39/23-24/1451.abstract
Jon Muncie-Vasic Benoit Bruneau
#transcriptionfactor #embryodevelopment #cardiactract
By Muncie-Vasic et al. and Benoit Bruneau
➡️ https://genesdev.cshlp.org/content/39/23-24/1451.abstract
Jon Muncie-Vasic Benoit Bruneau
#transcriptionfactor #embryodevelopment #cardiactract
December 8, 2025 at 7:00 PM
RESEARCH PAPER: MEF2C controls segment-specific gene regulatory networks that direct heart tube morphogenesis
By Muncie-Vasic et al. and Benoit Bruneau
➡️ https://genesdev.cshlp.org/content/39/23-24/1451.abstract
Jon Muncie-Vasic Benoit Bruneau
#transcriptionfactor #embryodevelopment #cardiactract
By Muncie-Vasic et al. and Benoit Bruneau
➡️ https://genesdev.cshlp.org/content/39/23-24/1451.abstract
Jon Muncie-Vasic Benoit Bruneau
#transcriptionfactor #embryodevelopment #cardiactract
Reposted by Irfan Kathiriya
Accepted ms on modeling human atrial disease posted @dev-journal.bsky.social just now. Congratulations to @irfankathiriya.bsky.social @jsauce7.bsky.social and team! @gladstoneinst.bsky.social @ucsfanesthesia.bsky.social journals.biologists.com/dev/article-...
Reduced TBX5 dosage undermines developmental control of atrial cardiomyocyte identity in a model of human atrial disease
While atrial septal defects (ASDs) and atrial fibrillation (AF) present differently, there is evidence that they share some genetic basis. Here, we used directed differentiation of human induced pluri...
journals.biologists.com
December 19, 2025 at 6:32 PM
Accepted ms on modeling human atrial disease posted @dev-journal.bsky.social just now. Congratulations to @irfankathiriya.bsky.social @jsauce7.bsky.social and team! @gladstoneinst.bsky.social @ucsfanesthesia.bsky.social journals.biologists.com/dev/article-...
Reposted by Irfan Kathiriya
📽 G&D Tapes 📽
G&D Author, Jon Muncie-Vasic tells us about their new study in #genesdev that defines the role of MEF2C in cardiac tract development.
Read the full story here:
➡️ https://genesdev.cshlp.org/content/39/23-24/1451.abstract
Jon Muncie-Vasic Benoit Bruneau Gladstone Institutes
G&D Author, Jon Muncie-Vasic tells us about their new study in #genesdev that defines the role of MEF2C in cardiac tract development.
Read the full story here:
➡️ https://genesdev.cshlp.org/content/39/23-24/1451.abstract
Jon Muncie-Vasic Benoit Bruneau Gladstone Institutes
December 19, 2025 at 6:02 PM
📽 G&D Tapes 📽
G&D Author, Jon Muncie-Vasic tells us about their new study in #genesdev that defines the role of MEF2C in cardiac tract development.
Read the full story here:
➡️ https://genesdev.cshlp.org/content/39/23-24/1451.abstract
Jon Muncie-Vasic Benoit Bruneau Gladstone Institutes
G&D Author, Jon Muncie-Vasic tells us about their new study in #genesdev that defines the role of MEF2C in cardiac tract development.
Read the full story here:
➡️ https://genesdev.cshlp.org/content/39/23-24/1451.abstract
Jon Muncie-Vasic Benoit Bruneau Gladstone Institutes