Colm Ryan
@colmr.bsky.social
Systems biology | Bioinformatics | Cancer | Genetic interactions
https://cancerdata.ucd.ie/
(he / him)
https://cancerdata.ucd.ie/
(he / him)
Reposted by Colm Ryan
Last chance to register. Hurry Up!
🧬 Excited to announce the 2nd Euro Cancer DepMap Symposium bringing together leading minds in functional genomics, cancer vulnerabilities, AI, CRISPR and anti-cancer target discovery.📍Join us in Milan for cutting-edge science, open discussion & collaboration. #EuroDepMap #CancerResearch #CRISPR
November 3, 2025 at 1:50 PM
Last chance to register. Hurry Up!
Reposted by Colm Ryan
Anyone with a lower h-index than me is ineffectual, while anyone with a higher h-index is just better at playing the game and cutting corners. I'm sorry, that's just how numbers work!
I am completely against the use of citation metrics to evaluate scientists. But if your h-index is less than mine, you kinda have do what I say. I don't make the rules.
October 24, 2025 at 8:23 AM
Anyone with a lower h-index than me is ineffectual, while anyone with a higher h-index is just better at playing the game and cutting corners. I'm sorry, that's just how numbers work!
Reposted by Colm Ryan
🧵1/Exciting news in cancer epigenetics! Our latest research, "AEBP2-Directed H3K27me2 Defines a Specific Vulnerability in EZH2-mutant Lymphoma", is now available on www.biorxiv.org/content/10.1.... Here's a thread summarizing our findings!👇
#CancerResearch #Epigenetics #Chromatin #Lymphoma
#CancerResearch #Epigenetics #Chromatin #Lymphoma
AEBP2-Directed H3K27me2 Defines a Specific Vulnerability in EZH2-mutant Lymphoma
The catalytic subunit of Polycomb Repressive Complex 2 (PRC2), EZH2, is recurrently mutated in 25% of diffuse large B-cell lymphomas (DLBCL), causing increased H3K27me3 and decreased H3K27me2 levels. ...
www.biorxiv.org
October 17, 2025 at 7:11 AM
🧵1/Exciting news in cancer epigenetics! Our latest research, "AEBP2-Directed H3K27me2 Defines a Specific Vulnerability in EZH2-mutant Lymphoma", is now available on www.biorxiv.org/content/10.1.... Here's a thread summarizing our findings!👇
#CancerResearch #Epigenetics #Chromatin #Lymphoma
#CancerResearch #Epigenetics #Chromatin #Lymphoma
Reposted by Colm Ryan
Biology is much more complicated than most non-biologists can imagine. And AI is not going to change this anytime soon.
blog.genesmindsmachines.com/p/we-still-c...
blog.genesmindsmachines.com/p/we-still-c...
We still can’t predict much of anything in biology
Biology is hard. Yes, even for AI.
blog.genesmindsmachines.com
October 7, 2025 at 4:11 PM
Biology is much more complicated than most non-biologists can imagine. And AI is not going to change this anytime soon.
blog.genesmindsmachines.com/p/we-still-c...
blog.genesmindsmachines.com/p/we-still-c...
Hamda's paper is out: benchmarking different genetic interaction scoring methods for identifying synthetic lethal interactions from combinatorial CRISPR screens.
academic.oup.com/nargab/artic...
academic.oup.com/nargab/artic...
Benchmarking genetic interaction scoring methods for identifying synthetic lethality from combinatorial CRISPR screens
Abstract. Synthetic lethality (SL) is an extreme form of negative genetic interaction, where simultaneous disruption of two non-essential genes causes cell
academic.oup.com
September 29, 2025 at 4:11 PM
Hamda's paper is out: benchmarking different genetic interaction scoring methods for identifying synthetic lethal interactions from combinatorial CRISPR screens.
academic.oup.com/nargab/artic...
academic.oup.com/nargab/artic...
Enjoyed writing this review of synthetic lethality in drug discovery with @emanuelvgo.bsky.social and @davidjadams.bsky.social rdcu.be/eFBmw
Synthetic lethality in cancer drug discovery: challenges and opportunities
Nature Reviews Drug Discovery - This Review outlines recent advances in synthetic lethality, from CRISPR-based discovery and machine learning-guided prioritization of gene pairs to new phenotypic...
rdcu.be
September 24, 2025 at 2:54 PM
Enjoyed writing this review of synthetic lethality in drug discovery with @emanuelvgo.bsky.social and @davidjadams.bsky.social rdcu.be/eFBmw
Reposted by Colm Ryan
We're hiring ! Specifically....we are seeking to appoint a creative and motivated Postdoctoral Training Fellow to study how drug resistance emerges in homologous recombination defective (HRD) breast cancers and how this could be targeted. jobs.icr.ac.uk/vacancies/13...
PDTF - Homologous Recombination Defective Cancers ( Profs Chris Lord and Andrew Tutt) in Chelsea | The Institute of Cancer Research
View details and apply for this PDTF - Homologous Recombination Defective Cancers ( Profs Chris Lord and Andrew Tutt) vacancy in Chelsea .
Salary: Dependent on relevant Postdoctoral exp...
jobs.icr.ac.uk
September 19, 2025 at 7:38 AM
We're hiring ! Specifically....we are seeking to appoint a creative and motivated Postdoctoral Training Fellow to study how drug resistance emerges in homologous recombination defective (HRD) breast cancers and how this could be targeted. jobs.icr.ac.uk/vacancies/13...
Reposted by Colm Ryan
📢 The 2nd European Cancer Dependency Map Symposium is coming!
🗓️ 20 Nov 2025
📍 Human Technopole, Milan
Join us for a one-day dive into:
🔹 Cancer genomics
🔹 CRISPR screening
🔹 AI-driven target discovery
With the patronage of AIRC
🔗 humantechnopole.it/en/trainings...
🗓️ 20 Nov 2025
📍 Human Technopole, Milan
Join us for a one-day dive into:
🔹 Cancer genomics
🔹 CRISPR screening
🔹 AI-driven target discovery
With the patronage of AIRC
🔗 humantechnopole.it/en/trainings...
2nd European Cancer Dependency Map Symposium - Human Technopole
The 2nd European Cancer Dependency Map Symposium is a scientific event open to the national and international scientific community working in computational genomics, pharmacogenomics, and therapeutic ...
humantechnopole.it
September 17, 2025 at 10:05 AM
📢 The 2nd European Cancer Dependency Map Symposium is coming!
🗓️ 20 Nov 2025
📍 Human Technopole, Milan
Join us for a one-day dive into:
🔹 Cancer genomics
🔹 CRISPR screening
🔹 AI-driven target discovery
With the patronage of AIRC
🔗 humantechnopole.it/en/trainings...
🗓️ 20 Nov 2025
📍 Human Technopole, Milan
Join us for a one-day dive into:
🔹 Cancer genomics
🔹 CRISPR screening
🔹 AI-driven target discovery
With the patronage of AIRC
🔗 humantechnopole.it/en/trainings...
Reposted by Colm Ryan
Join Us! @ioriolab.bsky.social
🚨 We’re hiring! 🚨 looking for a computational postdoc to lead an exciting project at the intersection of AI, CRISPR, multi-omics, and cancer genomics.
Join us to design the next generation of genetic interaction screens and uncover new synthetic lethalities
www.linkedin.com/jobs/view/42...
Join us to design the next generation of genetic interaction screens and uncover new synthetic lethalities
www.linkedin.com/jobs/view/42...
Human Technopole hiring Postdoc in Cancer Synthetic Lethality Prediction and AI-Driven Target Discovery in Milan, Lombardy, Italy | LinkedIn
Posted 2:37:53 PM. APPLICATION CLOSING DATE: October 12, 2025Human Technopole (HT) is an interdisciplinary life…See this and similar jobs on LinkedIn.
www.linkedin.com
September 11, 2025 at 4:31 PM
Join Us! @ioriolab.bsky.social
Reposted by Colm Ryan
Pleased that the 2nd part of my PhD is now available as a preprint! Here, we investigated the epigenomic and transcriptomic changes occurring upon PRC2 depletion in AML cells. biorxiv.org/content/10.1.... A thread🧵1/17
Diverse epigenomic mechanisms underpin transcriptional dysregulation in Polycomb-altered acute myeloid leukemia
Background Polycomb Repressive Complex 2 (PRC2) modulates chromatin accessibility and architecture to direct tissue-specific gene expression. PRC2 function is frequently altered in cancer by loss-of-f...
biorxiv.org
September 9, 2025 at 1:30 PM
Pleased that the 2nd part of my PhD is now available as a preprint! Here, we investigated the epigenomic and transcriptomic changes occurring upon PRC2 depletion in AML cells. biorxiv.org/content/10.1.... A thread🧵1/17
Reposted by Colm Ryan
Doomscrolling pause to chat CRISPR libraries! Preprint describes our new, data-driven approach to combine on-target and off-target predictions much more intelligently for *selecting* guides, which we use to develop our newest Cas9 knockout library, Jacquere. Thread: www.biorxiv.org/content/10.1...
Balancing off-target and on-target considerations for optimized Cas9 CRISPR knockout library design
The continued development of high-dimensional CRISPR screen readouts, such as single-cell RNA sequencing and high-content imaging, necessitates compact libraries to enable functional interrogation at ...
www.biorxiv.org
September 7, 2025 at 5:02 PM
Doomscrolling pause to chat CRISPR libraries! Preprint describes our new, data-driven approach to combine on-target and off-target predictions much more intelligently for *selecting* guides, which we use to develop our newest Cas9 knockout library, Jacquere. Thread: www.biorxiv.org/content/10.1...
just a month to go until the International Conference on Systems Biology #ICSB2025 kicks off in Dublin, still time to submit a poster abstract!
📢We've extended our poster abstract deadline to Sept 22 to accommodate anyone returning to campus who would still like to submit & attend #ICSB2025! Please spread the word!
Submit your poster abstract here: icsb2025.com
#personalisedmedicine #computationalmodelling
@precisiononcire.bsky.social
Submit your poster abstract here: icsb2025.com
#personalisedmedicine #computationalmodelling
@precisiononcire.bsky.social
September 5, 2025 at 1:23 PM
just a month to go until the International Conference on Systems Biology #ICSB2025 kicks off in Dublin, still time to submit a poster abstract!
new from @cosmintudose.bsky.social What happens when tumor suppresor EZH2 is mutated in acute myeloid leukaemia? How does it change transcription, chromatin accessibility & drug response? The Bond lab created CRISPR mutants to find out & Cosmin put it all together www.biorxiv.org/content/10.1...
Diverse epigenomic mechanisms underpin transcriptional dysregulation in Polycomb-altered acute myeloid leukemia
Background Polycomb Repressive Complex 2 (PRC2) modulates chromatin accessibility and architecture to direct tissue-specific gene expression. PRC2 function is frequently altered in cancer by loss-of-f...
www.biorxiv.org
September 5, 2025 at 8:50 AM
new from @cosmintudose.bsky.social What happens when tumor suppresor EZH2 is mutated in acute myeloid leukaemia? How does it change transcription, chromatin accessibility & drug response? The Bond lab created CRISPR mutants to find out & Cosmin put it all together www.biorxiv.org/content/10.1...
Reposted by Colm Ryan
Article by Pádraig Cunningham and Barry Smyth in Communications of the @acm.org analyses the differences in quality and practices of new Open Access and traditional Computer Science journals. bit.ly/41KKQ7s
September 3, 2025 at 11:53 AM
Article by Pádraig Cunningham and Barry Smyth in Communications of the @acm.org analyses the differences in quality and practices of new Open Access and traditional Computer Science journals. bit.ly/41KKQ7s
Reposted by Colm Ryan
Delighted that our work on EZH2 dominant negativity in Weaver syndrome is now out in Genes & Development!
This exciting work on chromatinopathies 🧬 was in collab with @adrianbracken.bsky.social and spearheaded by Orla Deevy.
@ucddublin.bsky.social @ucd-sbbs.bsky.social
www.ucd.ie/newsandopini...
This exciting work on chromatinopathies 🧬 was in collab with @adrianbracken.bsky.social and spearheaded by Orla Deevy.
@ucddublin.bsky.social @ucd-sbbs.bsky.social
www.ucd.ie/newsandopini...
UCD co-lead breakthrough discovering genetic mechanism driving Weaver syndrome
www.ucd.ie
August 27, 2025 at 11:15 AM
Delighted that our work on EZH2 dominant negativity in Weaver syndrome is now out in Genes & Development!
This exciting work on chromatinopathies 🧬 was in collab with @adrianbracken.bsky.social and spearheaded by Orla Deevy.
@ucddublin.bsky.social @ucd-sbbs.bsky.social
www.ucd.ie/newsandopini...
This exciting work on chromatinopathies 🧬 was in collab with @adrianbracken.bsky.social and spearheaded by Orla Deevy.
@ucddublin.bsky.social @ucd-sbbs.bsky.social
www.ucd.ie/newsandopini...
Reposted by Colm Ryan
Final year PhD students, I know you’re desperately trying to finish experiments/revisions/submissions/write a thesis & just survive - but please spare a few minutes to apply to your dream postdoc labs.
It easily takes A YEAR from first contact, even if everything goes to plan on both sides.
It easily takes A YEAR from first contact, even if everything goes to plan on both sides.
August 27, 2025 at 9:35 AM
Final year PhD students, I know you’re desperately trying to finish experiments/revisions/submissions/write a thesis & just survive - but please spare a few minutes to apply to your dream postdoc labs.
It easily takes A YEAR from first contact, even if everything goes to plan on both sides.
It easily takes A YEAR from first contact, even if everything goes to plan on both sides.
Monumental effort from @maxbillmann.bsky.social and colleagues, quantifying genetic interactions among 4 million human gene pairs. Lots of features associated with genetic interaction & GI degree conserved from yeast. www.biorxiv.org/content/10.1...
A global genetic interaction map of a human cell reveals conserved principles of genetic networks
We generated a genome-scale, genetic interaction network from the analysis of more than 4 million double mutants in the haploid human cell line, HAP1. The network maps ∼90,000 genetic interactions, in...
www.biorxiv.org
August 20, 2025 at 11:00 AM
Monumental effort from @maxbillmann.bsky.social and colleagues, quantifying genetic interactions among 4 million human gene pairs. Lots of features associated with genetic interaction & GI degree conserved from yeast. www.biorxiv.org/content/10.1...
Reposted by Colm Ryan
With super Roman Chabanon and Sophie Postal Vinay, we show that inhibition of RNA editor ADAR1 causes a new form of BRCA synthetic lethality>autocrine inferferon poisoning. Relevant for ADAR1 drug discovery. Could provide a mechanistically different approach than PARPi. rdcu.be/eyo6t
Autocrine interferon poisoning mediates ADAR1-dependent synthetic lethality in BRCA1/2-mutant cancers
Nature Communications - The RNA editing enzyme ADAR1 blocks interferon responses triggered by cytosolic RNA sensors, and has been proposed as a potential target in immuno-oncology. Here, the...
rdcu.be
July 30, 2025 at 8:29 AM
With super Roman Chabanon and Sophie Postal Vinay, we show that inhibition of RNA editor ADAR1 causes a new form of BRCA synthetic lethality>autocrine inferferon poisoning. Relevant for ADAR1 drug discovery. Could provide a mechanistically different approach than PARPi. rdcu.be/eyo6t
Reposted by Colm Ryan
This is one of those awesome "I always wanted to do that experiment" papers. And a great 🧵.
To better treat cancer, we need to understand its underlying biology. Despite decades of research, some fundamental questions remain unanswered. One is why certain key tumor suppressor or oncogenes lead to cancer predominantly in single tissue: e.g. Rb in the retina, or APC in the colon 1/n 🧪
July 27, 2025 at 1:04 AM
This is one of those awesome "I always wanted to do that experiment" papers. And a great 🧵.
when an Irish funding agency launches a new grant call in July with a deadline in August it's hard to feel that researcher well-being is one of their priorities...
July 29, 2025 at 9:51 AM
when an Irish funding agency launches a new grant call in July with a deadline in August it's hard to feel that researcher well-being is one of their priorities...
Reposted by Colm Ryan
The final day of #ICSB2025 on Thurs, Oct 9, will finish with 3 more outstanding breakout sessions.
✨Clinical Decision Support Tools
✨Evolution & Development
✨AI/ML Approaches in Systems Biology
For more info: bit.ly/4mPNfGQ
@ucddublin.bsky.social @ucd-chas.bsky.social @precisiononcire.bsky.social
✨Clinical Decision Support Tools
✨Evolution & Development
✨AI/ML Approaches in Systems Biology
For more info: bit.ly/4mPNfGQ
@ucddublin.bsky.social @ucd-chas.bsky.social @precisiononcire.bsky.social
July 28, 2025 at 10:00 AM
The final day of #ICSB2025 on Thurs, Oct 9, will finish with 3 more outstanding breakout sessions.
✨Clinical Decision Support Tools
✨Evolution & Development
✨AI/ML Approaches in Systems Biology
For more info: bit.ly/4mPNfGQ
@ucddublin.bsky.social @ucd-chas.bsky.social @precisiononcire.bsky.social
✨Clinical Decision Support Tools
✨Evolution & Development
✨AI/ML Approaches in Systems Biology
For more info: bit.ly/4mPNfGQ
@ucddublin.bsky.social @ucd-chas.bsky.social @precisiononcire.bsky.social
Reposted by Colm Ryan
Unexpectedly, @jurgjn.bsky.social found that running Alphafold3 predictions for protein interactions can yield ipTM scores that are more predictive of true interactions when run in pools of proteins instead of pairwise predictions. Presumably, this reflects some sort of "competition effect".
July 22, 2025 at 2:13 PM
Unexpectedly, @jurgjn.bsky.social found that running Alphafold3 predictions for protein interactions can yield ipTM scores that are more predictive of true interactions when run in pools of proteins instead of pairwise predictions. Presumably, this reflects some sort of "competition effect".
School of Medicine @ucddublin.bsky.social are interested in expressions of interest. Note that the deadline is relatively tight – 28th August
Interested in moving your research to Ireland? Research Ireland have just launched a new call to recruit mid-career (5-15 year post PhD) and established researchers (>15 years post PhD).
Research Ireland, on behalf of @deptoffhed.bsky.social, have today launched Global Talent Ireland - a new initiative to attract exceptional mid-career and established researchers from across the globe to Ireland.
For more information visit:
www.researchireland.ie/funding/glob...
For more information visit:
www.researchireland.ie/funding/glob...
July 22, 2025 at 2:49 PM
School of Medicine @ucddublin.bsky.social are interested in expressions of interest. Note that the deadline is relatively tight – 28th August
Interested in moving your research to Ireland? Research Ireland have just launched a new call to recruit mid-career (5-15 year post PhD) and established researchers (>15 years post PhD).
Research Ireland, on behalf of @deptoffhed.bsky.social, have today launched Global Talent Ireland - a new initiative to attract exceptional mid-career and established researchers from across the globe to Ireland.
For more information visit:
www.researchireland.ie/funding/glob...
For more information visit:
www.researchireland.ie/funding/glob...
Global Talent Ireland - Research Ireland
Global Talent Ireland aims to attract exceptional mid-career and established researchers from across the globe to Ireland. Researchers funded through this programme are required to transfer their rese...
www.researchireland.ie
July 21, 2025 at 12:51 PM
Interested in moving your research to Ireland? Research Ireland have just launched a new call to recruit mid-career (5-15 year post PhD) and established researchers (>15 years post PhD).
Great to have an additional social option for #ICSB2025 – a walking tour of Dublin. It's a small city centre, so walking is the easiest way to see it! icsb2025.com/social-progr... #systemsbiology
Social Programme - ICSB 2025 | Dublin Royal Convention Centre | 5-9 October
Break away from the buzz of the conference and join us for an unforgettable social programme
icsb2025.com
July 17, 2025 at 10:23 AM
Great to have an additional social option for #ICSB2025 – a walking tour of Dublin. It's a small city centre, so walking is the easiest way to see it! icsb2025.com/social-progr... #systemsbiology