Laia Bassaganyas
@laiabb.bsky.social
Bioinformatics - Cancer Genomics - nanopore sequencing. CRCN CNRS at IGF Montpellier | Mentoring Master students at
UOC | Mum of two 🏔️📸
UOC | Mum of two 🏔️📸
Reposted by Laia Bassaganyas
My latest for @science.org: A remarkable set of high-resolution climate model runs, computed over 900 (!) days of supercomputing time, are revealing how warming-induced changes to Earth's wind patterns due can prime huge spikes in extreme rainfall.
But the MESACLIP runs also do much more than that.
But the MESACLIP runs also do much more than that.
High-resolution climate model forecasts a wet, turbulent future
With details as fine as short-term weather forecasts, model achieves newfound accuracy
www.science.org
November 18, 2025 at 2:35 PM
My latest for @science.org: A remarkable set of high-resolution climate model runs, computed over 900 (!) days of supercomputing time, are revealing how warming-induced changes to Earth's wind patterns due can prime huge spikes in extreme rainfall.
But the MESACLIP runs also do much more than that.
But the MESACLIP runs also do much more than that.
Reposted by Laia Bassaganyas
As a scientist, there are not many things more gratifying than to see my teams’ work directly involved in saving lives and @nanoporetech.com applied routinely in the clinic.
Big thanks to all the great team from Schneider Children’s Medical Center.
academic.oup.com/narcancer/ar...
Big thanks to all the great team from Schneider Children’s Medical Center.
academic.oup.com/narcancer/ar...
Brain tumor classification from FFPE samples using nanopore methylation sequencing
Abstract. Oxford Nanopore Technology (ONT)-based methylation sequencing is emerging as a powerful approach for the rapid and accurate classification of bra
academic.oup.com
November 11, 2025 at 3:35 PM
As a scientist, there are not many things more gratifying than to see my teams’ work directly involved in saving lives and @nanoporetech.com applied routinely in the clinic.
Big thanks to all the great team from Schneider Children’s Medical Center.
academic.oup.com/narcancer/ar...
Big thanks to all the great team from Schneider Children’s Medical Center.
academic.oup.com/narcancer/ar...
Reposted by Laia Bassaganyas
New @natgenet.nature.com paper from the brilliant @eszterlakatos.bsky.social presents evidence that chromatin alterations disrupt antigen presentation & neoantigens in colorectal cancer. Also that immune escape is part of the "Big Bang", at the outset of CRC growth. www.nature.com/articles/s41...
Epigenetically driven and early immune evasion in colorectal cancer evolution - Nature Genetics
This study nominates immune escape as an early event in colorectal cancer and shows how this can be driven through both genetic and epigenetic changes.
www.nature.com
November 5, 2025 at 4:36 PM
New @natgenet.nature.com paper from the brilliant @eszterlakatos.bsky.social presents evidence that chromatin alterations disrupt antigen presentation & neoantigens in colorectal cancer. Also that immune escape is part of the "Big Bang", at the outset of CRC growth. www.nature.com/articles/s41...
Reposted by Laia Bassaganyas
🧵1/17
📣Thrilled to share our latest study just out in Cancer Discovery!
➡️
aacrjournals.org/cancerdiscov...
📣Thrilled to share our latest study just out in Cancer Discovery!
➡️
aacrjournals.org/cancerdiscov...
A plastic EMP1⁺ to LGR5⁺ cell state conversion as a bypass to KRAS-G12D pharmacological inhibition in metastatic colorectal cancer
Abstract. Inhibitors of the oncogene KRAS hold promise for treating metastatic CRC (mCRC). Here we show that a selective, covalent small molecule inhibitor of the active (ON) conformation of RAS-G12D,...
aacrjournals.org
October 23, 2025 at 6:07 PM
🧵1/17
📣Thrilled to share our latest study just out in Cancer Discovery!
➡️
aacrjournals.org/cancerdiscov...
📣Thrilled to share our latest study just out in Cancer Discovery!
➡️
aacrjournals.org/cancerdiscov...
Reposted by Laia Bassaganyas
Good ideas come from having lots of experience. And experience comes from having lots of bad ideas.
August 25, 2025 at 3:00 AM
Good ideas come from having lots of experience. And experience comes from having lots of bad ideas.
Reposted by Laia Bassaganyas
🚨 New paper alert! 🚨 I’m thrilled and proud to share that our latest work has just been published in @science.org! 🎉 🧽
📖 Read our paper here: doi.org/10.1126/sci...
🎬 Watch a summary: youtu.be/MttCA3GGWEM
🧵 Or keep reading for the key points! 🔑 1/19
📖 Read our paper here: doi.org/10.1126/sci...
🎬 Watch a summary: youtu.be/MttCA3GGWEM
🧵 Or keep reading for the key points! 🔑 1/19
August 14, 2025 at 6:35 PM
🚨 New paper alert! 🚨 I’m thrilled and proud to share that our latest work has just been published in @science.org! 🎉 🧽
📖 Read our paper here: doi.org/10.1126/sci...
🎬 Watch a summary: youtu.be/MttCA3GGWEM
🧵 Or keep reading for the key points! 🔑 1/19
📖 Read our paper here: doi.org/10.1126/sci...
🎬 Watch a summary: youtu.be/MttCA3GGWEM
🧵 Or keep reading for the key points! 🔑 1/19
Reposted by Laia Bassaganyas
En el camino de Antonio Machado.
July 26, 2025 at 5:04 PM
En el camino de Antonio Machado.
Reposted by Laia Bassaganyas
Goldschmidt's hopeful monsters in cancer: single cell DNAseq shows whole genome doubling (WGD) is an ongoing and frequent mutational process in ovarian cancer. www.nature.com/articles/s41... beautiful work from @sohrabshah.bsky.social and team
Ongoing genome doubling shapes evolvability and immunity in ovarian cancer - Nature
A single-cell sequencing study using more than 30,000 tumour genomes from human ovarian cancers shows that whole-genome doubling is an ongoing mutational process that drives tumour evolution and disru...
www.nature.com
July 17, 2025 at 8:24 AM
Goldschmidt's hopeful monsters in cancer: single cell DNAseq shows whole genome doubling (WGD) is an ongoing and frequent mutational process in ovarian cancer. www.nature.com/articles/s41... beautiful work from @sohrabshah.bsky.social and team
Reposted by Laia Bassaganyas
Reposted by Laia Bassaganyas
Academia isn’t perfect, but it offers a rare space to pursue knowledge for its own sake. If research were fully privatized, only profit-driven questions would get asked. Yet many of the most transformative discoveries began as curiosity-driven inquiries whose value wasn’t clear for years.
April 20, 2025 at 10:29 PM
Academia isn’t perfect, but it offers a rare space to pursue knowledge for its own sake. If research were fully privatized, only profit-driven questions would get asked. Yet many of the most transformative discoveries began as curiosity-driven inquiries whose value wasn’t clear for years.
Reposted by Laia Bassaganyas
In #ScienceAdvances, a special issue on #WomensHealth highlights a growing wave of research focusing on women’s unique biological and psychological experiences.
Learn more on #WorldHealthDay: scim.ag/3R59fPe
Learn more on #WorldHealthDay: scim.ag/3R59fPe
April 7, 2025 at 6:56 PM
In #ScienceAdvances, a special issue on #WomensHealth highlights a growing wave of research focusing on women’s unique biological and psychological experiences.
Learn more on #WorldHealthDay: scim.ag/3R59fPe
Learn more on #WorldHealthDay: scim.ag/3R59fPe
Reposted by Laia Bassaganyas
A new #ScienceImmunology Review suggests that genomic changes in cancer cells can shape antitumor immune cells and facilitate immunogenomic cancer evolution, which could inform future strategies for precision medicine. scim.ag/3FS4PZP
Immunogenomic cancer evolution: A framework to understand cancer immunosuppression
Understanding the impacts of genetic abnormalities on immune responses to tumors can inform immunogenomic-based precision medicine.
scim.ag
April 2, 2025 at 6:13 PM
A new #ScienceImmunology Review suggests that genomic changes in cancer cells can shape antitumor immune cells and facilitate immunogenomic cancer evolution, which could inform future strategies for precision medicine. scim.ag/3FS4PZP
Reposted by Laia Bassaganyas
Provocative but important commentary from Sui Huang & co
Argues we need to change the paradigm of cancer origin from a somatic mutation theory to one grounded in gene regulatory networks & tissue organisation: a system level rather purely genetic mechanism
journals.plos.org/plosbiology/...
Argues we need to change the paradigm of cancer origin from a somatic mutation theory to one grounded in gene regulatory networks & tissue organisation: a system level rather purely genetic mechanism
journals.plos.org/plosbiology/...
The end of the genetic paradigm of cancer
Genome sequencing results and single-cell transcriptomics continue to produce findings that challenge the idea that cancer is purely a ‘genetic disease’. This Essay delves into cancer omics data that ...
journals.plos.org
March 19, 2025 at 8:52 AM
Provocative but important commentary from Sui Huang & co
Argues we need to change the paradigm of cancer origin from a somatic mutation theory to one grounded in gene regulatory networks & tissue organisation: a system level rather purely genetic mechanism
journals.plos.org/plosbiology/...
Argues we need to change the paradigm of cancer origin from a somatic mutation theory to one grounded in gene regulatory networks & tissue organisation: a system level rather purely genetic mechanism
journals.plos.org/plosbiology/...
Reposted by Laia Bassaganyas
"Cancer affects everyone, but the burden of cancer isn’t distributed evenly across the popn[...]
income and education, play a particularly large role in driving cancer inequalities.
New report illustrates the scale of the problem" 👇
@cruk-mi.bsky.social @mcrcnews.bsky.social @holmepaul.bsky.social
income and education, play a particularly large role in driving cancer inequalities.
New report illustrates the scale of the problem" 👇
@cruk-mi.bsky.social @mcrcnews.bsky.social @holmepaul.bsky.social
New report showing the burden of cancer is not distributed evenly across the population and the huge disparities in cancer care, with people living in deprived areas more likely to be diagnosed late and offered less effective treatments news.cancerresearchuk.org/2025/02/21/c...
Cancer death rates almost 60% higher in UK’s most deprived areas - Cancer Research UK - Cancer News
Our new report, shows that cancer death rates are nearly 60% higher for people living in the most deprived areas of the UK
news.cancerresearchuk.org
February 21, 2025 at 9:53 AM
"Cancer affects everyone, but the burden of cancer isn’t distributed evenly across the popn[...]
income and education, play a particularly large role in driving cancer inequalities.
New report illustrates the scale of the problem" 👇
@cruk-mi.bsky.social @mcrcnews.bsky.social @holmepaul.bsky.social
income and education, play a particularly large role in driving cancer inequalities.
New report illustrates the scale of the problem" 👇
@cruk-mi.bsky.social @mcrcnews.bsky.social @holmepaul.bsky.social
Reposted by Laia Bassaganyas
Today our study using copy number alterations (CNAs) from low-coverage WGS to predict FUTURE colorectal cancer in patients with IBD is published, details in thread! 1/5
gut.bmj.com/content/earl...
gut.bmj.com/content/earl...
Low-coverage whole genome sequencing of low-grade dysplasia strongly predicts advanced neoplasia risk in ulcerative colitis
Background The risk of developing advanced neoplasia (AN; colorectal cancer and/or high-grade dysplasia) in ulcerative colitis (UC) patients with a low-grade dysplasia (LGD) lesion is variable and dif...
gut.bmj.com
January 30, 2025 at 3:56 PM
Today our study using copy number alterations (CNAs) from low-coverage WGS to predict FUTURE colorectal cancer in patients with IBD is published, details in thread! 1/5
gut.bmj.com/content/earl...
gut.bmj.com/content/earl...
Reposted by Laia Bassaganyas
Delighted our work using aneuploidy as a biomarker of colorectal cancer risk in inflammatory bowel disease is out: gut.bmj.com/content/earl...
The initial reaction from patients&families has been overwhelming
Led by Ibrahim AlBakir @yosoykit.bsky.social @cancerresearchuk.org @icrlondon.bsky.social
The initial reaction from patients&families has been overwhelming
Led by Ibrahim AlBakir @yosoykit.bsky.social @cancerresearchuk.org @icrlondon.bsky.social
Low-coverage whole genome sequencing of low-grade dysplasia strongly predicts advanced neoplasia risk in ulcerative colitis
Background The risk of developing advanced neoplasia (AN; colorectal cancer and/or high-grade dysplasia) in ulcerative colitis (UC) patients with a low-grade dysplasia (LGD) lesion is variable and dif...
gut.bmj.com
January 30, 2025 at 12:51 PM
Delighted our work using aneuploidy as a biomarker of colorectal cancer risk in inflammatory bowel disease is out: gut.bmj.com/content/earl...
The initial reaction from patients&families has been overwhelming
Led by Ibrahim AlBakir @yosoykit.bsky.social @cancerresearchuk.org @icrlondon.bsky.social
The initial reaction from patients&families has been overwhelming
Led by Ibrahim AlBakir @yosoykit.bsky.social @cancerresearchuk.org @icrlondon.bsky.social
Reposted by Laia Bassaganyas
Osteosarcoma, an aggressive bone cancer, most commonly affects children and young adults.
New research solves the mystery of what drives the genomic rearrangements causing the aggressive development and evolution of osteosarcoma tumours.
www.ebi.ac.uk/about/news/r...
🧪
New research solves the mystery of what drives the genomic rearrangements causing the aggressive development and evolution of osteosarcoma tumours.
www.ebi.ac.uk/about/news/r...
🧪
Researchers uncover what drives aggressive bone cancer
Study identifies a novel mechanism driving osteosarcoma and provides insights to help predict patient outcomes.
www.ebi.ac.uk
January 14, 2025 at 4:13 PM
Osteosarcoma, an aggressive bone cancer, most commonly affects children and young adults.
New research solves the mystery of what drives the genomic rearrangements causing the aggressive development and evolution of osteosarcoma tumours.
www.ebi.ac.uk/about/news/r...
🧪
New research solves the mystery of what drives the genomic rearrangements causing the aggressive development and evolution of osteosarcoma tumours.
www.ebi.ac.uk/about/news/r...
🧪
Reposted by Laia Bassaganyas
Want to know how inherited genome instability contributes to childhood cancers? Checkout this perspective from Jayne Hehir-Kwa and me www.science.org/doi/10.1126/... on the latest brilliant work from @vanallenlab.bsky.social www.science.org/doi/10.1126/... on rare germline SVs in paediatric cancers
Inherited genome instability
Germline structural variants are a risk factor for pediatric extracranial solid tumors
www.science.org
January 3, 2025 at 9:57 AM
Want to know how inherited genome instability contributes to childhood cancers? Checkout this perspective from Jayne Hehir-Kwa and me www.science.org/doi/10.1126/... on the latest brilliant work from @vanallenlab.bsky.social www.science.org/doi/10.1126/... on rare germline SVs in paediatric cancers
Reposted by Laia Bassaganyas
The concept of peer review is correct, but the execution is flawed and creating a broken system: Not enough well compensated editors, each under-experienced and overloaded. They lack the time and training to decide which papers to send out to review and which wasteful reviewer requests to overide
My peer review of peer review:
1. "Community standards" typically devolve rapidly into stock critiques.
2. I don't think it's a "dialog" when one participant has a gun to the other's head.
3. The cost of wasted time due to silly revision experiments is very high and not a good use of research $$.
1. "Community standards" typically devolve rapidly into stock critiques.
2. I don't think it's a "dialog" when one participant has a gun to the other's head.
3. The cost of wasted time due to silly revision experiments is very high and not a good use of research $$.
I wrote some thoughts about why peer review matters
It shapes scientific standards, maintains field coherence & trains new researchers
Yes, it needs improvement—but it's the glue that holds scientific progress together
briscoelab.org/2024/12/11/i...
It shapes scientific standards, maintains field coherence & trains new researchers
Yes, it needs improvement—but it's the glue that holds scientific progress together
briscoelab.org/2024/12/11/i...
December 12, 2024 at 11:55 AM
The concept of peer review is correct, but the execution is flawed and creating a broken system: Not enough well compensated editors, each under-experienced and overloaded. They lack the time and training to decide which papers to send out to review and which wasteful reviewer requests to overide
Reposted by Laia Bassaganyas
"Embracing curiosity means remaining open to new ideas and approaches, no matter how unconventional they may seem" #KeepResearchCurious ✨
EACR member Mounia Benbelkacem writes about the value of maintaining curiosity in your cancer research journey:
magazine.eacr.org/keeping-rese...
EACR member Mounia Benbelkacem writes about the value of maintaining curiosity in your cancer research journey:
magazine.eacr.org/keeping-rese...
Keeping Research Curious: The Fuel for Breakthroughs in Cancer Research - The Cancer Researcher
EACR member Mounia Benbelkacem writes about curiosity's role in cancer research.
magazine.eacr.org
December 11, 2024 at 10:26 AM
"Embracing curiosity means remaining open to new ideas and approaches, no matter how unconventional they may seem" #KeepResearchCurious ✨
EACR member Mounia Benbelkacem writes about the value of maintaining curiosity in your cancer research journey:
magazine.eacr.org/keeping-rese...
EACR member Mounia Benbelkacem writes about the value of maintaining curiosity in your cancer research journey:
magazine.eacr.org/keeping-rese...
Can processes occurring in one individuals nervous system influence the physiology of the descendants?
Cool work 👇🏼
Cool work 👇🏼
Scared to share this after 10 freaking years of waiting, but here we go: We found that temperature *perception* can change the biology of the next generations, even when “it’s just in the parents' head”. Read how C. elegans neurons control epigenetic inheritance!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Perception of Temperature Even in the Absence of Actual Change is Sufficient to Drive Transgenerational Epigenetic Inheritance
Can processes occurring in one individuals nervous system influence the physiology of the descendants? Here we explored the provocative hypothesis that parents sensation or perception of environmental...
www.biorxiv.org
December 6, 2024 at 7:26 AM
Can processes occurring in one individuals nervous system influence the physiology of the descendants?
Cool work 👇🏼
Cool work 👇🏼
Reposted by Laia Bassaganyas
Excited to share our perspective on genetic immune escape alterations and their impact on tumor evolution, metastasis, immunotherapy, and interactions with tumor-extrinsic factors. It was a pleasure collaborating with Diego on this -hope you enjoy the read!☺️
www.sciencedirect.com/science/arti...
www.sciencedirect.com/science/arti...
Genetic immune escape in cancer: timing and implications for treatment
Genetic immune escape (GIE) alterations pose a significant challenge in cancer by enabling tumors to evade immune detection. These alterations, which …
www.sciencedirect.com
December 4, 2024 at 3:45 PM
Excited to share our perspective on genetic immune escape alterations and their impact on tumor evolution, metastasis, immunotherapy, and interactions with tumor-extrinsic factors. It was a pleasure collaborating with Diego on this -hope you enjoy the read!☺️
www.sciencedirect.com/science/arti...
www.sciencedirect.com/science/arti...
Reposted by Laia Bassaganyas
Cancer-induced systemic pre-conditioning of distant organs: building a niche for metastatic cells
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Cancer-induced systemic pre-conditioning of distant organs: building a niche for metastatic cells - Nature Reviews Cancer
In this Review, Rabas et al. describe the mechanisms by which primary tumours precondition distal organs to favour metastatic colonization — a limiting step of metastasis — and dis...
www.nature.com
November 24, 2024 at 12:21 PM
Cancer-induced systemic pre-conditioning of distant organs: building a niche for metastatic cells
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Laia Bassaganyas
This is a great post from @gangfang.bsky.social on the use of Oxford Nanopore (or PacBio) technologies for DNA modification detection.
The conclusions are that Oxford Nanopore works well for 5mC in most mammalian tissues where it is expected to be the majority modification in CpG context, but
The conclusions are that Oxford Nanopore works well for 5mC in most mammalian tissues where it is expected to be the majority modification in CpG context, but
(1st post @BlueSky) Preprint alert🚨a long thread. Cautions in the use of @nanopore sequencing to map DNA modifications: officially reported “accuracy” ≠ reliable mapping in real applications. We performed a critical assessment of nanopore sequencing (across different versions of models) for the 1/n
November 20, 2024 at 1:10 PM
This is a great post from @gangfang.bsky.social on the use of Oxford Nanopore (or PacBio) technologies for DNA modification detection.
The conclusions are that Oxford Nanopore works well for 5mC in most mammalian tissues where it is expected to be the majority modification in CpG context, but
The conclusions are that Oxford Nanopore works well for 5mC in most mammalian tissues where it is expected to be the majority modification in CpG context, but
Reposted by Laia Bassaganyas
Cancer cell states: Lessons from ten years of single-cell RNA-sequencing of human tumors.
Itay Tirosh & Mario L. Suva
www.sciencedirect.com/science/arti...
Itay Tirosh & Mario L. Suva
www.sciencedirect.com/science/arti...
Cancer cell states: Lessons from ten years of single-cell RNA-sequencing of human tumors
Human tumors are intricate ecosystems composed of diverse genetic clones and malignant cell states that evolve in a complex tumor micro-environment. S…
www.sciencedirect.com
November 17, 2024 at 5:00 PM
Cancer cell states: Lessons from ten years of single-cell RNA-sequencing of human tumors.
Itay Tirosh & Mario L. Suva
www.sciencedirect.com/science/arti...
Itay Tirosh & Mario L. Suva
www.sciencedirect.com/science/arti...