Tom Watkins
@tbkwatkins.bsky.social
PGY1 @StanfordPath Physician Scientist Incubator Track | Postdoc
@mischellab | visiting scientist @SwantonLab | @UCL_MBPhD alum | @ForbeckForums scholar
@mischellab | visiting scientist @SwantonLab | @UCL_MBPhD alum | @ForbeckForums scholar
Reposted by Tom Watkins
New online! Integrating model systems and genomic insights to decipher mechanisms of cancer metastasis
Integrating model systems and genomic insights to decipher mechanisms of cancer metastasis
Nature Reviews Genetics, Published online: 10 March 2025; doi:10.1038/s41576-025-00825-2This Review explores how experimental models of metastasis, such as mouse models and cell cultures, can complement the (multi)omics analysis of human metastasis…
www.nature.com
March 10, 2025 at 11:29 AM
New online! Integrating model systems and genomic insights to decipher mechanisms of cancer metastasis
Reposted by Tom Watkins
🚀 Our paper introducing ImmuneLENS, a new tool that measures T and B cell fractions from WGS data. This builds on our previous method, T cell ExTRECT, that used a signal from V(D)J recombination to measure T cells.
Out today in @naturegenet.bsky.social :
doi.org/10.1038/s41588-025-02086-5
🧵👇
Out today in @naturegenet.bsky.social :
doi.org/10.1038/s41588-025-02086-5
🧵👇
ImmuneLENS characterizes systemic immune dysregulation in aging and cancer - Nature Genetics
Immune lymphocyte estimation from nucleotide sequencing (ImmuneLENS) infers B cell and T cell fractions from whole-genome sequencing data. Applied to the 100,000 Genomes Project datasets, circulating ...
www.nature.com
February 18, 2025 at 3:24 PM
🚀 Our paper introducing ImmuneLENS, a new tool that measures T and B cell fractions from WGS data. This builds on our previous method, T cell ExTRECT, that used a signal from V(D)J recombination to measure T cells.
Out today in @naturegenet.bsky.social :
doi.org/10.1038/s41588-025-02086-5
🧵👇
Out today in @naturegenet.bsky.social :
doi.org/10.1038/s41588-025-02086-5
🧵👇
Reposted by Tom Watkins
Using whole genome sequencing to derive circulating T cell fraction, an immune system metric that has prognostic importance for cancer. And B cell fraction for risk of cancer.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
February 18, 2025 at 2:59 PM
Using whole genome sequencing to derive circulating T cell fraction, an immune system metric that has prognostic importance for cancer. And B cell fraction for risk of cancer.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Tom Watkins
So excited to see our paper describing the class of ARGOS genes in cancer out in @naturecomms.bsky.social! 🤩
www.nature.com/articles/s41...
A giant effort led with @ms01.bsky.social and executed under the mentorship of @bendavidlab.bsky.social @rameenberoukhim.bsky.social @foijer-lab.bsky.social
🧵👇:
www.nature.com/articles/s41...
A giant effort led with @ms01.bsky.social and executed under the mentorship of @bendavidlab.bsky.social @rameenberoukhim.bsky.social @foijer-lab.bsky.social
🧵👇:
A compendium of Amplification-Related Gain Of Sensitivity genes in human cancer - Nature Communications
In cancer, the impact on cellular fitness of copy-number gains affecting collaterally-amplified genes remains poorly understood compared to oncogenes. Here, the authors integrate genomic data from tum...
nature.com
January 27, 2025 at 10:07 PM
So excited to see our paper describing the class of ARGOS genes in cancer out in @naturecomms.bsky.social! 🤩
www.nature.com/articles/s41...
A giant effort led with @ms01.bsky.social and executed under the mentorship of @bendavidlab.bsky.social @rameenberoukhim.bsky.social @foijer-lab.bsky.social
🧵👇:
www.nature.com/articles/s41...
A giant effort led with @ms01.bsky.social and executed under the mentorship of @bendavidlab.bsky.social @rameenberoukhim.bsky.social @foijer-lab.bsky.social
🧵👇:
Reposted by Tom Watkins
Only a subset of patients respond to immunotherapy
Why? Which ones?
We conducted an unbiased analysis of response biomarkers and found that hundreds of possible biomarkers collapse into five latent, orthogonal factors that underlie immunotherapy response.
www.nature.com/articles/s41...
Why? Which ones?
We conducted an unbiased analysis of response biomarkers and found that hundreds of possible biomarkers collapse into five latent, orthogonal factors that underlie immunotherapy response.
www.nature.com/articles/s41...
November 27, 2024 at 2:13 PM
Only a subset of patients respond to immunotherapy
Why? Which ones?
We conducted an unbiased analysis of response biomarkers and found that hundreds of possible biomarkers collapse into five latent, orthogonal factors that underlie immunotherapy response.
www.nature.com/articles/s41...
Why? Which ones?
We conducted an unbiased analysis of response biomarkers and found that hundreds of possible biomarkers collapse into five latent, orthogonal factors that underlie immunotherapy response.
www.nature.com/articles/s41...