Peter Sims
@psimslab
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Associate Professor of Systems Biology | Columbia University
Joined May 2020
Excited to share our CITE-seq atlas of the aging human immune system across tissues. Great collaboration with @DonnaFarber3, @YosefLab, @teichlab, Jo Jones @Cambridge_Uni and partnership with @cziscience! https://t.co/wH1v6xMyy0
nature.com
Nature Immunology - Wells et al. profile RNA and surface protein expression to describe dominant tissue-specific effects on immune cell composition and function across lineages in the human tissues...
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In a new study, @ColumbiaPS researchers discovered that mRNA COVID-19 vaccines prompt the immune system to store memory T and B cells—key for long-term immunity—in tissues like the lungs, spleen, and bone marrow. https://t.co/UXOt9kub2Y
cuimc.columbia.edu
The new findings suggests that even if vaccine-induced immune memory is not detected in the blood, it may still persist in tissues.
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Another awesome collaboration with @DonnaFarber3! Among many other experiments, we profiled antigen-responsive T cells across the body for COVID vaccine and flu with CITE-seq. Will be interesting to see if these findings generalize to other viruses and vaccines!
We analyzed immune memory to COVID mRNA vaccines across human tissues and found durable persistence of T cell memory in lymphoid organs and lungs with enhanced regulatory functions compared to blood. @JDavisPorada collaboration with @psimslab @Teijaro_Lab
@columbia_MI
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🧵1/9 Excited to share our latest research on human microglia! We explored microglial heterogeneity through single-cell RNA sequencing of 215,680 live human microglia from 74 donors across neurological diseases. #NeuroImmunology #Microglia @NatureNeuro
https://t.co/xVCsILDrqc
nature.com
Nature Neuroscience - Profiling >200,000 live human microglia from 74 donors across neurological diseases reveals 12 subtypes of microglia that were validated in situ. Camptothecin is also...
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Single-cell RNA sequencing to profile 215,680 *living* human #microglia across neurological diseases and CNS regions identifies disease-enriched subsets and tool compounds recapitulating microglial states @TuddenhamJohn @HaageVc @MarikoTaga
https://t.co/selbOrJ6bo
nature.com
Nature Neuroscience - Profiling >200,000 live human microglia from 74 donors across neurological diseases reveals 12 subtypes of microglia that were validated in situ. Camptothecin is also...
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Congratulations to Drs. @SaraZaccara and @dianyang1117. Well deserved!
🎉 Thrilled to receive the New Innovator Award from the @NIH_CommonFund alongside 40 other amazing scientists! Honored by this recognition and excited to dive deeper into uncovering new regulatory events in RNA regulation! #NIHHighRisk #RNA @ColumbiaSysBio
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Thank you to everyone who attended the Annual DSB Retreat. We hope that you had a wonderful, science-filled time. Congratulations to the Best Poster Winners.
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And so it begins. This is required reading for all brain tumor docs. Vorasidenib: a new hope or a false promise for patients with low-grade glioma? | Nature Reviews Clinical Oncology
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Very happy to see my main project from residency @ColumbiaNeuro finally out! Cool story on mitochondrial #metabolic vulnerabilities and #ferroptosis linked to #GBM cell states. So grateful for the support from Jeffrey Bruce @PCanoll @psimslab @bstockwell @kitaj_angio and others
A cell state-specific metabolic vulnerability to GPX4-dependent ferroptosis in glioblastoma @psimslab @PCanoll @Columbia et al find quiescent astrocyte-like glioma cells show abnormal energy metabolism, sensitizing them to ferroptosis-inducing drugs https://t.co/F3mlajkW49
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A cell state-specific metabolic vulnerability to GPX4-dependent ferroptosis in glioblastoma @psimslab @PCanoll @Columbia et al find quiescent astrocyte-like glioma cells show abnormal energy metabolism, sensitizing them to ferroptosis-inducing drugs https://t.co/F3mlajkW49
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Our collaborators @psimslab @raphg + @KenStuart18 create a "normalization" method for antibody-derived tags and integration across data sets. (Preprint) @researchsquare
https://t.co/T8JGQuErh8
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ICYMI: check out our lab's latest publication in Cell, where we discovered that FGFBP1 is a novel marker of stemness in the intestinal epithelium
cell.com
A revised model of the cellular hierarchy during intestinal epithelial regeneration is presented, with the identification of multi-potent intestinal stem cells in the upper crypt zone. These cells...
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Fantastic work and great to see additional strong evidence of predominant 5-ALA metabolism by myeloid cells in GBM.
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Congrats on preprint study from some of our collaborators. Shows strategy to cut batch effects + integrate single-cell protein measures across CITE-seq datasets. Authors include @yezhengSTAT @raphg @psimslab @biorxivpreprint #FOCIS24
https://t.co/UAn1RcBBBM
biorxiv.org
CITE-seq enables paired measurement of surface protein and mRNA expression in single cells using antibodies conjugated to oligonucleotide tags. Due to the high copy number of surface protein molecu...
We systematically benchmarked and evaluated using 13 public CITE-seq datasets. ADTnorm effectively removes unwanted technical noise within or across studies while preserving biological signals across cell types at both broad and refined cell-type annotation levels.
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A few decades later, training is finally complete. A great feeling to celebrate the end of fellowship with such an amazing group of future oncologists. Honored to receive the Waun Ki Hong Award for Achievement in Basic Science Research. Thanks to all my mentors, friends and
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Well done @yezhengSTAT! This is a significant advancement for an often under-studied data type. Great to see a method specifically designed for CITE-seq data. Thanks to @cziscience and @hipcProject for their support. #CITEseq #DataScience #immunology
🚀 Exciting news! Check out our latest non-parametric strategy to eliminate batch effects and integrate single-cell protein measurements across CITE-seq datasets! Dive into the ✨ADTnorm✨ method details here: https://t.co/YevbYayf1h
#CITEseq #Bioinformatics #Singlecell
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🚀 Exciting news! Check out our latest non-parametric strategy to eliminate batch effects and integrate single-cell protein measurements across CITE-seq datasets! Dive into the ✨ADTnorm✨ method details here: https://t.co/YevbYayf1h
#CITEseq #Bioinformatics #Singlecell
biorxiv.org
CITE-seq enables paired measurement of surface protein and mRNA expression in single cells using antibodies conjugated to oligonucleotide tags. Due to the high copy number of surface protein molecu...
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We wrote a paper! γδ T cells do different things, in different tissues, at different times of your life @DonnaFarber3. Check it out. Thanks to all who helped get this together @Bruskolab @tconnors22 @psimslab @YosefLab @ImmunoEditor @SciImmunology
In work featured on this month's cover of @SciImmunology, @JoshGray12, @DonnaFarber3 &al. analyzed the phenotype, transcriptome, function, & repertoire of #GammaDeltaTcells in blood & mucosal & lymphoid tissues from 176 #human donors across the life span! https://t.co/YmrOi7PzUQ
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Our study on human γδ T cells in mucosal and lymphoid tissues revealed increased frequencies, distinct functions, subsets, and site-specific compartmentalization in children compared to adults. with @JoshGray12 . Thanks to collaborators @Bruskolab @tconnors22 @psimslab @YosefLab
In work featured on this month's cover of @SciImmunology, @JoshGray12, @DonnaFarber3 &al. analyzed the phenotype, transcriptome, function, & repertoire of #GammaDeltaTcells in blood & mucosal & lymphoid tissues from 176 #human donors across the life span! https://t.co/YmrOi7PzUQ
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