Dr Debasree Sarkar (she/her)
@drdebasree.bsky.social
PhD in #Bioinformatics, #AcademicSky🎓 #WomenInSTEM💻 #1stGenPhD 🇮🇳
Views/Opinions are my own
Views/Opinions are my own
A paper published in Nature Medicine presents multimodal data from 347 individuals, linking gut microbiome diversity and resting heart rate to glucose levels. This approach enhances understanding of Type 2 diabetes beyond traditional HbA1c measurements.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Multimodal AI correlates of glucose spikes in people with normal glucose regulation, pre-diabetes and type 2 diabetes - Nature Medicine
Multimodal data from 347 deeply phenotyped individuals including healthy, prediabetic individuals and individuals with T2D report remotely acquired patterns of glucose control via continuous glucose m...
www.nature.com
August 27, 2025 at 5:56 AM
A paper published in Nature Medicine presents multimodal data from 347 individuals, linking gut microbiome diversity and resting heart rate to glucose levels. This approach enhances understanding of Type 2 diabetes beyond traditional HbA1c measurements.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
When mitochondria work correctly, they help neutrophils mount an effective, targeted attack on bacteria. But when mitochondria are impaired, this system breaks down.
www.sciencealert.com/your-cells-p...
www.sciencealert.com/your-cells-p...
Your Cell's Powerhouses Are Secretly Helping Fight Bacteria, Study Finds
Mitochondria have primarily been known as the energy-producing components of cells.
www.sciencealert.com
June 27, 2025 at 1:44 PM
When mitochondria work correctly, they help neutrophils mount an effective, targeted attack on bacteria. But when mitochondria are impaired, this system breaks down.
www.sciencealert.com/your-cells-p...
www.sciencealert.com/your-cells-p...
Reposted by Dr Debasree Sarkar (she/her)
Explainable deep learning for identifying cancer driver genes based on the Cancer Dependency Map https://www.biorxiv.org/content/10.1101/2025.04.28.651122v1
May 2, 2025 at 2:47 PM
Explainable deep learning for identifying cancer driver genes based on the Cancer Dependency Map https://www.biorxiv.org/content/10.1101/2025.04.28.651122v1
Reposted by Dr Debasree Sarkar (she/her)
A Case-Based Explainable Graph Neural Network Framework for Mechanistic Drug Repositioning https://www.biorxiv.org/content/10.1101/2025.04.28.651120v1
May 2, 2025 at 2:47 PM
A Case-Based Explainable Graph Neural Network Framework for Mechanistic Drug Repositioning https://www.biorxiv.org/content/10.1101/2025.04.28.651120v1
Reposted by Dr Debasree Sarkar (she/her)
NEW Review online by Morgan Huse @mskcancercenter.bsky.social looks at how mechanical forces contribute to the potency, specificity and efficacy of the cytotoxic lymphocyte response
#immunosky
#immunosky
Mechanoregulation of lymphocyte cytotoxicity - Nature Reviews Immunology
Cytotoxic T lymphocytes and natural killer cells destroy target cells using a mechanically active cytolytic immune synapse. This Review examines the various ways in which mechanical forces contribute ...
www.nature.com
May 2, 2025 at 8:21 AM
NEW Review online by Morgan Huse @mskcancercenter.bsky.social looks at how mechanical forces contribute to the potency, specificity and efficacy of the cytotoxic lymphocyte response
#immunosky
#immunosky
Reposted by Dr Debasree Sarkar (she/her)
For clear thinking, cultivate passionate indifference. Buddhists call it non-attachment. We all have hopes, desires and ambitions. Non-attachment means acknowledging them, accepting them, and then not inserting them into a process that has nothing to do with you. podcasts.apple.com/us/podcast/n...
April 22, 2025 at 3:03 PM
For clear thinking, cultivate passionate indifference. Buddhists call it non-attachment. We all have hopes, desires and ambitions. Non-attachment means acknowledging them, accepting them, and then not inserting them into a process that has nothing to do with you. podcasts.apple.com/us/podcast/n...
Intratumoural microbiota may significantly influence PDAC tumour progression through modulation of local immune responses within the tumour microenvironment (TME) and may also lead to varying immunotherapy efficacy and clinical outcomes
www.sciencedirect.com/science/arti...
www.sciencedirect.com/science/arti...
The relationship of the microbiome, associated metabolites and the gut barrier with pancreatic cancer
Pancreatic cancers have high mortality and rising incidence rates which may be related to unhealthy western-type dietary and lifestyle patterns as wel…
www.sciencedirect.com
March 30, 2025 at 3:59 PM
Intratumoural microbiota may significantly influence PDAC tumour progression through modulation of local immune responses within the tumour microenvironment (TME) and may also lead to varying immunotherapy efficacy and clinical outcomes
www.sciencedirect.com/science/arti...
www.sciencedirect.com/science/arti...
The cholinergic anti-inflammatory pathway defines a neuroimmune circuit by which the autonomic nervous system regulates systemic inflammation.
academic.oup.com/jleukbio/art...
academic.oup.com/jleukbio/art...
The peripheral neuroimmune system
The peripheral neuroimmune reflex arc illustrates how immune cells can simultaneously respond to both motor and sensory nerves but also transmit signals to
academic.oup.com
March 30, 2025 at 3:45 AM
The cholinergic anti-inflammatory pathway defines a neuroimmune circuit by which the autonomic nervous system regulates systemic inflammation.
academic.oup.com/jleukbio/art...
academic.oup.com/jleukbio/art...
Reposted by Dr Debasree Sarkar (she/her)
As we age, we accumulate somatic mutations in our cells (mutation clock) and DNA methylation changes (epigenetic clock). They correlate and interact
www.nature.com/articles/s43...
www.nature.com/articles/s43...
March 19, 2025 at 2:36 PM
As we age, we accumulate somatic mutations in our cells (mutation clock) and DNA methylation changes (epigenetic clock). They correlate and interact
www.nature.com/articles/s43...
www.nature.com/articles/s43...
Reposted by Dr Debasree Sarkar (she/her)
How does sleep protect against neurodegenerative disease? A review, open-access
www.cell.com/neuron/fullt...
www.cell.com/neuron/fullt...
March 19, 2025 at 3:44 PM
How does sleep protect against neurodegenerative disease? A review, open-access
www.cell.com/neuron/fullt...
www.cell.com/neuron/fullt...
A protein language model, ProtGPS, was developed that predicts with high performance the compartment localization of human proteins
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Protein codes promote selective subcellular compartmentalization
Cells have evolved mechanisms to distribute ~10 billion protein molecules to subcellular compartments where diverse proteins involved in shared functions must assemble. Here, we demonstrate that prote...
www.science.org
February 8, 2025 at 4:34 AM
A protein language model, ProtGPS, was developed that predicts with high performance the compartment localization of human proteins
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
A pan-cancer atlas of T cell targets:
Integrating data from ~7500 RNA seq datasets, >1500 immunopeptidomes & >200 cancer scRNA Seq datasets. Identifying a large series of canonical & non-canonical antigens, novel self antigens, microbial targets, etc.
All publicly available
Integrating data from ~7500 RNA seq datasets, >1500 immunopeptidomes & >200 cancer scRNA Seq datasets. Identifying a large series of canonical & non-canonical antigens, novel self antigens, microbial targets, etc.
All publicly available
January 26, 2025 at 4:48 AM
A pan-cancer atlas of T cell targets:
Integrating data from ~7500 RNA seq datasets, >1500 immunopeptidomes & >200 cancer scRNA Seq datasets. Identifying a large series of canonical & non-canonical antigens, novel self antigens, microbial targets, etc.
All publicly available
Integrating data from ~7500 RNA seq datasets, >1500 immunopeptidomes & >200 cancer scRNA Seq datasets. Identifying a large series of canonical & non-canonical antigens, novel self antigens, microbial targets, etc.
All publicly available
Reposted by Dr Debasree Sarkar (she/her)
Sometimes the experimental control is messed up – but in a really interesting way! – and it's a great 'night science' trick to make a discovery by recognizing it when it happens.
January 23, 2025 at 3:57 AM
Sometimes the experimental control is messed up – but in a really interesting way! – and it's a great 'night science' trick to make a discovery by recognizing it when it happens.
Reposted by Dr Debasree Sarkar (she/her)
Something you don't see every day!
Digitizing the human proteome in >53,000 individuals with 15-year follow-up and, with machine learning, unraveling nearly 500 disease-causing proteins
www.cell.com/cell/fulltex...
open-access
Digitizing the human proteome in >53,000 individuals with 15-year follow-up and, with machine learning, unraveling nearly 500 disease-causing proteins
www.cell.com/cell/fulltex...
open-access
January 10, 2025 at 6:56 PM
Something you don't see every day!
Digitizing the human proteome in >53,000 individuals with 15-year follow-up and, with machine learning, unraveling nearly 500 disease-causing proteins
www.cell.com/cell/fulltex...
open-access
Digitizing the human proteome in >53,000 individuals with 15-year follow-up and, with machine learning, unraveling nearly 500 disease-causing proteins
www.cell.com/cell/fulltex...
open-access
Reposted by Dr Debasree Sarkar (she/her)
A woman with frequent fainting whose diagnosis was initially missed for years. The most common of all genetic heart conditions, frequently undiagnosed.
gift link www.nytimes.com/2025/01/03/w...
gift link www.nytimes.com/2025/01/03/w...
January 11, 2025 at 4:21 PM
A woman with frequent fainting whose diagnosis was initially missed for years. The most common of all genetic heart conditions, frequently undiagnosed.
gift link www.nytimes.com/2025/01/03/w...
gift link www.nytimes.com/2025/01/03/w...
Reposted by Dr Debasree Sarkar (she/her)
Everyone talks about "strains", but what are they? Within the lab, we often come back to the review "Diversity within species: interpreting strains in microbiomes" by Thea Van Rossum (2020) when discussing at which phylogenetic resolution we do see different signals
www.nature.com/artic...
www.nature.com/artic...
Diversity within species: interpreting strains in microbiomes
Nature Reviews Microbiology - Large-scale metagenomic analyses are vastly increasing the rate of discovery of variation within species but they are also leading to scientific and semantic...
www.nature.com
December 7, 2024 at 2:00 PM
Everyone talks about "strains", but what are they? Within the lab, we often come back to the review "Diversity within species: interpreting strains in microbiomes" by Thea Van Rossum (2020) when discussing at which phylogenetic resolution we do see different signals
www.nature.com/artic...
www.nature.com/artic...
Reposted by Dr Debasree Sarkar (she/her)
Explainable deep neural networks for predicting sample phenotypes from single-cell transcriptomics https://www.biorxiv.org/content/10.1101/2024.12.03.626549v1
December 6, 2024 at 6:47 PM
Explainable deep neural networks for predicting sample phenotypes from single-cell transcriptomics https://www.biorxiv.org/content/10.1101/2024.12.03.626549v1
Best motivation for completing your work: looming deadline! 😅
December 6, 2024 at 8:24 AM
Best motivation for completing your work: looming deadline! 😅
Reposted by Dr Debasree Sarkar (she/her)
PanKB: An interactive microbial pangenome knowledgebase for research, biotechnological innovation, and knowledge mining https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkae1042/7906839 🧬🖥️🧪
November 25, 2024 at 4:30 PM
PanKB: An interactive microbial pangenome knowledgebase for research, biotechnological innovation, and knowledge mining https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkae1042/7906839 🧬🖥️🧪
