amitava banerjee
LightNews LightNews
banner
amitava-immuno.bsky.social
amitava banerjee
@amitava-immuno.bsky.social
700 followers 2.4K following 20 posts
@cshlnews.bsky.social postdoc with @hannahvmeyer.bsky.social and Saket Navlakha • How your T cells know it's you • Develops immuno tools named after Gotham characters: github.com/meyer-lab-cshl/BATMAN 🦇 • they/he 🏳️‍🌈🏳️‍⚧️
Posts Replies Media Videos
amitava-immuno.bsky.social
Amazing! If this is useful, we developed an active learning framework in our BATMAN paper to identify the binding motifs rapidly by testing only a few mutant antigens. Happy to chat more..
October 15, 2025 at 12:39 AM
amitava-immuno.bsky.social
Sounds so exciting! Any plans of doing antigen mutagenesis to find cross-reactivity patterns of these TCRs?
October 14, 2025 at 11:08 PM
amitava-immuno.bsky.social
Thanks for the shout-out!!🦇
July 30, 2025 at 12:31 PM
amitava-immuno.bsky.social
Autoimmunity vs cross-reactive protection against evolving pathogens by immune systems

1. www.nature.com/articles/s41...
2. oncohemakey.com/assessing-t-...
3. pmc.ncbi.nlm.nih.gov/articles/PMC...
Illustration of the expression-controlled trade-off between the benefit of protection range and the cost of autoimmunity in anti-phage defense systems. Model integrating the relationship between T cell function, TCR affinity, and positive/negative regulators modulating cell responsiveness. A panel of CD8 T lymphocytes engineered to express antitumoral TCRs with incremental affinities toward the HLA-A2/NY-ESO-1 epitope (x-axis) was assessed for functional capacity (y-axis). An optimal window of TCR-pMHC affinity can be detected in the upper natural range (K D from 5 to 1 μM), corresponding to the range where most peripheral nonself-/virus-specific T cells can be detected. We recently described how positive regulators of T cell function including CD28 and TNFR cofactors are enriched in T cells lying within the optimal affinity window and how the inhibitory receptor PD-1 and SHP-1 phosphatase are involved in restricting T cell activation and responsiveness in TCR-engineered CD8 T cells of very high supraphysiological affinities. On-target toxicity is known to follow the functional and activatory signatures of CD8 T cells, while off-target responsiveness and toxicity are described to increase along TCR-pMHC affinity, within the supranatural affinity range. With differing binding affinities of the T cell receptor (TCR) repertoires of Treg and Tconv cells to self- and non-self-antigens, the Treg-Tconv cellular circuit can mount an effective anti-pathogen immune response without causing excessive immunopathology. Infection by a foreign pathogen, accompanied by innate immune activation and presentation of foreign antigens, promotes an effector Tconv response which is needed for pathogen clearance. However, if pathogen clearance by effector Tconv cells results in excessive self-tissue damage, the self-antigens generated and presented to Tregs can strengthen Treg-mediated immunosuppression, helping to reign in the effector Tconv response and tissue damage. The circuit is capable of striking a delicate balance between Tconv and Treg responses, allowing for effective pathogen clearance while restraining immunopathology.
July 28, 2025 at 1:08 PM
amitava-immuno.bsky.social
Looking forward to seeing immune systems included in these lectures one day. Hopefully that is not too ambitious...
July 27, 2025 at 12:50 AM
amitava-immuno.bsky.social
So cool but did you skip the tangled worms 🪱?
July 27, 2025 at 12:21 AM
amitava-immuno.bsky.social
We compiled some of our favorites here (might be slightly outdated now): www.combine.umd.edu/network-scie...
Network Science Resources | COMBINE
www.combine.umd.edu
June 12, 2025 at 10:42 PM
amitava-immuno.bsky.social
Really amazing work, looking forward to the mutational scan data for our TCR cross-reactivity modeling work: pmc.ncbi.nlm.nih.gov/articles/PMC... :)
May 5, 2025 at 12:56 PM