S Birendra Kumar

@themis_brown @themis_brown Really interested in your lab's work on tumor/tissue microenvironment shaping immune development, and also in this position. I've emailed you about my experience and background - would be glad to discuss further and learn more.

We are hiring! The Brown Lab is looking for a computational biologist to join our team. If you enjoy working with single-cell and spatial genomics data and want to study how immune cells develop and function, we’d love to hear from you! Apply here: hhmi.wd1.myworkdayjobs.com/External/job/M…

Very happy to share our new study defining the ontogeny of Thetis cells and the developmental cues that shape their early-life wave of differentiation. nature.com/articles/s4158… Beautiful work led by exceptional @HHMI Gilliam fellow @YoselinAPI and @MSK postdoc Tyler Park 🧵 1/

Most current drug discovery efforts is structure-based eg. create small molecules or antibodies that best binds X. However, a drug may not drive its efficacy from its strongest binder. Taking a step away from structure-paradigm, we reason that if a CRISPR knockout of a gene mimics a drug's effects across cancer cell lines, that gene is likely the drug's target. This was done in @EytanRuppin in collaboration with @anideshpandelab and @BenDavidLab Using this principle, we integrated drug and crispr profiles from 1000s of drugs to find their context specific targets (different cancers or when known target is not expressed but drug is yet killing cancer cells). We call this tool DeepTarget. We show that this approach outperforms current structure based methods (AF3, RF, Chai) to find drug's target in a genome-wide search, when we had no information on what the target might be. We benchmarked in eight gold-standard drug-target pairs. It took us months to get this benchmarks (we hope this benchmark helps the field) We present two experimentally validated cases and pls see the paper for this (link at the end). An intriguing observation is that we had many cases where we have many small molecules targeting the same gene (eg. EGFR) and we found that small molecules with higher predicted target specificity show greater clinical advancement. Very happy to hear your feedback. Here's the free access link: nature.com/articles/s4169…

@VMudiyam Congrats @VMudiyam!

Happy to have contributed a small part to this meaningful work!

RNAseq counting tools are not perfect. I simulated 240 GTEx samples to test multiple tools. Below I show the difference between actual and estimated counts for each simulated sample. But, what is causing this? And will it affect differential expression? (1/7) #Bioinformatics

@anushkakumar_02 This is amazing!! @anushkakumar_02

The Assistant Director of Computer Sci dept of a top 20 uni in the US approached me on LinkedIn, encouraging me to apply to their PhD program (fully funded) and I’m a 21-year-old Psych major. Still doubting the importance of personal branding? a 🧵

This fundamentally changes how humans work with computers

My favorite Charlie Munger story: In 1953, Munger was 29 years old. Recently divorced. Lost the house. Huge social stigma of divorce back then. His 8-year-old son, Teddy, was diagnosed with cancer. The leukemia was incurable. No medical insurance - Munger paid for all his medical care. Charlie would visit Teddy in the hospital every day -- and then walk the streets crying. Teddy died at the age of 9. Charlie was broke, divorced and just lost his child. 99.9% of people would've turned to alcohol, drugs, or suicide. (And you'd understand why) Munger never did. Fast forward to 52 years old, a failed surgery left him blind in one eye with the potential of going fully blind one day. Charlie was an obsessive learner who read every book he could get his hands on. When confronted with the possibility of going blind and no longer being able to read he said: "It's time for me to learn braille!" The only thing that might be more impressive than his intellect was his actions. RIP. --------- Munger on Self-Pity: "Generally speaking, envy, resentment, revenge, and self-pity are disastrous modes of thought. Self-pity gets pretty close to paranoia… Every time you find your drifting into self-pity, I don’t care what the cause, your child could be dying from cancer, self-pity is not going to improve the situation. It’s a ridiculous way to behave. Life will have terrible blows, horrible blows, unfair blows, it doesn’t matter. Some people recover and others don’t. There I think the attitude of Epictetus is the best. He thought that every mischance in life was an opportunity to behave well. Every mischance in life was an opportunity to learn something and that your duty was not to be immersed in self-pity, but to utilize the terrible blow in a constructive fashion. That is a very good idea."

@mahipal_ganji @abhinav_512 @iiscbangalore @BICS_IISc Congratulations @abhinav_512!

Thrilled to announce that Abhinav has been honored with the Zeeshan Khan Memorial Award for the best microscopy paper of 2023 by the Bangalore Microscopy Course. We extend our heartfelt gratitude to BMC and DSS for recognizing our dedication and hard work. @abhinav_512

@rahulkolle @rahulkolle 👏

Learning stuff is less important than learning about myself.

@Olivia_A_Grant @nzradu @leo_schalkwyk @amarcobio @jordanatbell Many congratulations!!!! @Olivia_A_Grant

@VMudiyam @MGissot @PasteurLille Congrats @VMudiyam!!

Looking forward to beginning this exciting chapter. I'm fortunate and thankful to @MGissot @PasteurLille for giving me this opportunity.

@naeemtree @eLife Congrats @naeemtree!! Well deserved!!

Glad to share the full version of our paper in @eLife on the evolution of venoms in spider! doi.org/10.7554/eLife.…

@rahulkolle @aLastWordFreak @rahulkolle 😂😂!!

@aLastWordFreak Stealing this joke for today's team meeting 🤣

I don't like that cafe, they take too much time to make coffee.. You mean, they have high latte-ncy? #SorryNotSorry

@keshu_VRimmCh Congrats!

Thanks.!! Glad to be selected for NASI Young Scientist Award🙂 Credit goes to my lab students.! #KesavLab @iiscbangalore @BICS_IISc

Issue with visual media (IG, TikTok) - the name of the game is distribution. Everyone tries to maximize distribution/reach, and not as many are trying to maximize quality. Result - timelines clogged with low value signals and creators complaining about the "algorithm".

@morinryan Dear Dr. Morin, a humble request. I have e-mailed you officially. Could you please go through it whenever you get time.

@morinryan Dear Dr. Morin, That's actually a tricky aspect to deal with. But the study says this; europepmc.org/article/med/25…

@rahulkolle @peakbengaluru @rahulkolle #NammaBengaluru #NammaMetro 🔥🔥

How cool is that! It's true, we can now top up our metro card on Whatsapp 🔥 [Number - 8105556677] Definite @peakbengaluru moment 💯