Reposted by Vikram ParalkarKevin A. Scott, PhD @sculpturatus.bsky.social · 17/09/2026found at ucsf 9554117
Reposted by Vikram ParalkarVijay Ramani @vram142.bsky.social · 14/09/2026Everything you wanted to know about single-molecule epigenomics but were too afraid to ask! Wonderful to co-write (h/t ENORMOUS lift by @arnaudkr.bsky.social) this primer on our nascent field. Also, a 💯 example of wonderful colleagues building something *together*, not in competition =)nature.comA practical guide to studying genome function using single-molecule genomicsNature Reviews Molecular Cell Biology - Single-molecule genomics methods are used to study the activity of regulatory factors on individual DNA molecules genome-wide, thereby enabling... 07526
Reposted by Vikram ParalkarTobias Wilson-Bates @phdhurtbrain.bsky.social · 21/08/2026James Bond: you think I haven’t faced death before? Supervillain: oh, I don’t expect you to die, Mr. Bond. I expect you to suffer. *opens travel funding reimbursement software I think you will find your motorboat rental and casino reservations especially complex James Bond: no. no. pls kill me 382281469
Reposted by Vikram ParalkarVijay G. Sankaran @bloodgenes.bsky.social · 06/08/2026🚨👇 Check out this wonderful collaborative work identifying a new 3D genome regulator - Matchmakers - with the incredible @andersshansen.bsky.social ! Fantastic work led by Varshini Ramanathan and Chun-Jie Guo! 0104
Reposted by Vikram ParalkarAdam Phillippy @aphillippy.bsky.social · 06/08/2026For the past 30 years, “whole-genome sequencing” has been a misnomer. Today the T2T Consortium publishes a dozen papers heralding a future of truly complete genomes for humans and nearly any vertebrate 👨🔬🐒🐦🐀🦒🐎🫏🐹🐟 (sorry, no salamanders): www.cell.com/consortium/t... 🧵[1/15] 3202106
Reposted by Vikram ParalkarStirling Churchman @stirlingchurchman.bsky.social · 28/07/2026RNA-seq tells us how much RNA is present in the cell. But to understand gene regulation, we need to easily measure the synthesis and decay rates driving this abundance. We introduce AIR-seq: analog intrinsic recoding sequencing. (1/6) www.biorxiv.org/content/10.6...biorxiv.orgAnalog intrinsic recoding measures RNA dynamics without chemical conversionSteady-state RNA abundance measurements mask the synthesis and decay rates that shape gene expression. Analog intrinsic recoding sequencing (AIR-seq) repurposes the base-pairing properties of N4-hydro... 215361
Reposted by Vikram Paralkarsamuel mehr @mehr.nz · 21/07/2026the most realistic scene in Jurassic Park is when two scientists make a questionable decision — traveling to an undisclosed location with a strange man — on the promise of three years of modest funding 365718847
Reposted by Vikram Paralkarernstlaboratory.bsky.social @ernstlaboratory.bsky.social · 19/07/2026THE MYELOID WORKSHOP IS ON! We listened to your feedback and packed more talks in; will start 1 hr earlier. The ASH website will list workshops soon, stay tuned for how to request speaking slots @steidluli.bsky.social 151
Reposted by Vikram ParalkarCosta Samaras @costasamaras.com · 19/07/2026Could Excel be conscious? We surveyed more than Jan 1 1900 people to find out. 114137702879
Vikram Paralkar @paralkarlab.bsky.social · 16/07/2026The word "honorific" and "horrific" are too close together. Who designed this language? 000
Reposted by Vikram ParalkarAni Deshpande Lab @anideshpande.bsky.social · 14/07/2026Excited to share our latest preprint on AML, now on bioRxiv - biorxiv.org/content/10.6... A🧵biorxiv.orgDisrupting a Convergent Acetylation Circuit Collapses Leukemic Identity Across AML SubtypesAcute myeloid leukemia (AML) cells rely on an actively maintained, chromatin-encoded transcriptional program to sustain their malignant identity, offering a potential therapeutic vulnerability. Using ... 251
Vikram Paralkar @paralkarlab.bsky.social · 05/07/2026I'm a fan of Post Malone's early music. When he was Pre Malone. 000
Reposted by Vikram ParalkarFaraz Mardakheh @handle.invalid · 03/07/2026🚨🚨NEW PREPRINT ALERT!🚨🚨Proud to present our recent study, out now on bioRxiv, in which we reveal an RNA-dependent positive feedback loop that drives malignant ribosome biogenesis and tumour growth (1/15). 🔗 www.biorxiv.org/content/10.6... 24924
Reposted by Vikram ParalkarKarla Neugebauer @karlaneugebauer.bsky.social · 01/07/2026I am excited and proud to be an organizer of this fantastic meeting. I always walk away with new friends and colleagues and having learned so much. Hope to see you there! 276
Reposted by Vikram ParalkarNikolai Slavov @slavov-n.bsky.social · 30/06/2026A deeper dive into the article we published last week in @nature.com. I will start with the framing and methodology as they are key to understanding the surprising results: Most proteomics experiments begin with an assumption. www.nature.com/articles/s41... 1/ 1205
Vikram Paralkar @paralkarlab.bsky.social · 29/06/2026What I like about preprints: They don't come with any baked-in impact-factor-like imprimatur that elevates some over others. What would be valuable: An AI-based system that learns a user's scientific questions, and converts the firehose of preprints into a gentle, personally-curated stream. 010
Vikram Paralkar @paralkarlab.bsky.social · 23/06/2026Biting satire about our increasing reliance on LLMs! 😳inpreparation.substack.comOpinion: I Was Not Allowed To Type Prompts Into ChatGPT During My Chalk Talk And This Is DiscriminationBy Dr. Rachel Simmons, Postdoctoral Fellow, Stanford University 020
Reposted by Vikram ParalkarAnders Sejr Hansen @andersshansen.bsky.social · 22/06/2026(1/n) Very excited to share tri-lab collab (Mirny & Zechner) led by Harvey, Henrik & Jack: Q: How do enhancers & promoters interact in space (contact vs. action-at-a-distance) and time (stable vs. transient)? A: Transient E-P contact (~25-42 nm lasting ~10-20 sec): www.biorxiv.org/content/10.6... 215277
Reposted by Vikram ParalkarPolly Mackenzie @pollymackenzie.bsky.social · 21/06/2026My nine year old asked for a Rosetta Stone cake for his birthday 602218142562
Reposted by Vikram ParalkarThe R Foundation @r-foundation.bsky.social · 17/06/2026The 2026 Rousseeuw Prize for Statistics has been awarded to the R Project. #RStats www.rousseeuwprize.org/2026rousseeuwprize.orgThe Rousseeuw Prize for StatisticsThe Rousseeuw Prize for Statistics is a biennial prize to celebrate outstanding contributions to statistics research. 2280106
Reposted by Vikram ParalkarPeter Dalgaard @pdalgd.bsky.social · 17/06/2026I am deeply honoured to be a laureate of the 2026 Rousseeuw Prize, which has been awarded to the R Project. I have been on the R Core Team for almost 30 years, We built and maintained R with a vision to make statistical tools freely available and extendable. Congratulations to entire team! 47411
Vikram Paralkar @paralkarlab.bsky.social · 06/06/2026Had a nightmare that I triple-booked inpatient clinical service with a university lecture and a PhD thesis committee defense, and became aware of the conflicts the night before! Now I'm awake and relieved this wasn't real, but have a fresh new anxiety that I might do this some day! 😅 010
Reposted by Vikram ParalkarJennifer Trowbridge @trowbridgelab.bsky.social · 03/06/20261/3 Delighted to have visited the University of Pennsylvania this week, hosted by the fantastic Dr. Bobby Bowman who has built an exciting research program on the origins of myeloid malignancies and leukemia relapse. 193
Reposted by Vikram ParalkarDaniel Lipka @dblipka.bsky.social · 29/05/2026🧵 NEW PAPER in @bloodjournal.bsky.social! Why do IDH1 mutations almost exclusively drive myeloid #leukemia, while IDH2 mutations occur in both myeloid AND lymphoid cancers? 🤔 #AML #Epigenetics Despite sharing the same biochemical mechanism, they are NOT equivalent. Here's what we found 👇 2329
Vikram Paralkar @paralkarlab.bsky.social · 29/05/2026What's your standard practice in methods sections for standardized, identical protocols (basic techniques like western blotting, PCR, etc)? How do you avoid text duplication and self-plagiarism across multiple manuscripts? Also, journals discourage saying "as previously described..." 220
Reposted by Vikram ParalkarAdam Sperling, MD, PhD @adamssperling.bsky.social · 27/05/2026Excited that our paper describing a phase 1 trial of ducabtagene autloeucel, a rapidly manufactured anti-BCMA CAR-T in r/r multiple myeloma, was published. #ScienceTranslationalMedicine Huge thanks to all my co-authors, the teams at @danafarber.bsky.social and Novartis, and to our patients.science.orgEfficacy and safety of durcabtagene autoleucel in a phase 1 trial for patients with relapsed/refractory multiple myelomaDurcabtagene autoleucel, a rapidly manufactured BCMA-directed CAR T cell therapy, was safe and efficacious in relapsed/refractory multiple myeloma. 2122
Reposted by Vikram ParalkarAlex Elizabeth Byrne McMillan @undeniablyalex.bsky.social · 23/05/2026YOU’RE LISTENING TO SISYPHUS FM, THE HOME OF NON-STOP ROCK 6085401116197
Reposted by Vikram ParalkarJerry Chen @jcsalterego.bsky.social · 16/05/2026pronouncing nutella with a spanish ll 5860053
Vikram Paralkar @paralkarlab.bsky.social · 08/05/2026If one can stop being careLESS and become careFUL, then why can't I become reckFUL? 100
Reposted by Vikram ParalkarOded Rechavi @odedrechavi.bsky.social · 05/05/2026Important announcement!!! 💫 Would you have a tooth pulled if it helped your chances to get an important grant funded? Absurd question, but the funding situation is so bad, that I bet some of you actually considered it for a second… keep your teeth! we created something that might help! 👇 (1/16) 57031
Reposted by Vikram ParalkarHull Libraries @hulllibraries.bsky.social · 20/04/2026Last week, a gentleman returned this rather dilapidated copy of this famous book to us after 50 years. He had found it in his attic! Presumably this means there is a pristine copy somewhere in our libraries.... 1507549890
Vikram Paralkar @paralkarlab.bsky.social · 20/04/2026Can we please stop calling it "The Central Dogma"? What an odd term that was in the first place... And why are we still using it in the 21st century...? 020
Reposted by Vikram ParalkarBehnam Nabet @behnamnabet.bsky.social · 17/04/2026Proud to share our latest paper in @rscchembio.rsc.org, where we tackle oncogenic TRK fusions. Together, @sauravk05.bsky.social and Jiewei Jiang develop potent and selective degraders of the TPM3-TRKA fusion, a key cancer driver. pubs.rsc.org/en/content/a...pubs.rsc.orgDevelopment of PROTACs for targeted degradation of oncogenic TRK fusionsChromosomal translocations leading to the fusion of tropomyosin receptor kinases (TRKs) with diverse partner proteins have been identified as oncogenic drivers in many adult and pediatric cancers. Whi... 2227
Reposted by Vikram ParalkarMir Lab @mirlab.bsky.social · 16/04/2026Very proud of Samantha "S" Fallacaro the first student from our lab to defend their thesis! Check out her latest work (tinyurl.com/42hdfssz) where she shows that "hubs" formed by the transcription factor Dorsal are emergent features of binding kinetics, not higher-order regulatory assemblies. 172
Reposted by Vikram ParalkarConnor Tou @connorjtou.bsky.social · 11/03/2026Today in @nature.com we introduce INSTALL, which bypasses mammalian DNA immune sensing to enable non-viral DNA integration with recombinases—a step toward safe, and mutation-agnostic genome editing. 🧬 🧵 (1/13) www.nature.com/articles/s41... @harvardmed.bsky.social @mgbresearch.bsky.socialnature.comImmune evasive DNA donors and recombinases license kilobase-scale writing - NatureINSTALL overcomes fundamental challenges for DNA delivery and integration methods by synergizing immune-stealth nucleic acids with recombinases to enable kilobase-scale integration strategies without ... 12612
Reposted by Vikram ParalkarMatthew Taliaferro @jmtali.bsky.social · 21/03/2026In this time of introspection On the eve of study section I say to my reflection God, please spare me more rejection My reviewers criticize me And my colleagues all despise me Try to put it all behind me But that funding cliff is nipping at my heels 171
Reposted by Vikram ParalkarEirini Papapetrou @eirinipapapetrou.bsky.social · 19/03/2026Incredibly honored to receive the 2026 McCulloch & Till award by @isehsociety.bsky.social. Congratulations to Ellen Rothenberg and @bethpsaila.bsky.social - proud to be in such great company! 1102
Reposted by Vikram ParalkarMir Lab @mirlab.bsky.social · 20/03/2026@mukherja.bsky.social work on RNAPII clusters is in print today: www.nature.com/articles/s41... Congrats! TLDR: RNAPII clusters represent transcriptonally engaged molecules at single genes, not super-stochiometric assemblies. Please check it out and see the the thread below for a summary.nature.comA single cluster of RNA Polymerase II molecules is stably associated with active genes - Nature CommunicationsLive molecular-scale imaging in fly embryos shows that a single RNA Polymerase II cluster stays bound to active genes during transcription. Cluster formation requires initiation, and intensity represe... 04917
Reposted by Vikram ParalkarOded Rechavi @odedrechavi.bsky.social · 18/03/2026Was it peer reviewed? 4191
Reposted by Vikram ParalkarJordy F. Botello @jbotello.bsky.social · 10/03/2026Some molecular machines, like ribosomes, can persist for long periods of time in cells. Could molecular aging of ribosomes shape how proteins are made? In our new preprint we track ribosomes as they age in cells and uncover unexpected effects on translation (1/10) www.biorxiv.org/content/10.6... 412851
Vikram Paralkar @paralkarlab.bsky.social · 08/03/2026I've been saving up daylight for decades now. One day I will unleash it all. No one will sleep. 010
Reposted by Vikram ParalkarFaraz Mardakheh @handle.invalid · 21/02/2026🎉Proud to present our latest paper, out now in Nature Communications: www.nature.com/articles/s41... RNA Binding Proteins (RBPs) are often full of intrinsically disordered regions (IDRs), but what these regions do during RNA recognition is often unclear. 1/10 #RNA #IDR #RBPnature.comAn intrinsically disordered region mediates RNA-binding selectivity and cellular activities of LARP6 - Nature CommunicationsLARP6 is an EMT-associated RNA-binding protein with diverse RNA targets. Here, the authors show that the N-terminal disordered region of LARP6 promotes RNA-binding selectivity by modulating the adjace... 17734
Reposted by Vikram ParalkarDi Jiang @dijiang319.bsky.social · 14/02/2026@science.org A small polymerase ribozyme that can synthesize itself and its complementary strand | Science www.science.org/doi/10.1126/... #RNA #ribozyme #evolution 1328
Reposted by Vikram ParalkarAlejandro Montenegro @aemonten.bsky.social · 14/02/2026I accept you with minor revisions.media.tenor.coma pink calendar shows the date of february 14ALT: a pink calendar shows the date of february 14 26018
Reposted by Vikram ParalkarMatthijs Dorst @mattneuro.dorst-lab.org · 11/02/2026It took some doing, but I finally finished it: the coolest mirror on the planet! (Sorry @esawebb.org.web.brid.gy, hanging out at a Lagrange point is a disqualifier, I don't make the rules) 3281