Interested in genomics & RNA research? Craving a collaborative, interdisciplinary environment? Come join the Pai Lab @UMassMedRTI for a postdoc! Inquiries welcome from recent grads (to start soon) & future grads (for later) - email or DM me. PLEASE RT!

Congrats to Victor and Gary!! Victor is profoundly beloved here at @UMassChan , he always has the most interesting questions and ideas and is 100% kind all the time - a truly brilliant and generous spirit. He lifts up our entire community! Very well-deserved.

BREAKING NEWS The 2024 #NobelPrize in Physiology or Medicine has been awarded to Victor Ambros and Gary Ruvkun for the discovery of microRNA and its role in post-transcriptional gene regulation.

🚨Interested in or working on computational #RNA methods/tech/genomic analyses? 🚨 Join us in July @iRnaCosi #ISMB2024 in Montreal! Deadline for abstract submission in ONE WEEK (April 19th)! ⏰⌛️ https://t.co/CKhcDFgZOH

Very excited to share our latest work on spatial connection between transcripts starts and ends (1/8)

@GTExPortal @ENCODE_NIH This work was driven by @ecalvoroitberg & @__ccarroll in a long-term collaboration between my lab & @anafiszbein lab! A huge thanks to Sergey Venev and @job_dekker for collaborating on micro-C analyses and crucial contributions from @GyeungYun_Kim & @steventmick (8/8)

@GTExPortal @ENCODE_NIH Together, our results suggest that a combination of gene architecture, chromatin domains, and kinetic mechanisms ultimately influence the regulation of mRNA isoform composition (7/8)

@GTExPortal @ENCODE_NIH Strikingly, PITA genes also appear to have multiple, overlapping chromatin domains bounded by ordinallly coupled sites and coupling is associated with faster RNA PolymeraseII elongation (6/8)

@GTExPortal @ENCODE_NIH PITA coupling occurs independently of tissue-specific regulation and is associated with increased protein diversity, conserved sites, and longer genes (5/8).

@GTExPortal @ENCODE_NIH Our results suggest a novel "Positional Initiation-Termination Axis" (PITA), in which the usage of alternative terminal sites are coupled based on the order in which they appear in the genome (4/8)

Using public short & long-read RNA-seq data (thanks @GTExPortal and @ENCODE_NIH), we see that mRNAs using upstream TSSs tend to use upstream PASs (downstream sits are similarly paired). (3/8)

There are lots of alternative 5' transcription start (TSS) and 3' polyadenylation (PAS) sites, but, unlike for splicing, little is known about relationships between decisions at both ends of mRNAs. (2/8)

New preprint alert! We find that spatial and kinetic mechanisms underlie coordinated regulation of mRNA initiation and termination across a gene. https://t.co/Zy05yrISMk A thread 🧵 (1/8)

Congrats @valuchisanabria !

@Riboclub_Canada @fiddle @karine_choquet @RouskinLab

Anyone need a ride from Boston to @Riboclub_Canada annual meeting in a few weeks? I'm happy to drive, but looking for company!

Mary Munson started her research career in a laboratory at the same time as two more outgoing male scientists. She eventually realized being the quiet one wouldn’t do her any favors. https://t.co/6Mkuw1EcrD

Our center at Baylor College of Medicine in Houston is hiring more faculty in RNA Biology. Application deadline is October 20.

For all, there is the opportunity to be jointly mentored by me and @BeEngelhardt as part of our long standing collaboration. Please get in touch if you are interested in RNA biology, cutting-edge statistical genomics, & machine learning! 4/4

Our project will combine RNA genomics with statistical & machine learning approaches to fix this. We need exp & comp POSTDOCS to join us to help design experiments that are ideally powered for ML & to build a suite of ML analysis methods collaboratively. 3/4

RNA processing (ie. splicing and 3' end cleavage) is co-transcriptional and real-time kinetic competition dictates alt splicing as mRNA is transcribed. But, current models (including our own) focus only on individual steps, rather than jointly modeling these processes. 2/4