Suja Jagannathan
@rnabiologist.bsky.social
Assistant Prof (#newPI) CUAnschutz / rnabioco | DukeU & fredhutch alum | #FSHD and #RNAdecay researcher | ♡ everything #RNA | she/her/hers
Reposted by Suja Jagannathan
Hello Fly Folks. quick note FlyBase is under duress due to termination NIH$ to Harvard and intl collabs. The hardworking folks @flybase.bsky.social are doing their darndest to ensure access to current data. For US, there will soon be a new site to donate. Please spread the word, ideas and support 🪰💪
My lab studies bacterial infections. We spend a lot of time looking at (or for) species-specific genetic and genomic databases for hosts and microbes. FlyBase is the best of all—there is literally no comparison. Its existence is under threat. Please donate.
www.philanthropy.cam.ac.uk/give-to-camb...
www.philanthropy.cam.ac.uk/give-to-camb...
Drosophila Genetic Database
The Drosophila Genetic Database, FlyBase, is on the brink of collapse due to the sudden termination of the FlyBase NIH grant, which includes salaries for 5 literature curators based at the University ...
www.philanthropy.cam.ac.uk
June 4, 2025 at 3:07 PM
Hello Fly Folks. quick note FlyBase is under duress due to termination NIH$ to Harvard and intl collabs. The hardworking folks @flybase.bsky.social are doing their darndest to ensure access to current data. For US, there will soon be a new site to donate. Please spread the word, ideas and support 🪰💪
This preprint is now out after peer review! Check it out: www.cell.com/cell-genomic.... Huge congrats (and thanks!) to the whole team that contributed!
May 21, 2025 at 6:34 PM
This preprint is now out after peer review! Check it out: www.cell.com/cell-genomic.... Huge congrats (and thanks!) to the whole team that contributed!
Excited to have this out as a preprint!
It was a pleasure to work with @calhoujd.bsky.social and all the coauthors brought together by @varianteffect.bsky.social.
It was a pleasure to work with @calhoujd.bsky.social and all the coauthors brought together by @varianteffect.bsky.social.
Excited to share our @varianteffect.bsky.social CVI workstream preprint! Herein, we discuss important considerations for integration of multiplex functional data to generate a single score set and how this is likely to impact variant classification now and in the future
arxiv.org/abs/2503.18810
arxiv.org/abs/2503.18810
Combining multiplexed functional data to improve variant classification
With the surge in the number of variants of uncertain significance (VUS) reported in ClinVar in recent years, there is an imperative to resolve VUS at scale. Multiplexed assays of variant effect (MAVE...
arxiv.org
March 25, 2025 at 6:32 PM
Excited to have this out as a preprint!
It was a pleasure to work with @calhoujd.bsky.social and all the coauthors brought together by @varianteffect.bsky.social.
It was a pleasure to work with @calhoujd.bsky.social and all the coauthors brought together by @varianteffect.bsky.social.
Reposted by Suja Jagannathan
New preprint! We worked with @msftresearch.bsky.social and @broadinstitute.org to see whether large language models (LLMs) can be useful to variant scientists in deciding whether genetic variants seen in a patient are responsible for their disease. tl;dr yes they can: www.biorxiv.org/content/10.1...
Evidence Aggregator: AI reasoning applied to rare disease diagnostics
Retrieving, reviewing, and synthesizing technical information can be time-consuming and challenging, particularly when requiring specialized expertise, as is the case of variant assessment for rare di...
www.biorxiv.org
March 15, 2025 at 2:44 AM
New preprint! We worked with @msftresearch.bsky.social and @broadinstitute.org to see whether large language models (LLMs) can be useful to variant scientists in deciding whether genetic variants seen in a patient are responsible for their disease. tl;dr yes they can: www.biorxiv.org/content/10.1...
Reposted by Suja Jagannathan
Our latest work on targeting the poison exon in #RNA #splicing factor TRA2B in #cancer reveals a role for this non coding transcript and opportunities for targeting splicing factor levels across multiple tumor types
rdcu.be/d90Ra
#RNAsky @jacksonlab.bsky.social
rdcu.be/d90Ra
#RNAsky @jacksonlab.bsky.social
Antisense oligonucleotide-mediated TRA2β poison exon inclusion induces the expression of a lncRNA with anti-tumor effects
Nature Communications - The oncogenic splicing factor TRA2β is reported to be upregulated in human cancers partly by increased TRA2β poison exon (PE) skipping. Here the authors show that...
rdcu.be
February 16, 2025 at 2:37 PM
Our latest work on targeting the poison exon in #RNA #splicing factor TRA2B in #cancer reveals a role for this non coding transcript and opportunities for targeting splicing factor levels across multiple tumor types
rdcu.be/d90Ra
#RNAsky @jacksonlab.bsky.social
rdcu.be/d90Ra
#RNAsky @jacksonlab.bsky.social
Reposted by Suja Jagannathan
If you have been affected by the fires in LA, or are concerned about your ability to keep precious Drosophila strains going during the latest funding crisis, we will host your strains as a backup. Please email me.
Please amplify. If you are also able to host fly strains, add your name as well.
Please amplify. If you are also able to host fly strains, add your name as well.
January 28, 2025 at 9:45 PM
If you have been affected by the fires in LA, or are concerned about your ability to keep precious Drosophila strains going during the latest funding crisis, we will host your strains as a backup. Please email me.
Please amplify. If you are also able to host fly strains, add your name as well.
Please amplify. If you are also able to host fly strains, add your name as well.
Reposted by Suja Jagannathan
Time for a 🧵 on our new paper from the Walkley lab in @scienceimmuno.bsky.social.
If you're into RNA editing by ADARs, double-stranded RNA (dsRNA) sensing, post-transcriptional gene regulation and CRISPR screening, then read on! 1/X
www.science.org/doi/10.1126/...
#RNASky #ImmunoSky
If you're into RNA editing by ADARs, double-stranded RNA (dsRNA) sensing, post-transcriptional gene regulation and CRISPR screening, then read on! 1/X
www.science.org/doi/10.1126/...
#RNASky #ImmunoSky
GGNBP2 regulates MDA5 sensing triggered by self double-stranded RNA following loss of ADAR1 editing
GGNBP2, CNOT10, and CNOT11 are required for innate immune response after the loss of ADAR1-mediated editing of self dsRNA.
www.science.org
December 6, 2024 at 1:31 AM
Time for a 🧵 on our new paper from the Walkley lab in @scienceimmuno.bsky.social.
If you're into RNA editing by ADARs, double-stranded RNA (dsRNA) sensing, post-transcriptional gene regulation and CRISPR screening, then read on! 1/X
www.science.org/doi/10.1126/...
#RNASky #ImmunoSky
If you're into RNA editing by ADARs, double-stranded RNA (dsRNA) sensing, post-transcriptional gene regulation and CRISPR screening, then read on! 1/X
www.science.org/doi/10.1126/...
#RNASky #ImmunoSky
Reposted by Suja Jagannathan
How long does an mRNA stay in the nucleus? How long does it stay in the cytoplasm? In an amazing collaboration with @landthalerm.bsky.social, we used metabolic labeling, cell fractionation and mathematical modeling to quantify mRNA flow through the cell. Finally out in MSB: doi.org/10.1038/s443...
November 21, 2024 at 2:56 PM
How long does an mRNA stay in the nucleus? How long does it stay in the cytoplasm? In an amazing collaboration with @landthalerm.bsky.social, we used metabolic labeling, cell fractionation and mathematical modeling to quantify mRNA flow through the cell. Finally out in MSB: doi.org/10.1038/s443...
Reposted by Suja Jagannathan
Question for FULL Professors:
I'm preparing myself to go up for Full soon, and I'm just curious to hear from additional voices: What changed for you as Full? Did it open up any additional opportunities? What new/different expectations came with it?
#AcademicSky #CommSky
I'm preparing myself to go up for Full soon, and I'm just curious to hear from additional voices: What changed for you as Full? Did it open up any additional opportunities? What new/different expectations came with it?
#AcademicSky #CommSky
November 27, 2024 at 4:18 PM
Question for FULL Professors:
I'm preparing myself to go up for Full soon, and I'm just curious to hear from additional voices: What changed for you as Full? Did it open up any additional opportunities? What new/different expectations came with it?
#AcademicSky #CommSky
I'm preparing myself to go up for Full soon, and I'm just curious to hear from additional voices: What changed for you as Full? Did it open up any additional opportunities? What new/different expectations came with it?
#AcademicSky #CommSky
Reposted by Suja Jagannathan
I'm excited to share the preprint for the first chunk of my PhD work! We combined DMS structure probing with nascent RNA enrichment to report high-resolution, dynamic structures of transcripts just after synthesis - inside cells. @karlaneugebauer.bsky.social
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Rapid folding of nascent RNA regulates eukaryotic RNA biogenesis
An RNA′s catalytic, regulatory, or coding potential depends on RNA structure formation. Because base pairing occurs during transcription, early structural states can govern RNA processing events and d...
www.biorxiv.org
November 27, 2024 at 1:48 PM
I'm excited to share the preprint for the first chunk of my PhD work! We combined DMS structure probing with nascent RNA enrichment to report high-resolution, dynamic structures of transcripts just after synthesis - inside cells. @karlaneugebauer.bsky.social
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Suja Jagannathan
I know many of you have been awaiting us launching transcript expression data in gnomAD. We were waiting for the GTEx v10 release which is now out so we are finally able to launch this. Enjoy!!
Proportion expressed across transcripts (pext), using GTEx v10, is now available on #gnomAD v4!
November 22, 2024 at 2:44 PM
I know many of you have been awaiting us launching transcript expression data in gnomAD. We were waiting for the GTEx v10 release which is now out so we are finally able to launch this. Enjoy!!
Reposted by Suja Jagannathan
Excited to share the latest work from the lab, led by Divya Kolakada, the first PhD from our group 🎓🤓🎉
Peptidyl-tRNA hydrolysis rate influences the efficiency of nonsense-mediated mRNA decay www.biorxiv.org/content/10.1...
Peptidyl-tRNA hydrolysis rate influences the efficiency of nonsense-mediated mRNA decay www.biorxiv.org/content/10.1...
January 24, 2024 at 4:08 PM
Excited to share the latest work from the lab, led by Divya Kolakada, the first PhD from our group 🎓🤓🎉
Peptidyl-tRNA hydrolysis rate influences the efficiency of nonsense-mediated mRNA decay www.biorxiv.org/content/10.1...
Peptidyl-tRNA hydrolysis rate influences the efficiency of nonsense-mediated mRNA decay www.biorxiv.org/content/10.1...
Reposted by Suja Jagannathan
Created an #RNAbiology feed to talk RNA science! Let's use it.
@onamy.bsky.social @mgblango.bsky.social @graveley.bsky.social @nickingolia.bsky.social @hogglab.bsky.social @quaidmorris.bsky.social @snf.bsky.social @lucksmith.bsky.social
@onamy.bsky.social @mgblango.bsky.social @graveley.bsky.social @nickingolia.bsky.social @hogglab.bsky.social @quaidmorris.bsky.social @snf.bsky.social @lucksmith.bsky.social
October 17, 2023 at 12:23 PM
Created an #RNAbiology feed to talk RNA science! Let's use it.
@onamy.bsky.social @mgblango.bsky.social @graveley.bsky.social @nickingolia.bsky.social @hogglab.bsky.social @quaidmorris.bsky.social @snf.bsky.social @lucksmith.bsky.social
@onamy.bsky.social @mgblango.bsky.social @graveley.bsky.social @nickingolia.bsky.social @hogglab.bsky.social @quaidmorris.bsky.social @snf.bsky.social @lucksmith.bsky.social