Likhitha
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likhitha03.bsky.social
Likhitha
@likhitha03.bsky.social
Making sense of genomics through data and tech 🧬💻
Reposted by Likhitha
Why perform rapid WGS for babies in the NICU? #GRD25
1. Increased NICU profitability
2. Reduced length of stay (and expense)
3. Gold standard for diagnosis of #RareDiseases
4. Gateway to precision therapeutics & interventions
5. Removes uncertainty & eliminates diagnostic odyssey
April 9, 2025 at 12:43 PM
Reposted by Likhitha
Next speaker of Therapeutics session is @NadavAhituv from USCF talking about "Functional characterization and therapeutic targeting of gene regulatory elements". Tons of genomic data but limited understanding of the regulatory code -> Massively parallel reporter assays (MPRAs). #GRD25
April 9, 2025 at 1:51 PM
Such an honour to be at GRD 2025

Got the opportunity to present a poster highlighting the availability of recently released HGSVC Phase 3 data on the IGSR portal (www.internationalgenome.org/data-portal/...) and predicting variant effects using Ensembl VEP (www.ensembl.org/vep)

#GRD25 #RareDisease
April 11, 2025 at 1:54 PM
Reposted by Likhitha
Last session of #GRD25 kicking off with a talk by Nicky Whiffin from @UniofOxford on The Expanding Role of snRNAs in neurodevelopmental disorders. ReNU syndrome caused by variants in the non-coding RNA RNU4-2 is remarkably prevalent with estimated 100k individuals in the world
April 11, 2025 at 10:43 AM
Reposted by Likhitha
🚨I could not be more excited to share our new preprint on saturation genome editing of the small nuclear RNA (snRNA) RNU4-2:
www.medrxiv.org/content/10.1...

A super fun collaboration with incredible duo @gregfindlay.bsky.social @joachimdejonghe.bsky.social from @crick.ac.uk
🧬🖥️🩺

🧵1/12
Saturation genome editing of RNU4-2 reveals distinct dominant and recessive neurodevelopmental disorders
Recently, de novo variants in an 18 nucleotide region in the centre of RNU4-2 were shown to cause ReNU syndrome, a syndromic neurodevelopmental disorder (NDD) that is predicted to affect tens of thous...
www.medrxiv.org
April 11, 2025 at 10:00 AM
Reposted by Likhitha
Novel research uses HPRC pangenome assemblies to uncover complex structural variations (cxSVs) as a central part of human genetic variation.

ARC-SV detects cxSVs linked to brain function, evolution, and psychiatric disorders.

Uncover the research behind it: www.cell.com/cell/abstrac...
Detection and analysis of complex structural variation in human genomes across populations and in brains of donors with psychiatric disorders
ARC-SV enables highly accurate detection and characterization of localized complex rearrangements of multiple DNA segments. Applying ARC-SV across human populations and brain cohorts uncovers connecti...
www.cell.com
March 20, 2025 at 1:27 PM
Reposted by Likhitha
nf-core/pacvar: a pipeline for analyzing longread PacBio whole genome and repeat expansion sequencing data. #WGS #RepeatExpansions @pacbio.bsky.social @nf-co.re #Bioinformatics 🧬 🖥️
academic.oup.com/bioinformati...
nf-core/pacvar: a pipeline for analyzing longread PacBio whole genome and repeat expansion sequencing data
AbstractMotivation. Pacific Biosciences (PacBio) single molecule, long-read sequencing enables whole genome annotation and the characterization of 20 compl
academic.oup.com
March 18, 2025 at 9:40 PM
Reposted by Likhitha
Chilling to see this list of terminated NIH grants. Research on Alzheimer's, HIV, rare diseases, vaccines -- gone. Cancer centers closed, training grants & fellowships terminated. Young scientists stranded. Patients waiting for treatments that'll never come. Just sad.

taggs.hhs.gov/Content/Data...
taggs.hhs.gov
March 19, 2025 at 2:00 AM
Reposted by Likhitha
Unspoken #git secrets that save you mountains ⛰️ of time as an engineer read.highgrowthengineer.com/p/unspoken-g...
Unspoken git secrets that save you mountains ⛰️ of time as an engineer
And no, it's NOT `status`, `add`, and `commit`.
read.highgrowthengineer.com
March 13, 2025 at 5:22 PM
Reposted by Likhitha
Today marks the beginning of OpenRxiv, which replaces bioRxiv and medRxiv, the world's largest preprint platform for life and medical science
openrxiv.org/introducing-...
@openrxiv.bsky.social
March 11, 2025 at 2:55 PM
Reposted by Likhitha
A beautiful example from @jodieingles27.bsky.social and team highlighting why we need more representative genomic resources to help clinical genetic interpretation!
March 5, 2025 at 6:31 AM
Reposted by Likhitha
#standards, #mechanisms, & #identifiers - oh my!

Just in time for #RareDisease Day, the @gene2phenotype.bsky.social website has a fresh look & new features to improve access to gene-disease models. 🧬💻

👉 Updated website: www.ebi.ac.uk/gene2phenoty...
👉 Why it matters: www.ebi.ac.uk/about/news/u...
We have launched an updated Gene2Phenotype website with a fresh new look. We now support more detailed disease mechanism information in our expert-curated gene-disease models.
Available at www.ebi.ac.uk/gene2phenotype.
Gene2Phenotype
www.ebi.ac.uk
February 27, 2025 at 8:29 PM
Reposted by Likhitha
Great that the UK is initiating a similar randomized trial in 700,000 women, but it seems the results from Sweden have already resolved many of the questions about the use A.I. w/ mammography and has long term follow-up for outcomes in >105,000 participants
theguardian.com/society/2025...
NHS to launch world’s biggest trial of AI breast cancer diagnosis
If successful, the scheme could speed up testing and reduce radiologists’ workload by around half
theguardian.com
February 4, 2025 at 6:38 PM
Inspiring article!
Shocking to see that it was previously censored until the changes were retracted.
It has been brought to my attention that my article has been censored to exclude certain terms:

asm.org/Articles/202...

web.archive.org/web/20250114...

#MicroSky
February 5, 2025 at 6:00 AM
Reposted by Likhitha
“The distribution of highly deleterious variants across human ancestry groups”. Preprint with Anastasia Stolyarova and @gcbias.bsky.social: www.biorxiv.org/content/10.1...
The distribution of highly deleterious variants across human ancestry groups
A major focus of human genetics is to map severe disease mutations. Increasingly that goal is understood as requiring huge numbers of people to be sequenced from every broadly-defined genetic ancestry...
www.biorxiv.org
February 2, 2025 at 7:00 PM
Reposted by Likhitha
Ensembl is 25! 🥳 Join us in celebrating our silver birthday by trying out our new browser - beta.ensembl.org 🎂

Silver carp 🩶🐟 and silvery gibbon 🩶🦧 genomes await!
January 27, 2025 at 4:50 PM