Profile avatar
msikic.bsky.social
AI in genomics
14 posts 120 followers 90 following
Regular Contributor
Posts 15 Comments 9

Seeking potential PhD students - Developing novel RNA therapeutics using AI-driven approaches - Decoding cancer genomics using LLMs and GNNs Deadline 1/6/2025. Contact me directly! a-star.edu.sg/Scholarships...

submitted 18 days ago • 1 comment

Join us at our GIS Seminar by Dr Marcin Magnus, Harvard University on OpenRNAFold: an end-to-end approach for RNA 3D structure prediction. Date: 29 April, 2PM Venue: GIS, Level 2 Host: Ivona MARTINOVIC @msikic.bsky.social @lvrcek.bsky.social

submitted 37 days ago • 0 comments

Join us at Genome Institute of Singapore! Great environment, stable funding!!

submitted 51 days ago • 0 comments

The first Singapore Long-Reads Symposium was a success! A massive thanks to the speakers: Keynote Heng Li, Ken Sung @jonathangoeke.bsky.social , @msikic.bsky.social & industrial partners @nanoporetech.com , @pacbio.bsky.social , @awscloud.bsky.social MGI_Technology Next Level Genomics & NovogeneAIT

submitted 79 days ago • 0 comments

GENOME: THE GIS SPEAKER SERIES Join us at our next seminar by Dr. Heng Li, Harvard Medical School & Dana-Farber Cancer Institute on Wed 12 March, 9.30am (SGT, GMT +8). Host: @msikic.bsky.social Webinar ID: 985 9424 0029 Participant ID: 371683 Passcode: 993251 #GISSPEAKERSERIES #genomics

submitted 90 days ago • 0 comments

We are organising ai4na-workshop.github.io at#ICLR2025. Topics: RNA, DNA and cell LLMs, structure, modifications, correction, variant calling... Deadline: Feb 10th 2025 Time for revision: 1 month Accepted papers - the opportunity to be invited by Nature Methods for submission

submitted 120 days ago • 0 comments

🚨Exciting news! We're partnering with @naturemethods.bsky.social 🧬High-quality submissions to the AI4NA workshop on @iclr-conf.bsky.social can also be considered for publication in the journal! 🌟 👉More details on our web page (link in comments) #AI4NA #ICLR2025

submitted 132 days ago • 2 comments

EXTREMELY cool and demonstrates clearly the promise of deep learning + bio. www.nature.com/articles/s41...

submitted 139 days ago • 4 comments

🚨 1 month to go! 🚨 The submission deadline for the AI4NA workshop at @iclr-conf.bsky.social is fast approaching! 🧬 ✨ Submissions on OpenReview will open soon—stay tuned! ✨ 🔗 Learn more on our web page (link below 👇) #AI4NA #ICLR2025

submitted 151 days ago • 2 comments

Verkko2 paper is finally on the biorxiv www.biorxiv.org/content/10.1...

submitted 158 days ago • 0 comments

Evaluating data requirements for high-quality haplotype-resolved genomes for creating robust pangenome references. #GenomeAssembly #HaplotypeResolved #Pangenomes #Genomics #GenomeBiology 🧬 🖥️ genomebiology.biomedcentral.com/articles/10....

submitted 166 days ago • 0 comments

Our hitchhiking paper is out at genomebiology.biomedcentral.com/articles/10.... great collaborative effort with Prasad Sarashetti, @jlipovac.bsky.social, Filip Tomas and JJ Liu. Briefly, the nanopore is enough for high-quality human genomes. Recently, HERRO showed that even UL is sufficient. 1/3

submitted 167 days ago • 1 comment

A comparative approach that predicts any modifications in RNA (or DNA) using raw @nanopore signals. Although simple, It outperforms the current SOTA. academic.oup.com/nar/advance-... w/ IvanVujaklija, Siniša Biđin, Marin Volarić, Sara Bakic, Zhe Li, Jianjun Liu and Roger Foo

submitted 172 days ago • 0 comments

RNA structure prediction is still an open problem. Look at our benchmark results (including Alphafold 3!) biorxiv.org/content/10.1... w/ Ivona Martinovic, Tin Vlasic, Yang Li, Bryan Hooi and Zhang Yang

submitted 182 days ago • 1 comment

For phased diploid genome T2T reconstruction, HERRO-corrected UL nanopore reads github.com/lbcb-sci/herro with cross-linking information using Hi-C/Pore-C is enough. Is this enough for heterogeneous cancer genomes? Or do we need to increase the accuracy of reads even further? Something else?

submitted 193 days ago • 0 comments