Josh Fry is invited to present our latest work of exitron splicing at #ISMB2022 #iRNA！

We actively hiring all levels of bioinformatics researchers (MS or PhD) to join my group focusing on Computational Transcriptomics and Cancer research #job #bioinformatics #Genomics careers.iscb.org/jobs/view/8119

Setting up a lab? Here's what organization tricks worked for me. A 🧵

Interested in discovering splicing variants in long reads? Try our new program developed by Josh Fry ScanExitronLR: characterization and quantification of exitron splicing events in long-read RNA-seq data academic.oup.com/bioinformatics…

Tips on writing a NIH R01 on #AI. In last 6 weeks our group landed 4 NIH / National Cancer Institute R & U grants on #AI in #imaging & #medicine. I got a number of enquiries about grant writing tips. I share some thoughts below. Also free offer - Happy to review & provide f/b on your S aims page

Thread / The 5 sections of an effective Specific Aims Page when writing a R01. #ASC2023 #FOAmed 1/ Introduce the topic. Less numbers (everyone has stats), keep it short and pithy. Communicate the fierce urgency of NOW.

#AGBT23 Rendong Yang, Northwestern Medicine. Novel IGF1R-AS LncRNA by super enhancer analysis in prostate cancer. Isoforms by PacBio. Lineage & cancer specific; super enhancer regulates only this lncRNA. CRISPR KO in this lnc changes MYC and E2F pathways.

Thanks AGBT Meeting for invitation to present our lncRNA study in prostate cancer NM Urology

Faculty application season is starting up! Here's some thoughts on the process: docs.google.com/document/d/1Ye… Part of Tools for Science: docs.google.com/document/d/1jB… Also, my offer stands for 1-1 mentoring to anyone who wants to chat, just send me an email and we'll find a time!

Excited to share ScanNeo2: a comprehensive tool for neoantigen detection and immunogenicity prediction from diverse genomic and transcriptomic alterations academic.oup.com/bioinformatics…, led by @_riasc Qingxiang (Allen) Guo. Thanks for the support from NM Urology Lurie Cancer Center @NCICancerBio

We are recruiting postdocs of dry lab working on computational cancer genomics. #bioinformatics #Genomics #postdoctoral bioinformatics.org/forums/forum.p…. Please RT

It was fun to write this with Nadya Dimitrova. We tried to summarize what we've learned about transcription-regulating lncRNAs, including “stabilizer” lncRNAs that work as TF gene rheostats, activating lncRNAs, and emerging roles of lncRNAs in disease rdcu.be/dwqrQ

What does "full-length (FL) transcript" mean for PacBio Iso-Seq and how is it determined w #bioinformatics? In long-read RNA-Seq land, a read with both the 5' and 3' cDNA primer, and the polyA tail preceding the 3' end is determined to be a "full-length" (FL) read. /1

如何使用 ChatGPT 原理学会一切知识？读Wolfram 大神的神书《这就是 ChatGPT》之后的读书笔记 读了李沐大神的《使用随机梯度下降来优化人生》，忍不住拍大腿。加上前面推荐了wolfram 大神的神书《这就是 ChatGPT》，于是觉得有必要写点类似读书笔记或书评的东西。李沐的文章写于ChatGPT

I truly believe ChatGPT is next in line with a Nobel Prize😂

A Comprehensive Benchmark of Tools for Efficient Genomic Interval Querying biorxiv.org/content/10.110… #biorxiv_bioinfo

OctopusV and TentacleSV: a one-stop toolkit for multi-sample, cross-platform structural variant comparison and analysis biorxiv.org/content/10.110… #biorxiv_bioinfo

Thrilled to share our new study in Science Advances Androgen receptor–regulated lncRNA PRCAT71 promotes AR signaling through the interaction with KHSRP in prostate cancer science.org/doi/10.1126/sc… PCF Science #lncRNA #ARsignaling #CancerResearch

Northwestern Medicine scientists have discovered that a long noncoding RNA could serve as a prognostic #biomarker and therapeutic target for #ProstateCancer, per Science Advances. news.feinberg.northwestern.edu/2025/05/23/nov…

We developed a computational framework for systematic benchmarking of interval querying data structures in genomics. academic.oup.com/bib/article/26…