Reposted by Nadia DavidsonOliver Cheng @oyc.id.au · 30/09/2026Happy to finally announce my tool Nailpolish 💅. Feedback and suggestions are very welcome and encouraged! 063
Reposted by Nadia DavidsonJia Wei @jw-tan.bsky.social · 30/09/2026Thrilled to be part of this incredible project! Be sure to check out Nailpolish if you're in search of powerful long-read deduplication tools! 💅 032
Nadia Davidson @nadia-davidson.bsky.social · 30/09/2026Introducing Nailpolish 💅 by @oyc.id.au & @jw-tan.bsky.social. It deduplicates long-reads with UMIs via consensus calling to cut errors, shorturl.at/F9pV6. It works reference-free i.e. pre-alignment and is written in rust for speed. Applicable to any long-read experiment with UMIs. Feedback welcome!biorxiv.orgNailpolish: Reference-free UMI deduplication and consensus read generationLong-read sequencing captures full-length transcripts but suffers elevated error rates, and PCR duplicates can distort quantification unless accounted for with UMIs. We present Nailpolish, a fast refe... 160
Reposted by Nadia DavidsonChangqing @changqingw.bsky.social · 03/08/2026🥳 Check out seqsizzle at github.com/ChangqingW/S... and www.biorxiv.org/content/10.6... 011
Nadia Davidson @nadia-davidson.bsky.social · 31/07/2026👏 @changqingw.bsky.social (who just joined bluesky 30 minutes ago!) 000
Reposted by Nadia DavidsonNadia Davidson @nadia-davidson.bsky.social · 31/07/2026Can't work out the barcode/UMI structure in your sequencing data? Worried about adapter artifacts? Seqsizzle may be what you need. Work from Changqing Wang 🎉 (@mritchieau.bsky.social lab): visualisation 👀+ k-mer enrichment analysis for primers/adapters/barcode/UMI etc. Designed for long-read data! 031
Nadia Davidson @nadia-davidson.bsky.social · 31/07/2026Can't work out the barcode/UMI structure in your sequencing data? Worried about adapter artifacts? Seqsizzle may be what you need. Work from Changqing Wang 🎉 (@mritchieau.bsky.social lab): visualisation 👀+ k-mer enrichment analysis for primers/adapters/barcode/UMI etc. Designed for long-read data! 031
Reposted by Nadia DavidsonCancer Bioinformatics Australia @cancerbioinfoau.bsky.social · 07/05/2026The upcoming CBA2026 program is now live! cancerbioinformatics.au/program/ 🚨For any late breakthroughs! 🚨 We are still accepting poster abstracts (until the 22nd of May) 022
Reposted by Nadia Davidsonabacbs.bsky.social @abacbs.bsky.social · 02/03/2026We are delighted to announce that #ABACBS2026 will be held at RMIT, Melbourne CBD campus from 16th to 20th November 2026. Big thanks to A/Prof. Sonika Tyagi and team for leading this years organising! More details and official conference launch to follow! #bioinformatics @combine1.bsky.social 0106
Reposted by Nadia DavidsonTatiane Yanes @tatyanes.bsky.social · 27/02/2026#nhmrc Investigator grant anticipated outcomes Feb 202… Also 2pm Friday 27th Feb….waiting….media.tenor.coma man wearing a suit and tie is standing in a field of yellow flowersALT: a man wearing a suit and tie is standing in a field of yellow flowers 9193
Nadia Davidson @nadia-davidson.bsky.social · 25/02/2026New paper from my group led by @alexyfyf.bsky.social. We started with simple questions: what is the best way to do differential analysis with long-read RNA-seq without a reference genome? and are long-reads fulfilling their promise of accurate transcript reconstruction compared to short-read? 1103
Reposted by Nadia DavidsonMine Doğucu @minedogucu.com · 14/01/2026📖 Big news! We just released the first five chapters of our new book, Hello Data Science. It is a fully open-access resource written for beginners. Please help us spread the word! A few points about the book are below 👇 🔗 www.hellodata.science #rstats #datascience #tidyverse 419980
Reposted by Nadia DavidsonJovana Maksimovic @jovmaksimovic.bsky.social · 26/11/2025#abacbs2025media.tenor.coma group of cartoon girls are standing next to each other with their arms in the air .ALT: a group of cartoon girls are standing next to each other with their arms in the air . 2194
Reposted by Nadia DavidsonJovana Maksimovic @jovmaksimovic.bsky.social · 26/11/2025Great work by Hengxin Pan presenting at #abacbs2025 from @nadia-davidson.bsky.social lab @wehi-research.bsky.social CONCERTDR: an R package with a comprehensive suite of tools for drug response data analysis github.com/DavidsonGrou...github.comGitHub - DavidsonGroup/CONCERT_DR: CONCERT_drug repurposingCONCERT_drug repurposing. Contribute to DavidsonGroup/CONCERT_DR development by creating an account on GitHub. 043
Reposted by Nadia DavidsonAlicia Oshlack @aliciao.bsky.social · 25/11/2025The gang back together at #ABACBS2025 @jovmaksimovic.bsky.social @nadia-davidson.bsky.social and @belphip.bsky.social 0253
Reposted by Nadia DavidsonJovana Maksimovic @jovmaksimovic.bsky.social · 25/11/202510 incredible years of bioinformatics and computational biology community building by @abacbs.bsky.social - enjoying catching up with old friends at #abacbs2025 🥂 @aliciao.bsky.social @nadia-davidson.bsky.social @shazanfar.bsky.social @ellispatrick.bsky.social Jean Yang Belinda Phipson Milica Ng 0286
Reposted by Nadia DavidsonRob Patro @robp.bsky.social · 10/10/2025Hi bioinformatics, genomics and CS friends! Please help me spread the word. I'm hiring a postdoc! Come work on cutting edge method development in algorithmic genomics with me and my group at @umdscience.bsky.social! 🖥️🧬 03137
Nadia Davidson @nadia-davidson.bsky.social · 01/07/2025Researchers, if you have career disruptions e.g. parental leave 👶, and would like a simple way to calculate full-time equivalent (FTE) years you might like our new calculator, eramezani.github.io/career/ - Written by @eramezani.bsky.social 🙌. Feel free to share around.eramezani.github.ioNHMRC Investigator Grant Career Disruption CalculatorFree online calculator for NHMRC Investigator Grant applications. Calculate FTE years and document career disruptions. 135
Reposted by Nadia DavidsonIra Cooke @iracooke.bsky.social · 02/05/2025We @marine-omics.bsky.social are hiring. We're looking for a postdoc in population genomics. @janstrugnell.bsky.social careers.jcu.edu.au/jobs/postdoc...careers.jcu.edu.auPostdoctoral Research Fellow, Population Genomics - Townsville, QLD, AustraliaJames Cook University (JCU) is creating a brighter future for life in the Tropics and beyond, through education and research that makes a difference locally and globally. We now have an opportunity a... 02028
Nadia Davidson @nadia-davidson.bsky.social · 28/03/2025Is there an AI that can rewrite CVs according to the needs of each grant application? Genuinely interested. Imagine how much research we could do if we weren't reformatting CVs constantly. 120
Reposted by Nadia DavidsonNature Methods @natmethods.nature.com · 13/03/2025An Analysis presents benchmarking results from the Singapore Nanopore Expression consortium project, plus a valuable resource of datasets generated from various long-read and short-read RNA sequencing technologies. @jonathangoeke.bsky.social @astar-gis.bsky.social www.nature.com/articles/s41... 0157
Reposted by Nadia DavidsonAlicia Oshlack @aliciao.bsky.social · 05/03/2025Come and set up a lab and work with us at @petermaccc.bsky.social 068
Reposted by Nadia DavidsonJonathan Göke @jonathangoeke.bsky.social · 05/02/2025Very happy to release the single cell and spatial long read RNA seq module for our transcript discovery and quantification tool Bambu (Bambu-clump) www.biorxiv.org/content/10.1...biorxiv.orgIsoform-level discovery, quantification and fusion analysis from single-cell and spatial long-read RNA-seq data with Bambu-ClumpSingle cell and spatial transcriptomics have dramatically changed how we can profile RNA from heterogenous biological samples. Combining single cell and spatial profiling with long read RNA-Seq promis... 1156
Nadia Davidson @nadia-davidson.bsky.social · 10/02/2025Our new paper examining how to analyse longread RNA-seq with no reference genome. We compare approaches for assembly and downstream analysis, from transcript accuracy to differential expression. Lead by @alexyfyf.bsky.social. Thnx to all contributors incl. @qgouil.bsky.social for the pea data! 12811
Reposted by Nadia DavidsonQuentin Gouil @qgouil.bsky.social · 10/02/2025No genome, no problem! Check out @nadia-davidson.bsky.social and Alex Yan’s benchmark of reference-free Diff Expr. Helping us out with our 🌱 transcriptomes! www.biorxiv.org/content/10.1...biorxiv.orgTowards accurate, reference-free differential expression: A comprehensive evaluation of long-read de novo transcriptome assemblyLong-read RNA sequencing has significantly advanced transcriptomics by enabling the full length of transcripts to be assessed. However, current analysis methods often depend on a high-quality referenc... 061
Nadia Davidson @nadia-davidson.bsky.social · 31/12/2024Happy new year's eve from Melbourne. Here's a count down created by my 9yo. scratch.mit.edu/projects/111...scratch.mit.eduYour browser has Javascript disabled. Please go to your browser preferences and enable Javascript in order to use Scratch. 020
Nadia Davidson @nadia-davidson.bsky.social · 14/11/2024HELLO Blue Sky! I have arrived, and am looking forward to all the love, nice smelling roses, cute baby animal, amazing science etc.... and hopefully some civilized human interactions too. 060