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Nadia Davidson

@nadia-davidson.bsky.social
299 followers 224 following 21 posts

Bioinformatican, Lab Head at WEHI, working in cancer and transcriptome sequencing analysis, former physicist. Mother, knitter, gardener.

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Reposted by Nadia Davidson
Oliver Cheng @oyc.id.au · 30/09/2026
Happy to finally announce my tool Nailpolish 💅. Feedback and suggestions are very welcome and encouraged!
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Reposted by Nadia Davidson
Jia Wei @jw-tan.bsky.social · 30/09/2026
Thrilled to be part of this incredible project! Be sure to check out Nailpolish if you're in search of powerful long-read deduplication tools! 💅
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Nadia Davidson @nadia-davidson.bsky.social · 30/09/2026
Software available at: github.com/davidsongrou...
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Nadia Davidson @nadia-davidson.bsky.social · 30/09/2026
Introducing 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.org
Nailpolish: Reference-free UMI deduplication and consensus read generation
Long-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...
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Reposted by Nadia Davidson
Changqing @changqingw.bsky.social · 03/08/2026
🥳 Check out seqsizzle at github.com/ChangqingW/S... and www.biorxiv.org/content/10.6...
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Nadia Davidson @nadia-davidson.bsky.social · 31/07/2026
👏 @changqingw.bsky.social (who just joined bluesky 30 minutes ago!)
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Reposted by Nadia Davidson
Nadia Davidson @nadia-davidson.bsky.social · 31/07/2026
Can'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!
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Nadia Davidson @nadia-davidson.bsky.social · 31/07/2026
Can'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!
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Reposted by Nadia Davidson
Cancer Bioinformatics Australia @cancerbioinfoau.bsky.social · 07/05/2026
The upcoming CBA2026 program is now live! cancerbioinformatics.au/program/ 🚨For any late breakthroughs! 🚨 We are still accepting poster abstracts (until the 22nd of May)
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Reposted by Nadia Davidson
abacbs.bsky.social @abacbs.bsky.social · 02/03/2026
We 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
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Reposted by Nadia Davidson
Tatiane Yanes @tatyanes.bsky.social · 27/02/2026
#nhmrc Investigator grant anticipated outcomes Feb 202… Also 2pm Friday 27th Feb….waiting….
media.tenor.com
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Nadia Davidson @nadia-davidson.bsky.social · 25/02/2026
For more spoilers see @alexyfyf.bsky.social's post or read the paper! Our simulation and other generated data are available to the community for use in tool development and testing. A big congrats to Alex, and all other authors for this effort!
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Nadia Davidson @nadia-davidson.bsky.social · 25/02/2026
We found lots of interesting take-aways! For example, 1) reference free long-read single-cell RNA-Seq analysis works well! But, 2) ORF and protein prediction are significantly impacted by errors rates, and 3) compute requirements remain major obstacle for de novo assembly.
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Nadia Davidson @nadia-davidson.bsky.social · 25/02/2026
New 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?
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Nadia Davidson @nadia-davidson.bsky.social · 22/01/2026
"They sometimes found they had a difficult time being taken seriously when they moved on from those men."
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Nadia Davidson @nadia-davidson.bsky.social · 22/01/2026
Nerd!
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Reposted by Nadia Davidson
Mine 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
A hex sticker with a text that reads Hello Data Science with green, yellow and pink scatterplot points in the background. There is a web address www.hellodata.science
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Dr Monique Ryan @mon4kooyong.bsky.social · 19/12/2025
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Jovana Maksimovic @jovmaksimovic.bsky.social · 26/11/2025
#abacbs2025
media.tenor.com
a group of cartoon girls are standing next to each other with their arms in the air .
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Jovana Maksimovic @jovmaksimovic.bsky.social · 26/11/2025
Great 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.com
GitHub - DavidsonGroup/CONCERT_DR: CONCERT_drug repurposing
CONCERT_drug repurposing. Contribute to DavidsonGroup/CONCERT_DR development by creating an account on GitHub.
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Reposted by Nadia Davidson
Alicia Oshlack @aliciao.bsky.social · 25/11/2025
The gang back together at #ABACBS2025 @jovmaksimovic.bsky.social @nadia-davidson.bsky.social and @belphip.bsky.social
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Reposted by Nadia Davidson
Jovana Maksimovic @jovmaksimovic.bsky.social · 25/11/2025
10 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
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Reposted by Nadia Davidson
Rob Patro @robp.bsky.social · 10/10/2025
Hi 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! 🖥️🧬
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Nadia Davidson @nadia-davidson.bsky.social · 01/07/2025
Inspired by our own (@rhea-longley.bsky.social) complex calculations, we hope this will save some valuable time ⏱️ for others! Disclaimer: please remember to check the results with your grants team and the grant application guidelines. Feedback is more than welcome! 📝
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Nadia Davidson @nadia-davidson.bsky.social · 01/07/2025
It was design with NHMRC Investigator Grant Applications in mind, but can be used for lots of purposes, like calculating the cut-off date for publication going backwards in time or when you fall out of eligibly for grants/awards based on post-PhD years.
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Nadia Davidson @nadia-davidson.bsky.social · 01/07/2025
Researchers, 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.io
NHMRC Investigator Grant Career Disruption Calculator
Free online calculator for NHMRC Investigator Grant applications. Calculate FTE years and document career disruptions.
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Reposted by Nadia Davidson
Ira Cooke @iracooke.bsky.social · 02/05/2025
We @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.au
Postdoctoral Research Fellow, Population Genomics - Townsville, QLD, Australia
James 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...
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Nadia Davidson @nadia-davidson.bsky.social · 28/03/2025
Haha, the thought trail...
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Nadia Davidson @nadia-davidson.bsky.social · 28/03/2025
Seems like LLM might not be the best for that sort of thing, or at least not yet. Out of interest did you try any of the models that do reasoning?
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Nadia Davidson @nadia-davidson.bsky.social · 28/03/2025
This is disappointing to learn... absolutely no hope for the future of humans. Although, names are pretty tricky, so I'll forgive it that.
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Nadia Davidson @nadia-davidson.bsky.social · 28/03/2025
Is 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.
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Reposted by Nadia Davidson
Nature Methods @natmethods.nature.com · 13/03/2025
An 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...
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Reposted by Nadia Davidson
Alicia Oshlack @aliciao.bsky.social · 05/03/2025
Come and set up a lab and work with us at @petermaccc.bsky.social
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Reposted by Nadia Davidson
Jonathan Göke @jonathangoeke.bsky.social · 05/02/2025
Very 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.org
Isoform-level discovery, quantification and fusion analysis from single-cell and spatial long-read RNA-seq data with Bambu-Clump
Single 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...
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Nadia Davidson @nadia-davidson.bsky.social · 10/02/2025
Our 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!
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Reposted by Nadia Davidson
Quentin Gouil @qgouil.bsky.social · 10/02/2025
No 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.org
Towards accurate, reference-free differential expression: A comprehensive evaluation of long-read de novo transcriptome assembly
Long-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...
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Nadia Davidson @nadia-davidson.bsky.social · 31/12/2024
Happy new year's eve from Melbourne. Here's a count down created by my 9yo. scratch.mit.edu/projects/111...
scratch.mit.edu
Your browser has Javascript disabled. Please go to your browser preferences and enable Javascript in order to use Scratch.
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Nadia Davidson @nadia-davidson.bsky.social · 15/11/2024
My career trajectory is starting to make sense.
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Nadia Davidson @nadia-davidson.bsky.social · 15/11/2024
Bet it works in reverse too. Everytime you hear a talk on long lashes... ah I mean long read, you'll think about visiting chemist warehouse.
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Nadia Davidson @nadia-davidson.bsky.social · 14/11/2024
HELLO 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.
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