Xueyi Dong 董雪漪
@DongXueyi
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Bioinformatics postdoc @WEHI_research. @ZJU_china alumni. Bioconductor Community Advisory Board. Expert in RNA-seq. Photographer. Cat person🐱
Melbourne, Victoria
Joined December 2017
Our long read benchmarking work is finally published🥳
Long-read sequencing tools can capture the full picture of genomes and transcriptomes. An Analysis assesses the performance of long-read RNA sequencing analysis tools including isoform detection and differential expression analysis workflows. https://t.co/jbvKS7NX2b
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Spatial isoform sequencing at sub-micrometer single-cell resolution reveals novel patterns of spatial isoform variability in brain cell types https://t.co/440VwCrOV2
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Incorporating exon-exon junction reads enhances differential splicing detection https://t.co/b5Hsn6619i
#biorxiv_bioinfo
biorxiv.org
Motivation RNA sequencing (RNA-seq) is a gold standard technology for studying gene and transcript expression. Different transcripts from the same gene are usually determined by varying combinations...
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We are happy to share that our SG-NEx manuscript (led by @chenying927, @nadia_davidson, @yukkeiwan and @JonathanGoeke), is now out with open access: https://t.co/om90nZHvlb, together with an update release of SG-NEx data v0.6.0!
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Today marks the beginning of OpenRxiv, which replaces bioRxiv and medRxiv, the world's largest preprint platform for life and medical science @openrxiv
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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. Thnx to all contributors incl. @QGouil for the pea data!
Towards accurate, reference-free differential expression: A comprehensive evaluation of long-read de novo transcriptome assembly https://t.co/CR7YjdjTRW
#biorxiv_bioinfo
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How do we detect spatially variable genes (SVGs) in spatial transcriptomics? In our Nature Communications review, we categorize 34 computational methods into three categories: ✅ Overall SVGs ✅ Cell-type-specific SVGs ✅ Spatial-domain-marker SVGs https://t.co/heTI8pCWAi 1/1
link.springer.com
Nature Communications - In the analysis of spatially resolved transcriptomics data, detecting spatially variable genes (SVGs) is crucial. Numerous computational methods exist, but varying SVG...
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edgeR v4: powerful differential analysis of sequencing data with expanded functionality and improved support for small counts and larger datasets
academic.oup.com
Abstract. edgeR is an R/Bioconductor software package for differential analyses of sequencing data in the form of read counts for genes or genomic features
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I've been spending all my CNYs at Melbourne since 2018. Missing my family and friends now. Maybe I should go back home for the next new year.
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"RNA biology hasn't really been possible to study until the availability of high-quality long-read RNA sequencing." Listen to the exciting use of targeted @PacBio Iso-Seq of SNCA for Parkinson's Disease research by Mina Ryten's group at UCL. They discovered a surprising
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We are recruiting a full time teaching-focused lecturer in Bioinformatics and Health Technology at @hkumed @hkusbms . Check it out! https://t.co/f2F7oU7zlc
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"I will teach myself mathematics from books." The books:
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As alumni I'm sad to see a mit professor publicly shaming chinese students in a top conference without citing credible sources. The more serious question is: did she make it up? I dont see any sensible person would make such a confession. @MIT @NeurIPSConf
Mitigating racial bias from LLMs is a lot easier than removing it from humans! Can’t believe this happened at the best AI conference @NeurIPSConf We have ethical reviews for authors, but missed it for invited speakers? 😡
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Mitigating racial bias from LLMs is a lot easier than removing it from humans! Can’t believe this happened at the best AI conference @NeurIPSConf We have ethical reviews for authors, but missed it for invited speakers? 😡
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The wait is over!! We are thrilled to announce that we have chosen Spatial Proteomics as 2024’s Method of the Year! 🥳 For more on Spatial Proteomics and a road map to this special issue, please see this month’s Editorial or read on in this thread. https://t.co/phXooJzJda
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“I hope I can find... new treatment targets, to bring hope to more patients.” 🦸♀️WEHI superhero Lingshuang Chen, is investigating small cell lung cancer, a less common but fast growing form of the disease. Find out her origin story 👇 https://t.co/a7Sh9tdD15
wehi.edu.au
PhD student Lingshuang Chen is investigating small cell lung cancer, a less common, but fast spreading form of the disease.
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Transcriptome-wide splicing network reveals specialized regulatory functions of the core spliceosome | Science
science.org
The spliceosome is the complex molecular machinery that sequentially assembles on eukaryotic messenger RNA precursors to remove introns (pre-mRNA splicing), a physiologically regulated process...
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The complete telomere-to-telomere sequence of a mouse genome | Science
science.org
The current reference genome of Mus musculus, GRCm39, has major gaps in both euchromatic and heterochromatic regions associated with repetitive sequences. In this work, we have sequenced and assemb...
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Gene behind orange fur in cats found at last | Science | AAAS
science.org
After 60 years, scientists know why gingers, calicos, and tortoiseshells look the way they do
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