Reposted by Doc Rowdy#SingleCell preprints @prepub-singlecell.bsky.social · 01/10/2026Single-cell transcriptomics reveals life cycle and cell cycle gene expression dynamics during in vitro growth of two Leishmania species #SingleCell 🧪🧬🖥️ www.biorxiv.org/content/10.64898/20… 011
Doc Rowdy @scrnaseq.bsky.social · 01/10/2026www.frontiersin.org/journals/imm... 👀📊frontiersin.orgFrontiers | Ranitidine Inhibition of Breast Tumor Growth Is B Cell Dependent and Associated With an Enhanced Antitumor Antibody ResponseBackground: The histamine receptor 2 antagonist ranitidine is a commonly used, non-prescription, medication. It limits the development, growth and metastasis... 000
Reposted by Doc RowdyMwahahahahahadScientist @mads100tist.bsky.social · 24/08/2023The plot thickens 334264
Reposted by Doc RowdyJan Lammerding - Lab @lammerdinglab.bsky.social · 21/09/2026Looking for a faculty position combining research in fundamental cell and molecular biology with therapeutic discovery? Join our amazing faculty at the @weillinstitute.bsky.social at Cornell University in Ithaca, New York. academicjobsonline.org/ajo/jobs/32657 Apply by Nov. 15! Please share! 03127
Reposted by Doc Rowdy#SingleCell preprints @prepub-singlecell.bsky.social · 19/06/2026Vibrational optoacoustic detection of lipid-membrane dynamics enables label-free imaging of cell membrane potential #SingleCell 🧪🧬🖥️ www.biorxiv.org/content/10.64898/20… 011
Reposted by Doc RowdyCenk Celik @cenkcelik.bsky.social · 12/06/2026Are you interested in learning multiomics analysis for your project? Join me for a hands-on workshop at Bilimler Köyü (Village of Sciences) in Foça, İzmir for a week. #spatialtranscriptomics #scrnaseq 111
Reposted by Doc RowdyAustralian BioCommons @ausbiocommons.bsky.social · 15/06/2026Upskill in #scRNAseq! Our July workshop covers QC, normalisation, and clustering in R. Learn the ‘why’ behind the workflow with expert facilitators. Applications close 13 July: www.biocommons.org.au/events/scrna... #NCRISImpact #SingleCellbiocommons.org.auWORKSHOP: Single cell RNAseq analysis in R — Australian BioCommonsAnalysis and interpretation of single cell RNAseq (scRNAseq) data requires dedicated workflows. In this hands-on workshop we will show you how to perform single cell RNAseq analysis using a number of tool. More information Apply 031
Reposted by Doc RowdyPaola A. Marignani @pmarignani.bsky.social · 17/03/2026💨☕👩💻Excited to share our recent discovery. Tumour suppressors LKB1 and SMARCA4 working together to regulate gene expression, acting as a nexus between metabolism and chromatin remodelling. #LungCancer #CancerResearch #Epigenetics #Metabolism #LKB1 #SMARCA4 www.frontiersin.org/journals/cel...frontiersin.orgFrontiers | Tumor suppressors LKB1 and SMARCA4 functionally interact to regulate gene expression across diverse biological processes in lung cancerIntroductionThe tumor suppressor kinase liver kinase B1 (LKB1) is known to regulate the activity of the metabolic sensor AMP-activated protein kinase (AMPK),... 0286
Reposted by Doc RowdyJean de Lima @jeandelima.bsky.social · 07/03/2026Excited to share our work published in @cp-immunity.bsky.social! We investigated the role of HIF-1α in CD4 T cells using #Xenium spatial transcriptomics in infected lungs containing #TertiaryLymphoidStructures (TLS) (1/10). www.cell.com/immunity/ful...cell.comHIF-1α+ CD4+ T cells coordinate a tissue-resident immune cell network in the lungTertiary lymphoid structures are critical components of tissue immunity, necessitating better understanding of their organization and immune functions. De Lima et al. investigate the spatial and tempo... 163
Reposted by Doc RowdyEarlham Institute @earlhaminst.bsky.social · 16/03/2026🆕 New Study: Scientists working on a Gut Cell Atlas have conducted #singlecell #RNAseq on intestinal cells, discovering clusters of immune and endothelial cells localise around scar tissue in the submucosa. 🧬💻 ➡️ buff.ly/0Y9bpZN @uoe-igc.bsky.social @helmsleytrust.bsky.social #CellAtlas #scRNAseqbuff.lyNew study maps cellular mechanisms driving fibrosis in Crohn's DiseaseResearchers at the Earlham Institute, the University of Edinburgh and Heriot-Watt University have analysed gut cells to understand the drivers behind fibrosis (scarring), a common complication in Crohn’s Disease affecting 10-20% of patients. 032
Reposted by Doc RowdyPhysalia-courses@ONLINE @physaliacourses.bsky.social · 09/02/2026🚀 Course: Advanced Python for Data Science & Bioinformatics 📅 23–26 March | 🌍 Online Ready to level up your Python skills for biology? Dive into data wrangling, BioPython, visualization & machine learning, and build an end-to-end project 🐍📊🧬 www.physalia-courses.org/courses-work... #Python 052
Reposted by Doc RowdyJames Lingford @jameslingford.bsky.social · 27/02/2026A minimal PyTorch re-implementation of AlphaFold2 github.com/ChrisHayduk/... We need more stuff like this. The incentive is to always be making the new groundbreaking tool, while maintenance + improvement of "old" tools gets left behind. But there is still heaps to be gained in "old" tools 092
Reposted by Doc RowdyPLOS Biology @plosbiology.org · 25/02/2026The process of #PeerReview is vital to contemporary science, but is also under enormous strain. @carlbergstrom.com & Kevin Gross use mathematical models to dissect the threats to the long-term viability of peer review, suggesting ways to stabilize it @plosbiology.org 🧪 plos.io/4kR02bo 0133
Reposted by Doc RowdyDanai Vagiaki @danaivagiaki.bsky.social · 08/02/2026As scRNA-seq cohorts grow in scale (e.g. FinnGen, TenK10K), so does the need for methods that can handle millions of cells from thousands of donors. LIVI's scalable design enables systematic trans-eQTL discovery in such datasets, revealing cellular mechanisms underlying complex disease risk. 11/n 121
Reposted by Doc RowdyStegle Lab @steglelab.bsky.social · 10/02/2026Working on trans-eQTL mapping with population-scale scRNA-seq? Meet LIVI, our latest framework that enables efficient trans-eQTL mapping at single-cell resolution across cohorts of hundreds to thousands of donors. Preprint: doi.org/10.64898/202... Summary in the 🧵 below by @danaivagiaki.bsky.socialdoi.org 0114
Reposted by Doc RowdybioRxiv Genomics @biorxiv-genomic.bsky.social · 17/02/2026Allele-specific splicing modulates protein isoforms and Alzheimer's risk www.biorxiv.org/content/10.64898/20… 041
Reposted by Doc Rowdybioinfoblogs @bioinfoblogs.bsky.social · 17/02/2026📝 Researchers identify potential immune evasion mechanism in premalignant lung lesions ✍️ RNA-Seq Blogrna-seqblog.comResearchers identify potential immune evasion mechanism in premalignant lung lesionsArticle de RNA-Seq Blog 011
Reposted by Doc Rowdybioinfoblogs @bioinfoblogs.bsky.social · 14/02/2026📝 Nanopore sequencing of intact aminoacylated tRNAs ✍️ RNA-Seq Blogrna-seqblog.comNanopore sequencing of intact aminoacylated tRNAsArticle de RNA-Seq Blog 011
Reposted by Doc RowdyScience Magazine @science.org · 11/02/2026When asked to draw a scientist, school-age kids in the United States are increasingly sketching women, according to a study from 2018. Read more on #WomenInScienceDay: scim.ag/4qFrPON 324263
Reposted by Doc RowdyTorsten Seemann @torstenseemann.bsky.social · 09/02/2026A LaTeX package to add coffee strains to your documents😆 framagit.org/Pathe/coffee...framagit.orgPatrick / coffeestains · GitLabThis package provides an essential feature to LaTeX that has been missing for too long. It adds a coffee stain to your documents. A lot of time can... 071
Reposted by Doc RowdyStephen Turner @stephenturner.us · 06/02/2026Biological data governance in an age of AI www.science.org/doi/10.1126/... #biosecurity 241
Reposted by Doc RowdyKaren K. Ho @karenho.bsky.social · 05/02/2026the Epstein files are really devastating because they remind me of how many girls and women miss out on professional opportunities, mentorship and careers because of how many powerful, rich and influential men only view girls and women — and interactions with them — through the lens of sex 293197364615
Doc Rowdy @scrnaseq.bsky.social · 04/02/2026"Both research papers and salami can be cut into multiple, smaller pieces." Insightful. en.wikipedia.org/wiki/Least_p...en.wikipedia.orgLeast publishable unit - Wikipedia 000
Reposted by Doc RowdyLouise Huuki-Myers @lahuuki.bsky.social · 04/11/2025Proud to announce our paper ‘Transcriptomic Analysis of the Human Habenula in Schizophrenia’ from @lieberinstitute.bsky.social is the cover article for the November issue of the American Journal of Psychiatry! 🧠 #HabenulaLIBD #snRNAseq #Habenula doi.org/10.1176/appi...doi.orgTranscriptomic Analysis of the Human Habenula in Schizophrenia | American Journal of PsychiatryObjective: The objective of this study was to define the molecular neuroanatomy of the human habenula (Hb) and identify transcriptomic differences between brains of individuals with schizophrenia and ... 12614
Reposted by Doc RowdybioRxiv Genetics @biorxiv-genetic.bsky.social · 03/02/2026A Most Powerful Test for Gene-Gene Interaction in the Presence of Main Effects www.biorxiv.org/content/10.64898/20… 001
Reposted by Doc RowdyStevoisiak @stevoisiak.bsky.social · 03/02/2026I made a filterlist for uBlock Origin to remove Generative AI features on websites. Includes blocks for * Google AI Summaries * YouTube Ask button & chat summaries * GitHub Copilot * Facebook AI chat * X's Grok buttons * Deviantart DreamUp * Booru AI images * And more github.com/Stevoisiak/S... 3122405011926
Reposted by Doc RowdyNikolai Slavov @slavov-n.bsky.social · 01/02/2026A reminder that proteins are highly dynamic molecules. 🟧 We have made much progress in measuring & predicting static protein structures, but the dynamics that animate life remain challenging to measure & model. 23310
Reposted by Doc RowdyStephen Turner @stephenturner.us · 31/01/2026Guide to multi-omics integration with toy examples: supervised latent components (DIABLO), unsupervised shared/partial/unique structure (DIVAS), VAEs/conditional VAEs, and key baselines (MOFA, JIVE, SNF) with practical tips + code. github.com/Trhova/Multi... 0161
Reposted by Doc RowdyStephen Turner @stephenturner.us · 30/01/2026Advancing regulatory variant effect prediction with AlphaGenome www.nature.com/articles/s41... 🧬💻🧪 Code: github.com/google-deepm... Author roundtable: www.youtube.com/watch?v=V8lh... 051
Doc Rowdy @scrnaseq.bsky.social · 30/01/2026This preprint combines cell-line scRNA-seq reanalysis with bulk LUAD checks in cBioPortal. The cross-dataset consistency for metabolic and cell cycle terms is encouraging. 180
Reposted by Doc RowdyFlorian Jug @florianjug.bsky.social · 28/12/2025🚨 Alarm!!! 🚨 AI/ML course for microscopy image analysis!!! 🧐 In 2026 at Janelia (@hhmijanelia.bsky.social), no tuition, housing and meals provided! Isn’t that borderline unbelievable?!? 20 students, ~14 TAs and lecturers 🗓️ June 4-18 2026 ✍️ Jan 15 2026 ✍️ 🔁 pls!! www.janelia.org/you-janelia/...janelia.orgDeep Learning for Microscopy Image AnalysisTopics The following will be covered extensively during lectures, exercises, and project work: Image denoising and restoration (fully supervised and self-supervised) Image translation (e.g., 07962
Reposted by Doc Rowdycallista yee @csybio.bsky.social · 26/11/2025I was lucky enough to inherit a bunch of racks where a graduate student had labelled all of them with Rack jokes 😂, perfect. I am dead at Racksputin. 1449
Doc Rowdy @scrnaseq.bsky.social · 26/11/2025Most of what makes cells functionally distinct happens at the post-transcriptional level, but we spent a decade obsessing over transcriptomics. scRNAseq is powerful precisely because it's incomplete. It forces us to think about what it doesn't capture. 050
Reposted by Doc RowdyJovana 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 Doc RowdyNature @nature.com · 25/11/2025Nature research paper: Semantic design of functional de novo genes from a genomic language model go.nature.com/48uEnAngo.nature.comSemantic design of functional de novo genes from a genomic language model - NatureBy learning a semantics of gene function based on genomic context, the genomic language model Evo autocompletes DNA prompts to generate novel genes encoding protein and RNA molecules with defined activities, whose sequences generalize beyond those found in nature. 0176
Doc Rowdy @scrnaseq.bsky.social · 25/11/2025scRNAseq forced us to realize that cell types we'd carefully defined in textbooks for decades were meaningless—they were just convenient categories drawn around the densest clusters in transcriptional space. Nature doesn't actually sort cells that way. 140
Doc Rowdy @scrnaseq.bsky.social · 25/11/2025Single-cell RNA-seq is younger than the iPhone. 🤯 The first bona fide scRNA-seq transcriptomes were published in 2009 by Tang et al., who sequenced individual mouse cells and showed you could capture a whole transcriptome from a single cell. From “sci-fi” to standard tool in just over a decade... 161
Reposted by Doc RowdyPhysalia-courses@ONLINE @physaliacourses.bsky.social · 17/11/2025We have started the course on #scRNAseq using R and @bioconductor.bsky.social with Jacques Serizay @almeidasilvaf.bsky.social & an international cohort of attendees working on very different cool projects. #singlecell #RNAseq #Genomics #Bioinformatics 081
Reposted by Doc RowdyMing Tommy Tang @tommytang.bsky.social · 16/11/20251/ Mapping quantitative data to color www.nature.com/articles/nm...nature.comMapping quantitative data to colorNature Methods - Data structure informs choice of color maps. 132