Resolve cellular heterogeneity with Novogene Single-Cell RNA Sequencing (scRNA-seq). Using 10x Genomics Chromium and Illumina, we profile expression at individual cell level for immunology, development, cancer & beyond. #scRNAseq #SingleCell #Transcriptomics https://tinyurl.com/bdwdypby

New study maps cellular mechanisms driving fibrosis in Crohn's Disease Researchers 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…

📄 Researchers studying fibrosis in Crohn's disease have found that immune cells and endothelial cells localise around scar tissue within the submucosa, a layer of tissue beneath the inner lining of the bowel.

buff.ly/pyXek7c

#CellAtlas #scRNAseq

Reminder: Applications are currently open for two #scRNASeq workshops!

Introduction to Single-cell RNA-Seq
🗓️ May 11-15, 2026 (Virtual)

Advanced Single-cell RNA-Seq
🗓️ June 8-12, 2026 (Virtual)

Visit our blog for details and to apply! ccdatalab.org/blog

Hh and EGFR-Ras signaling promote distinct steps of tumor progression in the Drosophila follicle epithelium - Nature Communications Aberrant signaling pathway activation is a key driver of tumorigenesis. Using single-cell RNA sequencing, the authors unravel how EGFR-Ras and Hedgehog signaling promote distinct steps of tumor progre...

Our paper is now available as early access at Nature Communications! Using the #Drosophila follicle epithelium as a model, we applied #scRNAseq, #LiveImaging, and cell biological tools to unravel functions of aberrant EGFR-Ras and Hedgehog signaling.

www.nature.com/articles/s41...

New study maps cellular mechanisms driving fibrosis in Crohn's Disease The researchers discovered that the biggest build up of scar tissue takes place in the submucosa

💬 “Fibrostenosis remains a significant and unaddressed source of morbidity in Crohn’s disease and this work represents an important contribution to understanding its progression."

#scRNAseq explores cellular drivers behind fibrosis in Crohn's disease
buff.ly/pyXek7c

@helmsleytrust.bsky.social

🧬 Excited to share our new preprint!

We characterized CD4+ T cells in #SystemicSclerosis using #SingleCellRNAseq, revealing IFN-driven activation, Treg dysregulation, and Th2/Th17 expansion in disease.

📄 www.biorxiv.org/content/10.6...

#scRNAseq #Immunology #SSc

New study maps cellular mechanisms driving fibrosis in Crohn's Disease Researchers 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.

🆕 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 #scRNAseq

This echoed earlier #scRNAseq data from the lab: lung Tfh-like resident helpers (TRH) split into two subsets highly expressing Bcl6 or HIF-1α (3/10).

𝗪𝗼𝗿𝗸𝗶𝗻𝗴 𝘄𝗶𝘁𝗵 𝘀𝗰𝗥𝗡𝗔-𝘀𝗲𝗾 𝗱𝗮𝘁𝗮?
One of the decisions when selecting a dataset is understanding which Chromium chemistry was used.
Understand 10X Genomics 𝗰𝗵𝗲𝗺𝗶𝘀𝘁𝗿𝗶𝗲𝘀: v3.1 vs GEM-X v4 and how they impact dataset selection.
A reference is on the first comment.

#scRNAseq #10XGenomics #ElArkhe

Working with single-cell RNA-Seq data and wondering where to start with the analysis?
This blog includes the main steps:
www.fiosgenomics.com/single-cell-rna-seq-data...
#omics #bioinformatics #singlecell #scRNAseq

Using integrated #scRNAseq, #Immunofluorescence, and functional validation, this study shows that the #Immunosuppressive #TumorMicroenvironment contributes to tumor aggressiveness in lymphovascular invasion-positive #PDAC.

#OpenAccess: doi.org/10.1016/j.ge...

🧬 In our latest issue, Deng et al. utilized scRNA-seq to uncover the potential of a specific macrophage population in kidney injury.
'Single-cell RNA sequencing reveals the protective role of renal Cx3cr1+ macrophages in cisplatin-induced acute kidney injury' ➡️ buff.ly/ooEodld
#scRNAseq #macrophage

From #PCR, to #NGS, to #scRNAseq, yesterday’s pipe dream is today’s standard. Science follows a pattern, after all: first, something’s impossible. Then, it’s indispensable. So what’s next on that list?

Join us for a webinar this April to find out. https://bit.ly/4tJv9tD

New to scRNA sequencing? Watch our on-demand webinar, covering scRNA-seq workflows, experimental design, data analysis & applications in oncology, immunology & precision medicine.

#SingleCell #scRNAseq #Transcriptomics #Genomics #NGS #Bioinformatics #PrecisionMedicine https://tinyurl.com/2ykr9jw5

Collect #NeuralCrest Cells for #SingleCell #RNAseq from any vertebrate.

Our new paper, present an antibody-guided #FACS method to collect NCCs. No trans-genesis or in ovo manipulation required.

Demonstrated in wall #lizard #embryos using #microscopy, #RTqPCR and #scRNAseq.

doi.org/10.1111/ede....

GitHub - SONGDONGYUAN1994/scDesign3: scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics - SONGDONGYUAN1994/scDesign3

scDesign3 - although this tool doesn't have a web interface, it explores additional scenarios, such as other data modalities or even multimodal experiments
(github.com/SONGDONGYUAN...)

#bioinformatics
#scRNASeq

This paper wouldn't be possible without my wonderful co-authors: Shuang Li, Malte Lücken, and the support from the Marioni Lab and Teichmann Lab. 🤝
Huge thanks to the reviewers and community for the feedback! #SingleCell #Bioinformatics #scRNAseq #DataScience

Hola 👋
Preparando materiales de scRNA-seq, armé un notebook sobre Seurat v4 versus Seurat v5
Resumo los principales cambios conceptuales y estructurales que impactan scRNA-seq.
Si usas Seurat o piensas migrar a v5, puede serte útil.

🔗 cyntsc.github.io/single_cell_...

#scRNAseq #Seurat #SingleCell

Working with single-cell RNA-Seq data and wondering where to start with the analysis?
This blog includes the main steps:
www.fiosgenomics.com/single-cell-rna-seq-data...
#omics #bioinformatics #singlecell #scRNAseq

Join our in-person Single-Cell RNA-Seq Workshop in Berlin (March) - 3 days, fully hands-on, real data, real workflows, direct trainer support. Learn by doing, not watching.

Details & registration: www.ecseq.com

#scRNAseq #SingleCell #NGS #Bioinformatics #Berlin

We are thrilled to share the 1st pub out of the #DukeMGC. Congrats to Lab Analyst Ellora Haukenfrers' on your 1st first author paper!

We present 'A platform-agnostic evaluation of non-formalin fixed #singlecell RNA technologies'

#benchmarking #scRNAseq
www.biorxiv.org/content/10.6...

GPTBioInsightor—Leveraging LLMs for transparent scRAN-Seq cell type annotations Abstract. Large language models (LLMs) are rapidly becoming indispensable across the life‑sciences spectrum, from literature mining through clinical decisi

GPTBioInsightor—Leveraging LLMs for transparent scRAN-Seq cell type annotations. #SingleCell #scRNAseq #LLMs #AI #Bioinformatics @bioinfoadv.bsky.social 🧪🧬 🖥️
academic.oup.com/bioinformati...

Evaluating the practical aspects and performance of commercial single-cell RNA sequencing technologies. #SingleCell #scRNAseq #Benchmarking #NARgenomicsAndBioinformatics 🧪🧬 🖥️
academic.oup.com/nargab/artic...

I cant explain, how #beautifully #executed this paper is -I wonder, how we may #loose I#nterrogation/experimental skills like this in the #era of #scRNAseq and other modern technologies...which reveals what - #heterogeneity and #UMAPS

Our new pre‑print is out!

scReady – an automated and accessible pipeline for single‑cell RNA‑Seq preprocessing: Empowering novice bioinformaticians

wellcomeopenresearch.org/articles/11-43

@haessar.bsky.social @fionan-a.bsky.social @yiyicheng@mastodon.social

#scRNAseq #bioinformatics

Our new pre‑print is out!

scReady – an automated and accessible pipeline for single‑cell RNA‑Seq preprocessing: Empowering novice bioinformaticians

https://wellcomeopenresearch.org/articles/11-43

@haessar.bsky.social @fionan-a.bsky.social @yiyicheng

#scRNAseq #bioinformatics

Weekly reads 12/1/25 Context, benchmarks and reality checks for single-cell foundation models

Weekly reads 12/1/25:
Context, benchmarks and reality checks for single-cell foundation models
open.substack.com/pub/behindth...

Big takeaway: scale helps,but context, benchmarks, and classical baselines still matter.

#SpatialTranscriptomics #scRNAseq #AIinBiology #ComputationalBiology

Analyzing cell-type-specific isoform expression using IsoDiffR and long-read single-cell RNA sequencing. #SingleCell #LongRead #Sequencing #scRNAseq #Isoforms #DifferentialExpression #Bioinformaticcs #Genomics 🧪🧬 🖥️
academic.oup.com/bioinformati...

scSNViz: Visualization and analysis of Cell-Specific expressed SNVs. #SingleCell #scRNAseq #SNVs #DataVisualization #Genomics #Bioinformatics 🧪🧬 🖥️
academic.oup.com/bioinformati...

Integrating murine models and human #scRNAseq data reveals that neutrophil-derived #OncostatinM drives #AtopicDermatitis by promoting immune cell recruitment, skin inflammation, & #Pruritus-associated neuronal activation.

#OpenAccess: doi.org/10.1016/j.ge...