Latest posts tagged with #snRNAseq on Bluesky
I'd like to thank 🙏🏽 @cynthiasc.bsky.social for her 3 years at @lieberinstitute.bsky.social working in my team analyzing data generated by @kr-maynard.bsky.social et al.
Cynthia led our first foray into the world of multi-omics data (snRNA-seq + snATAC-seq)
#multiome #snRNAseq #scATACseq
TSNE plot and hierarchical clustering of cell types in snRNA-seq data from human ERC
In addition we generated the largest public ERC #snRNAseq dataset, 122k nuclei clustered into 38 fine resolution sub-clusters. Taking a close look at the cellular diversity of the brain region 🔍 🦠
Excited to share that our article on accurate sample deconvolution of pooled snRNA-seq data using sex-dependent gene expression patterns is live on NAR Genomics and Bioinformatics! 🎉
Check it out here: doi.org/10.1093/narg...
#NARGenomicsandBioinformatics #snRNAseq #Genomics #Bioinformatics
New preprint on bioRvix! We show how cortical sensory-modality identity is instructed by a combinatorial cell-adhesion and activity codes, using #snRNAseq #spatialtranscriptomics #functional imaging. Congrats to everyone on this work! @guillelbendito.bsky.social @neuroalc.bsky.social
Para refinar la señal de habénula del vecino tálamo utilizamos nuestros datos de #snRNAseq para #deconvolución de nuestras muestras a granel #bulkRNA, estimando así la proporción de Hb. Estas proporciones las usamos para controlar diferencias en disecciones en el análisis de expresión diferencial 📊
Para contextualizar, integramos nuestros datos de #snRNAseq de Hb humana con datos #singlecell previamente publicados de Hb de ratón por el laboratorio de @gstuber.bsky.social. Algunos grupos de células neuronales como las LHb.2 enriquecidas por OPRM1 en humano aparecen conservadas entre especies 🐁
Creamos un mapa molecular con #snRNAseq de la Hb humana para entender la diversidad neuronal a un nivel molecular en esta región del cerebro única. Nuestros datos de 7 donadores control produjeron 16 mil núcleos y 17 grupos celulares, incluyendo 7 poblaciones neuronales laterales y 3 medias en Hb 🧪
Acá va en español 🇲🇽
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"¡Estamos orgullosos de anunciar que nuestro artículo ‘Análisis Transcriptómico de la Habénula Humana en Esquizofrenia’ es el artículo de portada de la edición de noviembre del American Journal of Psychiatry!" 🧠 #HabenulaLIBD #snRNAseq #Habénula doi.org/10.1176/appi...
To refine habenula signal from neighboring thalamus we utilized our #snRNAseq data to perform #deconvolution on our bulk samples, estimating proportion of habenula. These proportions were used to control for dissection differences in the differential expression analysis
We’ve created a #snRNAseq molecular atlas of the human Habenula to understand neuronal diversity on a molecular level in this unique brain region. Our snRNA-seq data on 7 control donors yielded 16k nuclei and 17 clusters, including 7 lateral & 3 medial Hb neuron populations 🧪
Proud 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...
Opposite directions of association of higher physical activity and higher insulin resistance with human skeletal muscle cell type abundance and fiber type-level gene expression #snRNAseq #SingleNucleus #RNAseq #genomics 🧪🧬🖥️ www.biorxiv.org/content/10.1...
Read the study: precisioncellsystems.com/resources/?_...
#SingleCell #snRNAseq #Automation #SamplePrep #Neuroscience #PrecisionCellSystems
(1/10) We’re excited to share our new preprint (doi.org/10.1101/2025...), which uncovers the spatiomolecular landscape of the human nucleus accumbens (NAc), by integrating snRNA-seq with Visium spatial transcriptomics across 10 control donors. 🧠 #NAcLIBD #snRNAseq #10xVisium
Highlights from an exciting Day 2 at @endocrinesociety.bsky.social #ENDO2025 including my talk on #snRNAseq in #ACC at the #adrenalcancer symposium! @unibirmingham.bsky.social @uhbtrust.bsky.social
We are excited to host rising junior Daniel (of #VassarBiochem) for #NationalMSSociety (#NMSS) Undergrad Summer Research Program! Working with #longread #snRNAseq data, he'll examine #CNStissue #lesions in #MS patients & GEX with #cytomegalovirus. Outside the lab, he enjoys trumpet & reading. 🧬
![[2025-04-23] Journal club on "[...] deconvolution of pooled snRNA-seq using sex-dependent gene expr"](https://cdn.bsky.app/img/feed_thumbnail/plain/did:plc:v776v3myqwukex76bmiivcup/bafkreigox5u4ige36irzgwx3egj37xnlblhqucsbz2sjmcxj6coufs5ife)
Hi! Check my journal club talk: smart ML method to deconvolute pooled snRNA-seq using sex-specific expression🧬
Thanks @daylab.bsky.social & @rphillips3.bsky.social for this approach🙌
🎥 youtu.be/zpeCFwYfV3o
🛝 speakerdeck.com/manishabarse
#snRNAseq #ML #Bioinformatics @lieberinstitute.bsky.social
Using Sable Promethion #Metabolic Cages, a key study in Nature ties metabolic & genetic evidence to reveal how GIPR antagonists, but not agonists, need GLP-1R signaling to reduce #BodyWeight in mice. 🧪
ow.ly/8pPn50VNQGL
#Obesity #Diabetes #Metabolism #Neuroscience #GIP #GLP #GLP1R #DVC #snRNAseq
The resulting cell type proportions had a large range across the different #DLPFC samples, and were not always correlated with the paired #snRNAseq proportions ⚠️
Testing these #deconvolution methods was made possible by a really cool multi-assay dataset from consecutive slices of #DLPFC tissue blocks 🧠1. Bulk RNA-seq 🧬 2. #snRNAseq as the reference 🦠 3. #RNAScope serving as a orthogonal measurement of cell type proportions 🔬
💥 Angela Dorigatti and Sabrina putting in the work! Making that easy single-cell spatial magic happen and repping hard for the Scroggins Lab on the Big campus! 💪🔬🔥
#WomenInSTEM #SingleCell #SpatialBiology #Teamwork #ScrogginsLab#SupportMomsAndBabies #WomenInSTEM #snRNAseq
Watch a new webinar showcasing how Lite Yang (Washington University in St. Louis) harnessed the power of Xenium #singlecellspatial and multiomic #snRNAseq to create detailed, multimodal maps of cell projections in the mouse #brain: bit.ly/4je4uiB
Detail of Figure 1: Schematic illustrating the strategy for isolating single nuclei from purified murine glomeruli, with podocyte-specific deletion of YAP or TAZ. UMAP plots show distinct clusters of podocytes.
📣📣📣 Latest news from the NephroLab Cologne – more specifically, from our 🦛 Hippo- Team:
Our snRNA-Seq study on YAP and TAZ in kidney podocytes is now online open access in JASN! 🥳 🎉 🐙
Huge thanks to everyone on the team and the incredibly thorough reviewers at […]
[Original post on social.cologne]
3 images of nuclei suspensions, featuring varying levels of debris and uniformity, followed by 2 bar plots showing yield and quality of each nuclei isolation method.
Data quality in #scRNAseq and #snRNAseq is really important. We spent 3 years testing different nuclei isolation protocols. The dataset I'm working on atm has a median value of 0.016% reads derived from mitochondria per cell.
Find out how in our new preprint. (;
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In @naturecomms.bsky.social , @hjerling-leffler.bsky.social and team at @ki.se integrated #GWAS with #snRNAseq data from the Human Brain Atlas revealing that the genetic risk for SCZ is enriched in the hippocampus & amygdala, further confirmed with fMRI. www.nature.com/articles/s41...
Reading now: Unveiling adipose populations linked to metabolic health in obesity by I Reinisch et al. #adipose #RNAseq #snRNAseq #SingleNucleus 🧬🖥️🧪
Reading now: Accurate quantification of nascent and mature RNAs from single-cell and single-nucleus RNA-seq by @delaneyksull.bsky.social @guillaumeolesan.bsky.social @pmelsted.bsky.social @lpachter.bsky.social et al. #RNAseq #scRNAseq #snRNAseq #SingleCell #SingleNucleus
Authors present types of orthogonal and functional validation experiments to strengthen preliminary findings obtained using #scRNAseq & #snRNAseq transcriptomics, and details some of the challenges/limitations of these approaches.
www.nature.com/articles/s41...
Spatial and single-nucleus transcriptomic analysis of genetic and sporadic forms of Alzheimer’s disease. 10x Genomics #visium + Parse Biosciences #snRNAseq
www.nature.com/articles/s41...
Looking forward to getting my money's worth out of my MacBook next week. Time to hunker down. #transcriptomics #snRNAseq
