Jun 11
Coming soon, I'll be happy to announce a number of online and in-person courses and workshops during the 2026-2027 academic year, sneak preview: RNAseq, snRNAseq, multiomics, and neurodegenerative diseases 🧠
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Joan Chang retweeted
May 31
The first snRNASeq & spatial transcriptomic analysis of bronchoscopic cryobiopsies from patients with Early IPF & preserved pulmonary functions is out on @biorxivpreprint and message is Early IPF is IPF‼️
biorxiv.org/content/10.64898…
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May 31
snRNASeq of Early IPF lungs reveals emergence of aberrant basaloid cells & alveolar intermediate epithelial states & marked loss of AT2 and AT1 cells in early IPF.
These changes associate with subsequent disease progression 🙀
#EarlyIPFisIPF
biorxiv.org/content/10.64898…
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May 29
@MadelynJBlake performed snRNAseq of control and PAH samples and then compared to publically available data from NASH and Fontan samples:
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May 25
解剖学的な神経の興奮・抑制についての仮説を念頭に置くと
世に蔓延る、他人に対してのMBTIなどのネット無料診断、それに準ずる世迷い言が
いかにスティグマを生産してるかを想像することができる
相手のことをよく知るなら、snRNAseqを実践してみよう！
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Does your #lab run #SingleCell and #SingleNucleus analyses, such as #snRNAseq? As this scientist from the German Cancer Research Center (DKFZ) shares, the LUNA-FX7 Automated #CellCounter can be a real game-changer!
buff.ly/6pCFwpW
#scRNAseq #Genomics #Transcriptomics
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May 4
I'm excited to announce I'll be starting the Kaji lab at @MountSinaiPsych in July. The lab will employ multiomic (snRNAseq, snATACseq, and spatial transcriptomics) and electrophysiology study brain development and disease. Grateful for all the help along the way!
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3D #SpatialTranscriptomics
Whole cardiomyocyte in adult🐭🫀
10x 10 µm cryosections
3.5 µm BMKMANU S3000 ST chips
WGA stain-Cellpose➡️cell boundary
Dynamic time warping Optimal transport Centroid distance ➡️3D registration
2.7k genes/cell
vs 10x VisiumHD, snRNAseq
Intracellular RNA asymmetry
Mito-metabolism at proximal end
Neuronal-like signaling at distal end
biorxiv.org/content/10.64898…
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Apr 29
Thats true (hence more common to see nuclear snRNAseq in brain) but if that is the explanation here then the expt is incompetent.
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Apr 11
Excited to present my latest work “Comparative #snRNAseq reveals plasticity of shoot-borne root initiation under waterlogging,” at the 1st #SoCal Single Cell Retreat, organized by @UCRiverside @UCLA @Caltech Thanks to the sponsors @10xGenomics @CompleteGenomic @HCRimaging
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Mar 22
singlecell genomics(snRNAseq/snATACseq/空間的transcriptmics)はAD/PD/ALS/FTDに於る選択的神経細胞脆弱性分子基盤を解明しつつある
Perturb-seq等の摂動screenとの統合で記述的atlasから因果機序解明/治療標的同定へのPardigm Shiftが進んでいる
OA
#genomics
#papers
jci.org/articles/view/199841
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Mar 19
2⃣A meta-analysis of 4 snRNAseq datasets (SingleBrain) created the largest cell-specific brain eQTL resource to date (n=983 samples).
It points to a lot of interesting links to neurological disease, including Alzheimer's and Parkinson's disease.
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Mar 18
Xie et al.’s work may provide a potential explanation for the pathogenesis of #PTSD and facilitate the discovery of novel therapeutic targets for drug development. Moreover, it may shed light on the therapeutic mechanisms of #cannabidiol (#CBD).
#snRNAseq
mdpi.com/2073-4425/15/4/519
ALT GSEA analysis of all genes in the InNs from the control group, model group, and CBD group. (A) GSEA analysis of all genes of the model group vs. the control group. (B) GSEA analysis of all genes of the CBD group vs. the model group. The green line represents the running ES as the analysis moves down the ranked list. The value at the peak is the final ES. Genes enriched in the model group are depicted as positive ES (red), genes enriched in the control group are depicted as negative ES in blue. (B) GSEA analysis of all genes of the CBD group vs. model group. The green line represents ES as the analysis moves down the ranked list. The value at the peak is the final ES. Genes enriched in the CBD group are depicted as positive ES (red), and genes enriched in the model group are depicted as negative ES in blue.
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Mar 11
Interrogation of our snRNAseq data revealed a macrophage phenotype with impaired efferocytosis and heightened CD47 expression to further disrupt macrophage efferocytosis:
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Proud of this pre-print led by Victoria Ho, assistant prof at UCLA, who has discovered a transcriptomic signature for epilepsy associated microglia in a model of temporal lobe epilepsy. There is a treasure trove of snRNAseq data on epilepsy here. biorxiv.org/content/10.64898…
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How can #SingleCell & #SingleNucleus #lab workflows be optimized? 👩🔬⚡ Join our #webinar on Weds 11th March, held in collaboration with @SelectScience, to learn from our expert panel!
buff.ly/CAV5i01
#snRNAseq #scRNAseq #CellCount #CellViability #QC
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Feb 13
"full workup" that we do: spatial transcriptomics, snRNAseq previously, proteomics and immunopeptidomics, intratumoral and peripheral immune cell profiling, full drug screening for efficacy, and then we have other stuff I am trying to get going because immune approaches to cold low tmb tumors is 99% of the time extremely retarded and oncologists who can't accept that are the worst
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