Xiao Song 🧠
@Xiao_Song_USResearch Assistant Professor @NorthwesternMed @LurieCancer #Glioma #RNAsplicing enthusiast #LongRead #Immunology #Lipid
tidyplots Time to say goodbye to ggplot2?🫡 "a significant reduction of code complexity" vs ggplot2 cran.r-project.org/web/packages/t… @JanBroderEngler bioRxiv 2024 biorxiv.org/content/10.110…
Very cool single-cell visualization package with support for TCR/BCR analysis and compatible with scRepertoire. Blown away by some of the viz ideas repo: github.com/pwwang/scplott… site: pwwang.github.io/scplotter/inde…
Congrats Julia Phan + Aslan Tasdogan for their paper in Science today: hematopoietic stem cells (HSCs) & erythropoiesis get activated during pregnancy and after bleeding by retrotransposons that turn on in HSCs activating cGAS/STING & interferon signaling science.org/doi/10.1126/sc…
One year after the conclusion of the Fall '23 @ForbeckForums in Asilomar, the fruit of our collective labor is finally out for the entire world to see. Grateful to all the co-authors, especially my partner-in-crime @OlgaAnczukow #RNA #splicing #cancer nature.com/articles/s4156…
A circularly permuted CasRx platform for efficient, site-specific RNA editing go.nature.com/4dFun7P
Thrilled to report Patho-DBiT, just published in Cell 😊. It allows us to directly “see” all kinds of RNA species on the same clinical FFPE tissue slide, including mRNA, miRNA, snRNA, snoRNA, tRNA, etc, and splicing isoforms, genetic alterations (SNV, CNV, etc). Really a fun,…
Matthias @labs_mann presenting at #scg2024 - impressive! And multiple single cell proteomics talks, it’s coming of age! Matthias predicts increased scaling in coming years, too. Let’s get ready with translation models.
Now out - WebAtlas pipeline for visualizing and processing integrated single cell and spatial transcriptomics data @naturemethods @bayraktar_lab @HaniffaLab @shazanfar @humancellatlas github.com/haniffalab/web… nature.com/articles/s4159…
An improved understanding of the anatomy of brainwashing could lead to the development of therapeutic approaches that might transform the treatment of a variety of neurological diseases. Learn more in a new #SciencePerspective: scim.ag/7Zu
Researchers from @UofTMedicine have harnessed a bacterial immune defence system, known as CRISPR, to efficiently & precisely control the process of RNA splicing. #UofT utoronto.ca/news/u-t-resea…
UPDATED: we have identified 313 (!) funding opportunities and fellowships for postdoctoral fellows. Download this database freely here: research.jhu.edu/rdt/funding-op… For each entry, we provide description, amount, deadline, eligibility, and link to funder. Good luck!
UPDATED: We have identified 492 funding opportunities for early-career researchers/faculty. Download for free the database here: research.jhu.edu/rdt/funding-op… For each entry, we provide description, deadline, $ amount, eligibility, link to funder.
We developed an imaging-free spatial genomics technology where DNA barcodes diffuse to connect locally. Using UMAP, we reconstructed the physical locations of these barcodes, transforming spatial transcriptomics into purely molecular biology. biorxiv.org/content/10.110…
LongReadSum: A fast and flexible quality control and signal summarization tool for long-read sequencing data. #LongRead #SequenceData #SequenceQC @biorxivpreprint biorxiv.org/content/10.110…
Demultiplexing and barcode-specific adaptive sampling for nanopore direct RNA sequencing. #DirecRNAseq @nanopore #Sequencing @biorxivpreprint biorxiv.org/content/10.110…
Wow, @nature has retracted the 2020 Poore et al. cancer microbiome paper that we showed (journals.asm.org/doi/10.1128/mb…) was deeply flawed. The retraction date is tomorrow so I can't yet read the official notice, but I'll update when I can @RetractionWatch @ProfBootyPhD
Excited to see "Location matters: mapping antigen receptors within tissues" in @NatRevImmunol highlighting spatial TCR mapping! Congratulations to all Contributors. Our SPTCR-seq method complements this field, offering high-resolution TCR sequencing integrated with…
Excited to share our new paper out in @NatureMedicine on tumor reactive T cells assembling in the proximal cranial bone of patients with glioblastoma. A tremendous team effort with a lot of excellent cooperation partners! Check it out now! nature.com/articles/s4159…
NEW content online! Cancer organoids 2.0: modelling the complexity of the tumour immune microenvironment dlvr.it/TB0ftH
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