#scrnaseq — Public Fediverse posts
Live and recent posts from across the Fediverse tagged #scrnaseq, aggregated by home.social.
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Pipeline release! nf-core/scnanoseq v1.3.0 - nf-core/scnanoseq v1.3.0 - Steel Elephant!
Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics
Please see the changelog: https://github.com/nf-core/scnanoseq/releases/tag/1.3.0#10xgenomics #longreadsequencing #nanopore #rnaseq #rnaseq #scrnaseq #singlecell #nfcore #openscience #nextflow #bioinformatics
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Pipeline release! nf-core/scnanoseq v1.2.2 - nf-core/scnanoseq v1.2.2 - Thallium Tiger!
Please see the changelog: https://github.com/nf-core/scnanoseq/releases/tag/1.2.2
#10xgenomics #longreadsequencing #nanopore #rnaseq #scrnaseq #singlecell #nfcore #openscience #nextflow #bioinformatics
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Pipeline release! nf-core/scnanoseq v1.2.1 - nf-core/scnanoseq v1.2.1 - Zinc Turtle!
Please see the changelog: https://github.com/nf-core/scnanoseq/releases/tag/1.2.1
#10xgenomics #longreadsequencing #nanopore #scrnaseq #singlecell #nfcore #openscience #nextflow #bioinformatics
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Pipeline release! nf-core/scnanoseq v1.2.0 - nf-core/scnanoseq v1.2.0 - Copper Rhinoceros!
Please see the changelog: https://github.com/nf-core/scnanoseq/releases/tag/1.2.0
#10xgenomics #longreadsequencing #nanopore #scrnaseq #singlecell #nfcore #openscience #nextflow #bioinformatics
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Pipeline release! nf-core/scnanoseq v1.1.0 - nf-core/scnanoseq v1.1.0 - Iron Alligator!
Please see the changelog: https://github.com/nf-core/scnanoseq/releases/tag/1.1.0
#10xgenomics #longreadsequencing #nanopore #scrnaseq #singlecell #nfcore #openscience #nextflow #bioinformatics
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2D embeddings for high-dimensional data, the battle rages on
https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1012403
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"By using time-resolved analyses of scRNA-seq data, we determined the potential transitional trajectories of tumor cells and identified the metastasis-initiating subpopulations"
https://link.springer.com/article/10.1007/s11684-024-1081-7
Reading right now. The identification of cells that initiate #metastasis are of interest, although n=2 paired primary and #BoneMarrow samples may be a bit limited.
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I made a short video of the strange things UMAP and t-SNE can do to your data. The algorithms are shown mostly working as intended, yet with some surprising consequences.
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How does exposure to non-mutagenic environmental factors during development contribute to cancer risk? #scRNAseq & spatial transcriptomics reveal how #EndocrineDisruption of #endometrial cell differentiation by #diethylstilbestrol alters the characteristics of stem & progenitor cells, leading to #cancer development. @WilliamsRepro #PLOSBiology https://plos.io/3QpjazO
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" Instead, #Hepatoblastoma #tumors contain a large suppressive #myeloid compartment which poses opportunities for targeting. Specifically, therapeutic antibodies
targeting the #tumor antigen #GPC3 to induce ADCP by #macrophages, in combination with myeloid
#ImmuneCheckpointBlockade (#CD47/SIRPa, or VISTA) could be a feasible strategy to explore in future studies"Krijgsman et al. from Vercoulen lab in the #UMCUtrecht, on #bioRXiv:
https://www.biorxiv.org/content/10.1101/2023.06.28.546852v1