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Integrative Clonal Tracing and CRISPR Screening Identify Temporal and Microenvironmental Determinants in Ovarian Cancer Metastasis

GSE302619 Mus musculus Expression profiling by high throughput sequencing; Other 6 samples Submitted 2025/08/27 Platform GPL34290
Summary
We used scRNA-seq (10x Genomics) coupled with CITE-seq based HTO labeling to profile and compare transcriptomes of omentums and ascital fluid harvested from naive or metastasis bearing wild type C57Bl/6 mice. There are three samples from different animals (M-HTOs) that were pooled for loading onto one 10x Chromium lane + eight samples/M-HTOs pooled for a second lane. Later, three seperate libraries were prepared from each 10x lane: HTO, cell barcode (LARRY), and transcriptome. Within the cell barcode libraries: BC.ID1, BC.ID2, BC.ID3, BC.ID4, BC.ID5 and BC.ID6 are used to distinguish different timepoints of injection - early, mid, and late seeding in descending order (meaning BC.ID6 was earliest timepoint, BC.ID1 is latest timepoint).
Published in
Temporal Clonal Tracing Reveals Tumor-Intrinsic IFNγ-Dependencies Driving Niche Adaptation and Early Metastatic Colonization
Aleksandrovic E, Fross SR, Golomb SM et al. · bioRxiv : the preprint server for biology 2025 · PMID 40832237 · doi:10.1101/2025.08.13.669778
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Direct links to NCBI, no account and no request form: the whole study as GSE302619_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 6 samples. Raw sequencing reads are also available from ENA.

Also filed as BioProject PRJNA1291586 and SRA study SRP601178. Searching any of these in the dataset finder brings you back here.

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