GEO series
Unbiased niche labeling maps immune-excluded niche in bone metastasis
GSE263383
Mus musculus
Expression profiling by high throughput sequencing
33 samples
Submitted 2026/04/28
Platform GPL24247
Summary
Microenvironment niches determine cellular fates of metastatic cancer cells. However, robust and unbiased approaches to identify niche components and their molecular profiles are lacking. We established Sortase A-Based Microenvironment Niche Tagging (SAMENT), which selectively labels cells encountered by cancer cells during metastatic colonization. SAMENT was applied to multiple cancer models colonizing the same organ and the same cancer to different organs. Common niche features include macrophage enrichment and T cell depletion. Macrophage niches are phenotypically diverse in different organs. In bone, niche macrophages express estrogen receptor (ER) and exhibit active ER signaling in male and female hosts. Conditional knockout of ER in macrophages significantly retarded bone colonization by allowing T cell infiltration. ER expression was also discovered in human bone metastases of both genders. Collectively, we identified a unique population of ER+ macrophages in metastatic niche and functionally tie ER signaling in macrophages to T cell exclusion during metastatic colonization.
Published in
Xu Z, Liu F, Ding Y et al.
· Cell 2026
· PMID 42054994
· doi:10.1016/j.cell.2026.04.009
This dataset
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Direct links to NCBI, no account and no request form: the whole study as GSE263383_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 33 samples. Raw sequencing reads are also available from ENA.
Also filed as BioProject PRJNA1096642 and SRA study SRP499917. Searching any of these in the dataset finder brings you back here.
Study design
8 conditions, mostly with about 4 replicates each
bone_biotin_negative_intracardiac-injection ×4
bone_biotin_positive_intracardiac-injection ×4
brain_biotin_negative_intracardiac-injection ×4
brain_biotin_positive_intracardiac-injection ×4
liver_biotin_negative_intracardiac-injection ×4
liver_biotin_positive_intracardiac-injection ×4
lung_biotin_negative_intracardiac-injection ×4
lung_biotin_positive_intracardiac-injection ×4
+1 more
Supports a between-group comparison across 32 samples.
8 replicated groups read from 33 sample titles; they account for 32 of them. Check it against the sample list below before relying on it.
Samples in this study
0 selected
- GSM8190610 bone_biotin_negative_intracardiac-injection_1
- GSM8190611 bone_biotin_negative_intracardiac-injection_2
- GSM8190612 bone_biotin_negative_intracardiac-injection_3
- GSM8190613 bone_biotin_negative_intracardiac-injection_4
- GSM8190614 bone_biotin_positive_intracardiac-injection_1
- GSM8190615 bone_biotin_positive_intracardiac-injection_2
- GSM8190616 bone_biotin_positive_intracardiac-injection_3
- GSM8190617 bone_biotin_positive_intracardiac-injection_4
- GSM8190618 brain_biotin_negative_intracardiac-injection_1
- GSM8190619 brain_biotin_negative_intracardiac-injection_2
- GSM8190620 brain_biotin_negative_intracardiac-injection_3
- GSM8190621 brain_biotin_negative_intracardiac-injection_4
- GSM8190622 brain_biotin_positive_intracardiac-injection_1
- GSM8190623 brain_biotin_positive_intracardiac-injection_2
- GSM8190624 brain_biotin_positive_intracardiac-injection_3
- GSM8190625 brain_biotin_positive_intracardiac-injection_4
- GSM8190626 liver_biotin_negative_intracardiac-injection_1
- GSM8190627 liver_biotin_negative_intracardiac-injection_2
- GSM8190628 liver_biotin_negative_intracardiac-injection_3
- GSM8190629 liver_biotin_negative_intracardiac-injection_4
- GSM8190630 liver_biotin_positive_intracardiac-injection_1
- GSM8190631 liver_biotin_positive_intracardiac-injection_2
- GSM8190632 liver_biotin_positive_intracardiac-injection_3
- GSM8190633 liver_biotin_positive_intracardiac-injection_4
- GSM8190634 lung_biotin_negative_intracardiac-injection_1
- GSM8190635 lung_biotin_negative_intracardiac-injection_2
- GSM8190636 lung_biotin_negative_intracardiac-injection_3
- GSM8190637 lung_biotin_negative_intracardiac-injection_4
- GSM8190638 lung_biotin_positive_intracardiac-injection_1
- GSM8190639 lung_biotin_positive_intracardiac-injection_2
- GSM8190640 lung_biotin_positive_intracardiac-injection_3
- GSM8190641 lung_biotin_positive_intracardiac-injection_4
- GSM8190642 TotalseqC_integrated_bone_iia-injection_1-6
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