KEY RESOURCES TABLE.
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
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| Antibodies | ||
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| The Monoclonal Rabbit Anti-Mouse CD45 | Cell Signaling Technology | Cat#70257S; RRID: AB_2799780 |
| Rabbit FLEX Universal Negative Control | Agilent | Cat# IR60066-2 |
| Monoclonal Rabbit Anti-Mouse F4/80 | Cell Signaling Technology | Cat# 70076S; RRID: AB_2799771 |
| Monoclonal Rabbit Anti-Mouse CD3ε | Cell Signaling Technology | Cat# 78588S; RRID: AB_2889902 |
| Monoclonal Rabbit Anti-Mouse Klrb1c/CD161c | Cell Signaling Technology | Cat# 39197S; RRID: AB_2892989 |
| Polyclonal Rabbit Anti-Mouse Ly6C | HuaBio | Cat# HA500088 |
| Monoclonal Rabbit Anti-Mouse Ly6G | Cell Signaling Technology | Cat# 87048S; RRID: AB_2909808 |
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| Bacterial and virus strains | ||
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| Escherichia coli | ATCC | ATCC 12014 |
|
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| Critical commercial assays | ||
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| Umbilical Cord Dissociation Kit, human | Miltenyi Biotec | Cat# 130-105-737 |
| Dead Cell Removal Kit | Miltenyi Biotec | Cat# 130-090-101 |
| Chromium Next GEM Single Cell 3′ GEM, Library &Gel beads Kit | 10× Genomics | PN:1000121 |
| Chromium Next GEM Chip G Single Cell Kit | 10× Genomics | PN:1000120 |
| Single Index Kit T Set A | 10× Genomics | PN: 1000213 |
| SPRIselect Reagent | Beckman Coulter | Item Number: B23318 |
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| Deposited data | ||
|
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| scRNA-sequencing | This paper | Gene Expression Omnibus: GSE200289 |
| Scripts | This paper | Zenodo: https://doi.org/10.5281/zenodo.7335384 |
|
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| Experimental models: Organisms/strains | ||
|
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| Mouse: C57BL/6 | The Jackson Laboratory | RRID: IMSR_JAX:000664 |
| Mouse: BALB/cByJ | The Jackson Laboratory | RRID: IMSR_JAX:001026 |
|
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| Software and algorithms | ||
|
| ||
| Cell Ranger version 4.0.0 | 10× Genomics | http://www.10xgenomics.com |
| STAR aligner | (Dobin et al.)131 | https://github.com/alexdobin/STAR |
| Demuxlet | (Kang et al.)132 | https://github.com/statgen/demuxlet |
| SoupX version 1.5.2 | (Young et al.)133 | https://github.com/constantAmateur/Soup |
| DoubletFinder 2.0.3 | (McGinnis.)134 | |
| Seurat version 4.0.3 | (Stuart et al.)135 (Hafemeister et al.)136 |
https://satijalab.org/seurat/ |
| Harmony package in R version 1.0.0 (R package from CRAN) | (Korsunsky et al.)137 | N/A |
| Uniform Manifold Approximation and Projection for Dimension Reduction (UMAP) algorithm | (McInnes et al.)138 (Becht et al.)139 |
N/A |
| SingleR package in R version 1.6.1 | (Aran et al.)140 | https://doi.org/10.18129/B9.bioc.SingleR |
| Mouse Cell Atlas and single-cell MCA (scMCA) package in R version 0.2.0 | (Han et al.)141 | http://bis.zju.edu.cn/MCA/search.html |
| DESeq2 R package version 1.32.0 | (Love et al.)142 | https://doi.org/10.18129/B9.bioc.DESeq2 |
| clusterProfiler in R version 4.0.4 | (Yu et al.)143 | https://doi.org/10.18129/B9.bioc.clusterProfiler |
| CellChat version 1.1.2 (R package from CRAN) | (Jin et al.)113 | N/A |
| ggalluvial version 0.12.3 (R package from CRAN) | N/A | |
| ggplot2 version 3.3.5 (R package from CRAN) | N/A | |
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| Other | ||
|
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| Human uterine scRNA-seq data | (Pique-Regi et al.)70 | dbGaP: phs001886.v4.pl |