{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Carlos Simon"],"organism":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15842"],"description":["Single-cell RNA-seq dataset of models of human embryo adhesion in a microfluidic platform (ADOC). Embryo adhesion represents the first step of implantation, yet understanding this process has been hindered by the lack of human in vitro platforms that replicate endometrial physiology. Here, we present a dual-channel microfluidic platform containing organoid-derived endometrial epithelium and primary stromal cells. Our model recapitulates important endometrial hallmarks including epithelial polarization, stromal decidualization, extracellular vesicle release, and hormone-induced receptivity. We tested its function by introducing mouse and human blastocysts and showed that embryos displayed features of initial adhesion. These included establishment of embryo-epithelial contacts initiated via "],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - For single-cell transcriptomic analysis, stromal and epithelial cells from control and hormone-treated ADOC were collected separately. Stromal cells were first detached by incubation with TrypLE Select® for 15 min and recovered in stromal medium. Subsequently, epithelial cells were dissociated by a 30 min incubation with TrypLE Select® and recovered in organoid medium. Both cell fractions were centrifuged at 300 × g for 5 min at room temperature, the supernatant discarded, and the pellet resuspended in PBS supplemented with 0.04% BSA. Cell concentration and viability were determined using a LUNA™-FL dual fluorescence cell counter (Logos Biosystems) with acridine orange/ propidium Iodide staining (Logos Biosystems, F23001).","Sequencing - Sequencing was performed on the Illumina NovaSeq X Plus platform according to the manufacturer’s protocol.","Library Construction - Gene expression libraries were constructed with 100-300 ng of amplified cDNA, and library size and concentration were assessed using the TapeStation D5000 kit.","Nucleic Acid Extraction - Approximately 17,000 cells (combined stromal and epithelial fractions) were loaded onto 10X Chromium G Chip (10X Genomics, PN-10000204) to generate Gel Bead-in-Emulsions (GEMs). Barcoded cDNA libraries were prepared following the manufacturer’s instructions using the Chromium Single Cell 3′ Reagent Kit v3.1 (10X Genomics, PN-1000268). Amplified cDNA was quantified with the TapeStation D5000 (Agilent, 5067-5589)."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - Potential technical artifacts caused by ambient RNA contamination were corrected using DecontX from R package Celda (v1.22.0). Read counts were corrected for library size and log-normalized using NormalizeData function from Seurat.","Sequence Alignment - Raw RNA-seq reads were aligned to human reference genome GRCh38 Gencode v47 gene annotation."],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina NovaSeq X"],"study_type":["RNA-seq of coding RNA from single cells"],"species":["Homo sapiens"],"pubmed_authors":["Carlos Simon","Jaime Llera-Oyola"],"additional_accession":[]},"is_claimable":false,"name":"Modeling human embryo adhesion using a microfluidic platform","description":"Single-cell RNA-seq dataset of models of human embryo adhesion in a microfluidic platform (ADOC). Embryo adhesion represents the first step of implantation, yet understanding this process has been hindered by the lack of human in vitro platforms that replicate endometrial physiology. Here, we present a dual-channel microfluidic platform containing organoid-derived endometrial epithelium and primary stromal cells. Our model recapitulates important endometrial hallmarks including epithelial polarization, stromal decidualization, extracellular vesicle release, and hormone-induced receptivity. We tested its function by introducing mouse and human blastocysts and showed that embryos displayed features of initial adhesion. These included establishment of embryo-epithelial contacts initiated via ","dates":{"release":"2026-07-13T00:00:00Z","modification":"2026-07-13T14:40:06.528Z","creation":"2025-10-27T16:14:38.837Z"},"accession":"E-MTAB-15842","cross_references":{"ENA":["ERP183140"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005684","EFO_0004917","EFO_0005518","EFO_0003816","EFO_0004184"]}}