biostudies-arrayexpressRoser Vilarrasa-BlasiHomo sapienshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-17239These samples are part of a study aimed at understanding B lymphopoiesis in the human bone marrow throughout the lifespan and guiding in vitro B lymphopoiesis. This dataset contains B cell receptor data from prenatal and adult bone marrow samples, as well as in vitro experiments, together with the corresponding raw data from prenatal bone marrow and in vitro samples.biostudies-arrayexpressSample Collection - The human embryonic and fetal material was provided by the Joint MRC / Wellcome Trust (Grant #MR/006237/1) Human Developmental Biology Resource (http://www.hdbr.org) following elective of pregnancy, with written informed consent and approved by the London - Fulham Research Ethics Committee (REC reference 23/LO/0312). HDBR is regulated by the UK Human Tissue Authority (HTA; https://www.hta.gov.uk) and operates in accordance with the relevant HTA Codes of Practice.Nucleic Acid Extraction - Adherent material was removed from the fetal bone marrow samples, and the ends of the bones were cut. Bone marrow cells were recovered by flushing from one end of the bone. Cells were filtered through a 70µm strainer and centrifuged at 500xg for 5 minutes. After centrifugation, red blood cells were lysed using RBC lysis buffer according to manufacturer’s instructions (eBioscience #00-4300), and washed with wash buffer containing PBS (Gibco #20012027), 0.5% BSA (Miltenyi #130-091-376) and 2mM EDTA (Life Technologies #AM9260G) to reduce clumping24. Cells were then counted and processed in one or more of the following way: (1) sequencing the whole population; (2) enrichment of CD34-positive cells using the CD34-positive selection kit (Miltenyi Biotec #130-046-702), according to the manufacturer’s instructions, followed by sequencing; (3) enrichment of the CD34-negative fraction for CD10-positive and CD19-positive cells using CD10 PE clone HI10A (BioLegend #312204) and CD19 PE clone HIB19 (BioLegend #302208) antibodies in combination with the EasySep PE selection kit II (StemCell Technologies #17684), followed by sequencing, (4) enrichment of CD34-positive cells followed by sorting of multipotent progenitors (MPP) and lympho-myeloid progenitors (LMPP) subpopulations11. Staining antibodies: Lin-FITC: CD2 clone RPA-2.10 (BioLegend #300206), CD3 clone OKT3 (BioLegend #317306), CD14 clone M5E2 (BioLegend #301804), CD16 clone 3G8 (BioLegend #302006), CD56 clone HCD56 (BioLegend #318339), CD235a clone Ga-R2/HiR2 (BD Biosciences #40174); CD34-BV786 clone 581 (BD Biosciences #743534); CD38 BV711 clone HIT2 (BioLegend #303527); CD90 APC-Cy7 clone 5E10 (BioLegend #328131); CD45RA APC clone HI100 (BioLegend #304111), and DAPI as live death dye. Sorted subpopulations were sequenced. (5) For one sample, CD45-positive cells were enriched using the CD45-positive selection kit (Miltenyi Biotec #130-045-801), according to the manufacturer’s instructions, followed by sequencing. (6) Cells were cryopreserved at -800C for 24 hours before transferring to liquid nitrogen. For a subset of samples, the extremities and shafts of the bones were separated, chopped into small pieces, and incubated separately in PBS (Gibco #20012027) containing 4mg/mL dispase II (Gibco #17105-041) and 2mg/mL collagenase I (Gibco #171000-17) for 1 hour at 370C25. Following incubation, samples were topped up with wash buffer and filtered through a 100µm cell strainer. Cells were centrifuged at 500xg for 5 minutes at 40C, washed with wash buffer, and filtered through a 70µm strainer, followed by an additional centrifugation step. Red blood cells were then lysed using RBC lysis buffer according to manufacturer’s instructions (eBioscience #00-4300). Cells were counted and processed for sequencing.Library Construction - Library preparation was carried out according to the manufacturer’s protocol for the Chromium Next GEM Single Cell 5’ v2 (DUAL) Kit (10x Genomics).Sequencing - The BCR was sequenced at a target depth of 5,000 reads per cell and following the same sequencing format as the scRNA-seq.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesData Transformation - Single-cell V(D)J libraries were processed with Cell Ranger V(D)J pipeline (v.6.1.2) using GRCh38 reference (v.5.0.0).MetabolomicsUnknownTranscriptomicsGenomicsProteomicsIllumina NovaSeq 6000RNA-seq of coding RNA from single cellsHomo sapiensLuz Garcia-AlonsoRoser Vilarrasa-BlasiRoser Vento-TormofalseMulti-omics analysis of human bone marrow across fetal and adult stages informs strategies for in vitro B lymphopoiesis - scBCR-seq datasetThese samples are part of a study aimed at understanding B lymphopoiesis in the human bone marrow throughout the lifespan and guiding in vitro B lymphopoiesis. This dataset contains B cell receptor data from prenatal and adult bone marrow samples, as well as in vitro experiments, together with the corresponding raw data from prenatal bone marrow and in vitro samples.2026-09-09T00:00:00Z2026-09-09T09:53:16.113Z2026-06-22T13:55:11.281ZE-MTAB-17239ERP195525EGAD00001016347EFO_0002944EFO_0004170EFO_0005684EFO_0005518EFO_0003816EFO_0004184