Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR14907227_1.fastq.gz | Fastqsanger.gz | |||
| SRR14907227_2.fastq.gz | Fastqsanger.gz | |||
| SRR14907228_1.fastq.gz | Fastqsanger.gz | |||
| SRR14907228_2.fastq.gz | Fastqsanger.gz | |||
| SRR14907229_1.fastq.gz | Fastqsanger.gz |
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Similar Datasets
Project description:Purpose: compare immature B cells in presence or not of γδ T cells in vivo and in vitro. Methods: immature B cells were sorted from spleen of control Tcrd-GDL mice and Tcrd-GDL mice treated with Diphteria toxin (DTx) for depletrion of γδ T cells after eight days and were sequenced for transcriptional (RNA-seq) and epigenetic profile (ATAC-seq). Further, immature B cells were sorted from spleen of Tcdr-H2B mice, cultured alone or in presence of γδ T cells and sequenced for transcriptional profile (RNA-seq). Results/Conclusions: In presence of γδ T cells, immature B cells upregulated genes related to unfolded protein response and mTORC1 signaling
2022-05-24 | GSE173746 | GEO
Project description:Purpose: compare immature B cells in presence or not of γδ T cells in vivo and in vitro. Methods: immature B cells were sorted from spleen of control Tcrd-GDL mice and Tcrd-GDL mice treated with Diphteria toxin (DTx) for depletrion of γδ T cells after eight days and were sequenced for transcriptional (RNA-seq) and epigenetic profile (ATAC-seq). Further, immature B cells were sorted from spleen of Tcdr-H2B mice, cultured alone or in presence of γδ T cells and sequenced for transcriptional profile (RNA-seq). Results/Conclusions: In presence of γδ T cells, immature B cells upregulated genes related to unfolded protein response and mTORC1 signaling
2022-05-24 | GSE174563 | GEO
Project description:This dataset contains three experiments, designed for interrogating the effect of DETC on epithelial keratinocytes: Dataset 1) steady state ear epithelial cells (live, CD45-) from C57BL6/N (n=3) and Tcrd-GDL (n=3), after DETC deletion. Dataset 2) untreated and topical TPA-treated ear epithelial cells (live, CD45-, Vg5-) from C57BL6/J (n=3 untreated ears, n=3 treated ears). Dataset 3) steady state ear epithelial cells (GFP+) from CD1 (n=6) mice at age p8 weeks, following transduction with IL13Ra1-shRNA-GFP at e9.5.
2022-12-31 | E-MTAB-10441 | biostudies-arrayexpress
Project description:Bone fracture healing requires coordinated interactions between immune cells and skeletal tissues, with flat bones exhibiting unique biomechanical and physiologic characteristics as compared with long bones. The mandible, the lower jawbone that supports the oral cavity, has distinct features due to 1) its proximity to the oral mucosa, which is enriched in immune cells and microbiota, and 2) [AQ: 7] its exposure to masticatory forces, making it a clinically relevant model for studying immune–skeletal interactions during fracture repair. Moreover, mandibular fractures are common maxillofacial injuries, posing challenges owing to functional and aesthetic considerations, as well as the risk of infection and impaired healing. Recent studies have highlighted conflicting roles for interleukin 17 (IL-17) and γδT cells in bone fracture or defect healing. As the primary source of IL-17 in the oral mucosa, γδT cells play a critical role in alveolar bone remodeling and respond to environmental factors such as the microbiota and age. We thus sought to investigate their role in the repair process of a mandibular defect. Here, we developed a murine model where a 1.5-mm drill hole defect spontaneously healed within 3 wk. Analysis revealed rapid leukocyte infiltration at the defect site by day 3, predominantly neutrophils and inflammatory monocytes, with γδT cells and adaptive leukocytes accumulating later at days 7 and 14. Depletion of γδT cells via Tcrd-GDL mice or genetic ablation of IL-17 in Il17af-/- mice accelerated the kinetics of mandibular healing. Bulk RNA sequencing and immunologic analysis revealed that while early recruitment of neutrophils and monocytes was unaffected in Il17af-/- mice, later inflammatory responses were diminished, resulting in accelerated repair. These findings suggest that IL-17–producing γδT cells (γδ17T cells) delay mandibular fracture repair by inhibiting inflammation resolution, thus prolonging the reparative phase. Targeting γδ17T cells or IL-17 may thus represent therapeutic strategies to enhance bone regeneration, particularly in challenging clinical settings involving mandibular fractures.
2026-07-08 | GSE312365 | GEO
Project description:The indicated thymic progenitor population was sorted via FACS and then loaded into a Fluidigm C1 small cell capture chip for single-cell capture, lysis, reverse transcription, and preamplification. Preamplified products were analyzed on a BioMark HD with EvaGreen chemistry. The genes analyzed were selected based on bulk RNA sequencing data and/or prior publications, including genes relevant for gamma/delta T cells and T cell progenitors. B6=C57BL/6J, Rag=B6.Rag1-/-, Tcrd=B6.Tcrd-/-, DN1d=Live/TCRd-/Lin-/CD44+/CD25-/CD24+/cKit-, DN2=Live/TCRd-/Lin-/CD44+/CD25+/cKit+, cKit-=Live/TCRd-/Lin-/CD44+/CD25-/cKit-. Lin=CD3/CD8/CD11b/CD11c/CD19/Gr-1/NK1.1/TCRb/Ter-119 Sample naming nomenclature is as follows: MouseLine_CellPopoulation_DateCaptured_CaptureChamber_CellNumberInChamber
2018-08-21 | GSE118770 | GEO
Project description:The Tcra-Tcrd locus undergoes Tcrd rearrangement in DN thymocytes followed by primary and secondary Tcra rearrangements in DP thymocytes. Here we reveal the mechanisms underpinning combinatorial diversity in the Tcra repertoire. We show that V-alpha and J-alpha segments on individual Tcra alleles are used in stepwise and coordinated proximal-to-distal progressions during primary and secondary rearrangements, substantially constraining combinatorial diversity. Notably, Tcrd recombination in DN thymocytes diversifies the Tcra repertoire by truncating the V-alpha array to permit otherwise disfavored V-J combinations. Such diversification is important, because Trav1-Traj33+ mucosa-associated invariant T cells are depleted when Tcrd rearrangement is impaired. Our results reveal an important biological advantage conferred by the nested organization of Tcrd and Tcra gene segments.
2017-06-06 | GSE95826 | GEO
Project description:In Tcrd-/- mice, dendritic epidermal T cells (DETC) are known to be replaced by a DETC-population expressing αβ TCR. Here, the TCR-repertoire from Tcrd-/- mouse skin T cells was compared to the one from WT mice. The analysis revealed the existence of T cells expressing MHC-independent αβ TCR and replacing the missing γδ T cells in Tcrd-/- mouse epidermis and dermis.
2021-12-21 | GSE168123 | GEO
Project description:T cell antigen receptor δ (Tcrd) variable region exons are assembled by RAG-initiated V(D)J recombination. Here, we employ a high throughput method to map hundreds of thousands of RAG-initiated Tcrd D segment (Trdd1 and Trdd2) rearrangements in developing thymocytes. We find that Trdd2 joins directly to Trdv, Trdd1, and Trdj segments, but Trdd1 joining is ordered with joining to Trdd2 a prerequisite for further rearrangement. We also find frequent, previously unappreciated Trdd1 and Trdd2 rearrangements that inactivate Tcrd. Moreover, we find numerous RAG off-targets that are generated via unidirectional RAG tracking across the loop-domain containing Trdd1, Trdd2 and Trdj. Correspondingly, disruption of the upstream domain boundary causes spreading of on- and off-target RAG activity to the proximal Trdv domain. RAG-initiatd Tcrd D segment rearrangements in developing thymocytes were generated by deep sequencing using illumine Miseq
2016-08-04 | E-GEOD-79892 | biostudies-arrayexpress
Project description:Dauphars et al. show that prior Tcrd rearrangement is essential for a combinatorially diverse Tcra repertoire in mouse thymocytes. Trav15-dv6 family Tcrd rearrangements are critical for Tcra repertoire formation because of their central and distal locations in the Va-Vd array.
2021-10-21 | GSE186044 | GEO
Project description:T cell antigen receptor δ (Tcrd) variable region exons are assembled by RAG-initiated V(D)J recombination. Here, we employ a high throughput method to map hundreds of thousands of RAG-initiated Tcrd D segment (Trdd1 and Trdd2) rearrangements in developing thymocytes. We find that Trdd2 joins directly to Trdv, Trdd1, and Trdj segments, but Trdd1 joining is ordered with joining to Trdd2 a prerequisite for further rearrangement. We also find frequent, previously unappreciated Trdd1 and Trdd2 rearrangements that inactivate Tcrd. Moreover, we find numerous RAG off-targets that are generated via unidirectional RAG tracking across the loop-domain containing Trdd1, Trdd2 and Trdj. Correspondingly, disruption of the upstream domain boundary causes spreading of on- and off-target RAG activity to the proximal Trdv domain.
2016-08-04 | GSE79892 | GEO