Project description:This series analyses germinating Lepidium sativum seeds with both temporal and spatial detail. This is a cross species microarray normalisation on Arabidopsis thaliana chips. Performed as part of the vSEED project

2015-02-20 | GSE55702 | GEO

DSP-MNase-DNA-seq

Project description:DSP-MNase-DNA-seq

| PRJNA914212 | ENA

CBFB-DSP-ChIPseq and YAP-DSP-ChIPseq

Project description:We developed a new method to extract open-chromatins that contain trans-acting factors (TAFs)-DNA complex crosslinked with dithiobis(succinimidyl propionate) (DSP). Using this method we identified CBFB as a cell density-sensitive TAF, which translocates between the cytoplasm and the nucleus in cell density-dependent manner. Here, we demonstrate that the extracted TAF/DNA complex is also amenable to ChIP-seq analysis.

2023-12-05 | GSE234731 | GEO

Discovery of traditional serrated adenoma by using DSP

Project description:To further characterized the serrated pathway, we used the novel Digital Spatial Profiling (DSP) technology and its mRNA Cancer Transcriptome Atlas (CTA) panel, which includes over 1800 target gene, to investigate the underlying gene expression changes and pathways involved in sessile serrated lesion (SSL) and traditional serrated adenoma (TSA), two precancerous lesions to carcinoma in serrated pathway.

2023-12-31 | E-MTAB-12465 | biostudies-arrayexpress

Molecular targets affected in the human whole-genome expression by Coriandrum sativum L. essential oil

Project description:Analysis of the effect of C. sativum (coriander) essential oil on the human genome with toxicological purposes.

2014-04-03 | GSE56431 | GEO

Vibrio parahaemolyticus strain:VN-5003

Project description:Vibrio parahaemolyticus strain:VN-5003 Genome sequencing and assembly

| PRJNA280794 | ENA

CRISPRi DSP-kd in iAT2

Project description:We performed single cell transcriptomic profiling of induced human pluripotent stem cells (iPSCs)-derived type 2 alveolar epithelial cells (iAT2). iPSCs stably expressed CRISPRi (dCas9-KRAB) under the control of doxycyline. iAT2s were transduced with a lentivirus expressing gRNA targeting the transcriptional start site of DSP. Cells were treated with or without doxycyline to intiate CRISPRi-knockdown. Prior to capture, cells were labelled with hashing antibodies (HTO). Cells were captured for 10x Genomics Single cell capture (V3 protocol), and GEX and HTO libraries were sequenced. HTODemux function was used to demultiplex the samples. Knockdown of DSP caused cells to cluster separately from wild-type cells.

2022-05-26 | GSE189068 | GEO

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