Cancer Single Cell Sequencing
Ontology highlight
ABSTRACT:
PROVIDER: EGAS00001000003 | EGA |
REPOSITORIES: EGA
Similar Datasets
Project description:This study is to ascertain whether it is feasible to extract single cell from a tumour, perform amplification, generate a library and sequence a targeted pulldown.
| EGAS00001000435 | EGA
Project description:This study is to ascertain whether it is feasible to extract single cell from a tumour, perform amplification, generate a library and sequence a targeted pulldown.
| EGAD00001001450 | EGA
Project description:Here we modified a single cell whole transcriptome amplification method to make it capable of amplifying cDNAs as long as 3kb efficiently and unbiasedly. We combined this modified single cell cDNA amplification method with Applied Biosystems next generation sequencing SOLiD™ System to set up a single cell whole transcriptome assay. The modified amplification strategy allows us to amplify full-length cDNAs for most of the expressed genes. We show that it is feasible to get digital gene expression profiles at single cell resolution. This allows us to ask fundamental biological questions that could not be addressed previously, especially in the early embryonic development field, and to understand transcriptome complexity at the resolution of a single cell. gene expression profiling from two single wild-type oocytes, two single Dicer knockout oocyte, and one single Ago2 knockout oocyte
2009-02-23 | E-GEOD-14605 | biostudies-arrayexpress
Project description:Here we modified a single cell whole transcriptome amplification method to make it capable of amplifying cDNAs as long as 3kb efficiently and unbiasedly. We combined this modified single cell cDNA amplification method with Applied Biosystems next generation sequencing SOLiD™ System to set up a single cell whole transcriptome assay. The modified amplification strategy allows us to amplify full-length cDNAs for most of the expressed genes. We show that it is feasible to get digital gene expression profiles at single cell resolution. This allows us to ask fundamental biological questions that could not be addressed previously, especially in the early embryonic development field, and to understand transcriptome complexity at the resolution of a single cell.
2009-02-23 | GSE14605 | GEO
Project description:Here we modified a single cell whole transcriptome amplification method to make it capable of amplifying cDNAs as long as 3kb efficiently and unbiasedly. We combined this modified single cell cDNA amplification method with Applied Biosystems next generation sequencing SOLiD™ System to set up a single cell whole transcriptome assay. The modified amplification strategy allows us to amplify full-length cDNAs for most of the expressed genes. We show that it is feasible to get digital gene expression profiles at single cell resolution. This allows us to ask fundamental biological questions that could not be addressed previously and to understand transcriptome complexity at the resolution of a single cell. Oocyte, Two-cell, Four-cell, and 8-cell stage embryos were recovered from MF1 females mated with MF1 male mice (Nagy et al. 2003). The zona pellucida was removed by treatment with acidic tyrode solution. The individual blastomeres were separated by gentle pipeting using a glass capillary. RNA-Seq from 24 single mouse blastomeres from oocytes, 2-cell, 4-cell and 8-cell stages.
2010-12-31 | E-GEOD-22182 | biostudies-arrayexpress
Project description:We employ Mass spectrum to investigate proteome of Pum1-Knockout, Pum2-Knockout and WT conditions in human colorectal cancer cell line Hct116. Overall design: In order to investigate whether Pum1 and Pum2 regulate their targets at their protein levels, we used Pum1-Knockout, Pum2-Knockout and WT Hct116 cell line to extract total protein for Mass spectrum.
2021-07-23 | PXD027513 |
Project description:This study aimed to ascertain the effect of CTCF RNAi on gene expression, chromatin conformation and the chromatin environment in prostate cancer cell line, LNCaP
2020-01-01 | GSE125640 | GEO
Project description:This study aimed to ascertain the effect of CTCF RNAi on gene expression, chromatin conformation and the chromatin environment in prostate cancer cell line, LNCaP
2020-01-01 | GSE125436 | GEO
Project description:Phosphorylation is a crucial component of signaling cascades in a cell. It controls various biological cellular functions such as cell growth and apoptosis. Due to the low stoichiometry of phosphorylaion, enrichment of phosphopeptide prior to LC-MS/MS is necessary for comprehensive phosphoproteome analysis and typical quantitative phosphoproteomic workflows are often limited by the amount of sample input. To address this issue, we developed an easy-to-establish, widely applicable and reproducible strategy to amplify phosphoproteome signals from a small amount of sample without phosphoenrichment step. Taking advantage of the multiplexing nature of isobaric labeling to achieve merged signal from multiple samples, and using a large amount of enriched phosphopeptides as a carrier, we were able to amplify a trace amount of phosphopeptide in the unpurified sample to an identifiable level and quantify it with the reporter ion intensity of the isobaric tag. Our result showed that >1400 phosphopeptide were quantified from 250 ng of tryptic peptides of cell extract. Through proof-of-concept experiments of our strategy, we distinguished 3 types of lung cancer cell line based on their quantitative phosphoproteome data and also identified phosphoproteome changes upon cellular perturbation achieved by drug treatment.
2022-03-07 | PXD028490 | Pride
Project description:This study aimed to ascertain the effect of CTCF RNAi on gene expression, chromatin conformation and the chromatin environment in prostate cancer cell line, LNCaP This study aimed to confirm loss of CTCF sites following CTCF RNAi in IMR90 cells
2019-11-18 | GSE125639 | GEO