Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Undefined

ABSTRACT: Sanger sequecing of KO cells

PROVIDER: PRJEB55372 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR10112910.fastq.gz	Fastqsanger.gz
	ERR10112911.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

Protein ISGylation regulated gene expression in mouse mammary epithelial cells

Project description:Purpose: The goals of this study are to use RNA-seq to identify genes whose expression are regulated by protein ISGylation in a genome-wide scale Methods: mRNA profiles of PyVmT/Uba7 KO + Control and PyVmT/Uba7 KO+UBE1L mammary epithelial cells (MECs) were generated by deep-sequecing in duplicates, using Illumina HiSeq4000. Results: Using an optimized data analysis workflow, we mapped about 25 million sequence reads per sample to the mouse genome (M16 genome annotation). 259 genes are identified as differentially expressed transcripts from RNA-seq analysis of PyVmT/Uba7 KO + empty vector vs PyVmT/Uba7 KO + UBE1L MECs treated by LPS (100ng/mL) for 6 hours after IFN (1000 U/mL) priming for 24 hours. Conclusions: protein ISGylation facilitated expression of a group genes, which are regulated by STAT1/STAT2 containing complexes.

2020-03-27 | GSE112532 | GEO

The LC3 conjugation machinery specifies the loading of RNA-binding proteins into extracellular vesicles (smRNA-seq dataset)

Project description:We employed small non-coding RNA sequecing to profile the small RNAs in extracellular vesicles (EVs) from WT cells and cells deficient for the LC3 conjugation machinery

2019-12-26 | GSE137617 | GEO

EEG-controlled tele-grasping for undefined objects.

Project description:This paper presents a teleoperation system of robot grasping for undefined objects based on a real-time EEG (Electroencephalography) measurement and shared autonomy. When grasping an undefined object in an unstructured environment, real-time human decision is necessary since fully autonomous grasping may not handle uncertain situations. The proposed system allows involvement of a wide range of human decisions throughout the entire grasping procedure, including 3D movement of the gripper, selecting proper grasping posture, and adjusting the amount of grip force. These multiple decision-making procedures of the human operator have been implemented with six flickering blocks for steady-state visually evoked potentials (SSVEP) by dividing the grasping task into predefined substeps. Each substep consists of approaching the object, selecting posture and grip force, grasping, transporting to the desired position, and releasing. The graphical user interface (GUI) displays the current substep and simple symbols beside each flickering block for quick understanding. The tele-grasping of various objects by using real-time human decisions of selecting among four possible postures and three levels of grip force has been demonstrated. This system can be adapted to other sequential EEG-controlled teleoperation tasks that require complex human decisions.

| S-EPMC10770246 | biostudies-literature

Expression analysis of RPE1-TP53KO cells with ESCO2mut, DDX11KO and PAXIP1KO

Project description:Identification of the differential transcriptomic features of isogenic RPE1 cells via whole genome mRNA sequecing

2022-08-19 | GSE211349 | GEO

Nociceptor neurons affect cancer immunosurveillance [RNA-seq 3]

Project description:Sequecing tumor-innervating neurons

2022-08-10 | GSE205865 | GEO

Integrated Paired-end Enhancer Profiling and Whole-Genome Sequencing Reveals Recurrent CCNE1 and IGF2 Enhancer Hijacking in Primary Gastric Adenocarcinoma (ChIP-seq)

Project description:H3K27ac paired-end NanoChIP-seq, whole-genome sequecing, RNA-seq and Hi-C were integrated to reveal tumor-associated structural variants contributing to gastric cancer

2019-10-02 | GSE117953 | GEO

The LC3 conjugation machinery specifies the loading of RNA-binding proteins into extracellular vesicles (lrgRNA-seq dataset)

Project description:We employed RNA sequecing to profile large RNAs (mRNAs and lincRNAs) packaged into extracellular vesicles (EVs) from WT cells and cells deficient for the LC3 conjugation machinery

2019-12-26 | GSE137616 | GEO

Ultra-deep sequencing of ribosome-associated poly-adenylated RNA in early Drosophila embryo reveals hundreds of conserved translating sORFs

Project description:Identification of translating small open reading frames (sORFs) through deep sequecing of ribosome-associated poly-adenylated RNA and conservation analysis in early Drosophila embryo

2017-03-05 | E-MTAB-4571 | biostudies-arrayexpress

Genome-wide maps of H3 and H4 acetylation in wild type and gds1 deletion strain of S.cerevisiae.

Project description:The goals of this study are to compare Next-Generation-Sequecing (NGS)-derived genome-wide occupancy of H3 and H4 acetylation in S. cerevisiae wildtype and gds1 deletion strain.

2021-10-06 | GSE185227 | GEO

Genome-wide maps of chromatin state for histone modifications and chromatin remodeling factors in WT and PHF6-KO conditions in Jurkat T-ALL cells.

Project description:We have carried out high-throughput profiling of histone modifications and transcription factors in mammalian cells. First we generated stable PHF6 knock out lines by CRISPR-Cas9 technology in wild type Jurkat cells. We electroporated the RNP complex in Jurkat cells conatining guide RNAs against either non-targeting (EV) or PHF6 (KO) followed by single clone isolation and expansion. We confirmed absolute loss of total protein by WB and indel formation (mutation efficiency) at the PHF6 genomic locus by Sanger sequencing. By obtaining over six to ten billion bases of sequence from chromatin immunoprecipitated DNA, we generated genome-wide chromatin-state maps of well studied histone modifications and transcription factors. This study provides a framework for eluciadting the role of PHF6 in regulating the chromatin landscape encompassing both activating and repressive histone modifications and chromatin remodelers in the context of leukemia.

2025-01-13 | GSE193713 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data