Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Example data for interrupted runs on MGISEQ-2000 (now DNBSEQ-G400)

PROVIDER: PRJNA682569 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR13204691.fastq.gz	Fastqsanger.gz
	SRR13204693.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

Homo sapiens

Project description:Project for example data for interrupted runs on MGISEQ-2000 (now DNBSEQ-G400)

| PRJNA682556 | ENA

ATAC-seq data in MEF and mESC sequenced by BGI DNBSEQ-G400 platform and Illumina HiseqX10 instruments

Project description:We benchmark Illumina’s HiseqX10 instrument against Beijing Genomics Institute’s (BGI) DNBSEQ-G400 platform, a considerably cheaper sequencing alternative. For comparisons, the same bulk ATAC-seq libraries generated from pluripotent stem cells (PSCs) and fibroblasts were sequenced on both platforms. Both instruments generate sequencing reads with comparable mapping rates and genomic context. However DNBSEQ-G400 data contained a significantly higher number of small, sub-nucleosomal reads (>30% increase) and a reduced number of bi-nucleosomal reads (>75% decrease), which resulted in narrower peak-bases and improved peak calling, enabling the identification of 4% more differentially accessible regions between PSCs and fibroblasts. Ability to identify master TFs that underpin the PSC state relative to fibroblasts, including aggregate and de novo foot-printing capacity, were highly similar between data generated on both platforms.

2022-07-27 | GSE201577 | GEO

RNA-seq data in MEF and mESC sequenced by HiSeq 3000

2022-07-27 | GSE201576 | GEO

RNA seq of human breast cancer cell line MDAMB231 with knockdown of splicing factors SRSF7 and SMNDC1

Project description:Deep RNA sequencing was performed to investigate the transcriptomic effects of siRNA-mediated knockdown of SRSF7 or SMNDC1 in the triple-negative breast cancer cell line MDA-MB-231. A total of 30 million cells MDA-MB-231 cells were seeded in 6-well plates. The following day, cells were transfected with siKinasePool siRNAs targeting SRSF7, SMNDC1, or a mock control. Samples from three biological replicates were collected 72 hours after transfection. Total RNA was isolated using the RNeasy Plus Mini Kit (Qiagen). Stranded PolyA-selected libraries were prepared and sequenced on the DNBseq platform, generating 150-bp paired-end reads on a DNBSEQ-G400 sequencer (BGI Europe).

2026-06-01 | E-MTAB-16601 | biostudies-arrayexpress

Transcriptome Profiling of Human Dermal Fibroblasts Treated with 4 Phosphodiesterase Inhibitors Across Multiple Dose Gradients

Project description:This study presents RNA-sequencing data from Human Primary Dermal Fibroblast, Neonatal (HDFn) cells treated with four phosphodiesterase (PDE) inhibitors—roflumilast, rolipram, cilostazol, and milrinone—across a 2-fold serial dilution range spanning from 7.8 nM to 8,000 nM. The dataset includes biological replicates for each treatment condition and dose. Total RNA was extracted and sequenced on the DNBSEQ-G400 platform. The processed data includes gene-level read counts and differential gene expression results. This dataset enables dose-dependent transcriptional profiling of PDE inhibitors, providing a resource for drug response and perturbation signature analysis.

2025-05-16 | GSE297400 | GEO

RNA-seq of human breast cancer cell line MDA-MB-231 treated with T025 against untreated controls

Project description:Deep RNA sequencing was performed to investigate the impact of CLKs inhibitor, T-025, on RNA splicing in triple-negative breast cancer cell lines. A total of 30 million MDA-MB-231 cells were seeded in a 6-well plate. The following day, cells were treated with 1 µM T-025 or 0.1% DMSO as negative control for 24 hours. Samples from 3 biological replicates were used. Total RNA was isolated using the RNeasy plus mini kit (Qiagen). Stranded PolyA-selected libraries were prepared using the DNBseq platform, and 100 M 150-bp paired-end reads were sequenced on a DNBSEQ-G400 sequencer by BGI Europe. The differentially expressed genes (DEGs) and alternative splicing events (ASEs) were analyzed to unravel the transcriptomic changes in TNBC cells upon T-025 treatment.

2026-01-01 | E-MTAB-14664 | biostudies-arrayexpress

Transcriptomic profiling of pancreatic cancer cells and tissues from genetically engineered mouse models

Project description:This study investigates transcriptomic alterations associated with pancreatic ductal adenocarcinoma (PDAC) progression in genetically engineered mouse models. Total RNA was extracted from two types of samples: (1) pancreatic cancer cells isolated from KPC and KPNiC tumors, and (2) whole pancreatic tissue lysates from WT, NiC, KC, and KNiC mice. RNA-seq libraries were polyA-selected and strand-specific, sequenced on the DNBSEQ-G400 platform (BGI Genomics). Bioinformatic analyses included read alignment (HISAT2), quantification (RSEM), differential gene expression (DESeq2), and gene set enrichment analysis (GSEA). This dataset provides insights into the impact of NIK deletion on pancreatic tumor biology.

2026-04-30 | GSE301904 | GEO

ATAC-seq data in MEF and mESC sequenced by BGI DNBSEQ-G400 platform and Illumina HiseqX10 instruments

Project description:ATAC-seq data in MEF and mESC sequenced by BGI DNBSEQ-G400 platform and Illumina HiseqX10 instruments

| PRJNA832255 | ENA

Gene expression of Dcir-/- dendritic cells (DCs) after antigen stimuulation

Project description:Purpose: DCIR is an inhibitory type of C-type lectin receptor that regulates DC functions. This study aimed to find the genes that could be regulated through DCIR. Method: Splenic DCs from WT and Dcir-/- mice were colutured with T cells that express specific TCR for MOG35-55 for 3 days in the presence of MOG peptide. CD11c+ cells were collected by an auto MACS. RNA profiles were generated by deep sequencing, in triplicate, using DNBSEQ-G400. Results: We detected xxx gense that were higher expression in Dcir-/- DCs, compared with WT DCs, with a fold change ≥1.5 and p value <0.05. Conclusion: Our data showed that Dcir deficiency in DCs changed the gene expression pattern, compared to WT DCs, in the coculture system of T cells. DCIR regulates the expression of DC genes that are associated with the functions of DCs.

2021-09-16 | GSE184068 | GEO

Project description:NanoFMDV: example data

| PRJNA1286760 | ENA