Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: rat vaginal secretion Raw sequence reads

PROVIDER: PRJNA637679 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR11947021.fastq.gz	Fastqsanger.gz
	SRR11947022.fastq.gz	Fastqsanger.gz
	SRR11947023.fastq.gz	Fastqsanger.gz
	SRR11947024.fastq.gz	Fastqsanger.gz
	SRR11947025.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 43

Similar Datasets

vaginal secretion

Project description:vaginal secretion Raw sequence reads

| PRJNA1159925 | ENA

vagina

Project description:vaginal secretion Raw sequence reads

| PRJNA595048 | ENA

Vaginal secretion sample

Project description:Vaginal secretion sample Raw sequence reads

| PRJNA1179695 | ENA

Morus alba Raw protein sequence reads

Project description:Morus alba L. Raw protein sequence reads and sequence

2024-02-08 | PXD049451 |

BRIN-BD11 pancreatic beta cell mRNA profile upon treatment with Class1 HDAC inhibitor MS-275

Project description:Methods: We performed mRNA sequence analysis by deep sequencing, in triplicate, using Illumina HiSeq to assess the impact of Class1 HDAC inhibitor MS-275 in regulating gene expression in BRIN-BD11 pancreatic beta cells. The transcriptome libraries were constructed using the NEB adapters and were sequenced on at 150 nucleotide read length using the paired-end chemistry. The raw reads were subjected to Adapter and low quality reads removal by Trimmomatic -0.36v. The sequence reads that passed quality filters was mapped to the Rattus_norvegicus Rnor_6.0 using STAR , counted using feature count module of sub reads package and was normalized in DESeq2-3. Differentially expressed genes were selected based on log2-ratio change with p-value <0.05 (Student‘s t test, unpaired). Hierarchical clustering was performed with the programs Cluster (uncentered correlation; average linkage clustering) and Treeview. Results: We mapped 136,002,940 (136 million reads) reads per sample to rat genome (Rnor_6.0) and observed 97% alignment to the reference rat genome. We found that 1858 genes were up regulated and 624 genes got down regulated on MS-275 treatment (log fold change ≥±2 p value < 0.05). Inference: Gene ontology reveals that the upregulated pathways upon MS-275 treatment include endocytosis, cAMP signaling, insulin secretion, Wnt signaling PI3K-Akt signaling and thermogenesis while the downregulated genes include histone modification, chromosome organization and cell cycle regulation. The study represents first detailed mRNA profiling of BRIN-BD11 pancreatic beta cell in context of modulation of expression upon treatment with Class1 HDAC inhibitor MS-275.

2019-10-22 | GSE139147 | GEO

Sequencing and Quantitative Analysis of Skin Transcriptomes from Rats with EGFR Inhibitors Induced Rash

Project description:Skin mRNA profiles of wild-type (WT) and EGFR Inhibitors (Gefitinib and Afatinib) induced rash rats were generated by deep sequencing, in triplicate, using Illumina GAIIx. Raw sequences were mapped to the rat reference sequence by Hisat2 v2.0.5. FeatureCounts v1.5.0-p3 was used to count the reads numbers mapped to each gene. FPKM of each gene was calculated based on the length of the gene and reads count mapped to this gene. Differential expression analysis was performed using the DESeq2 R package (1.16.1).

2022-04-04 | GSE199970 | GEO

Project description:Vaginal secretion sequencing

| PRJNA836240 | ENA

Project description:vaginal microbiome Raw sequence reads

| PRJNA513873 | ENA

vaginal microbiota

Project description:vaginal microbiota Raw sequence reads

| PRJNA415526 | ENA

vaginal metagenome

Project description:vaginal metagenome Raw sequence reads

| PRJNA1108648 | ENA