Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Study of S. officinalis against CRC

PROVIDER: PRJNA796145 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR17543902.fastq.gz	Fastqsanger.gz
	SRR17543903.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

Systems-based characterization of specialized metabolites biosynthesis in Cornus officinalis

Project description:In this study, we performed LC-QTOFMS-based metabolomics and RNA-seq based transcriptome analysis using seven tissues of C. officinalis.

2020-07-07 | GSE144198 | GEO

Project description:Probiotic-driven protection against CRC

| PRJNA1113728 | ENA

JH_rosemary_biochemometrics_UHPLC_HRMS_dataset

Project description:Dataset used for biochemometric analyses on the extract and fractions of Rosmarinus officinalis (Salvia rosmarinus) tested against MRSA.

| MSV000086110 | MassIVE

Expression data from Saccharomyces cerevisiae upon honokiol treatment

Project description:Honokiol (HNK), one of the main medicinal components in Magnolia officinalis, possesses antimicrobial activity against a variety of pathogenic bacteria and fungi.S. cerevisiae is a model eukaryote used for investigating the cellular and molecular mechanisms of anti-fungal drugs. To explore the molecular mechanism of its anti-fungal activity, we determined the effects of HNK on the mRNA expression profile of Saccharomyces cerevisiae using a DNA microarray approach.

2017-05-22 | GSE94945 | GEO

De novo transcriptome assembly based on RNA-seq and dynamic expression of key enzyme genes in loganin biosynthetic pathway of Cornus officinalis

Project description:Cornus officinalis Sieb. et Zucc., a perennial woody plant which is recognized with high medicinal, economic and ecological values, has been used as traditional Chinese medicine (TCM) for thousands of years in China. Modern pharmacological research has revealed that cornel iridoid glycosides (CIGs, e.g. loganin and morroniside) in dried pericarp of C. officinalis have significant medicinal activities for strengthening immune functions. However, little is known on the molecular processes responsible for the medical properties of this species, owing to the absence of genomic resources such as available sequences of key enzyme genes in biosynthetic pathways. In this study, the RNA sequencing data of C. officinalis were first generated and used for transcriptome analysis. A total of 54,827 unigenes with an average length of 817 bp, an N50 of 1,379 bp, and an average GC content of 44.91% were yielded by de novo assembly, of which 31,780 unigenes were successfully annotated. As potential molecular markers, 121, 118, 96, 89, and 82 transcription factors belonged to bHLH, MYB, PHD, WRKY, and AP2-ERF were further analyzed, respectively. The results of qRT-PCR confirmed that geraniol 10-hydroxylase (G10H) and loganin synthase (SLS) were differentially expressed in fruits and leaves during different growing stages. Furthermore, we found that loganin accumulation was positively related to G10H expression but was negatively correlated with SLS expression. Collectively, the genomic information and gene expression results presented in this study will be helpful for future studies on gene discovery and molecular process of loganin synthesis in C. officinalis.

2018-07-17 | GSE108216 | GEO

Salvia officinalis isolate:implad20170417 | breed:Eukaryotic breed

Project description:chloroplast genome study on Salvia officinalis

| PRJNA769230 | ENA

GNPS - JH_rosemary_biochemometrics_UHPLC_HRMS_dataset

Project description:Dataset used for biochemometric analyses on the extract and fractions of Rosmarinus officinalis (Salvia rosmarinus) tested against MRSA.

| MSV000086110 | GNPS

Vitamin D receptor expression and associated gene signature in tumor stromal fibroblasts predict clinical outcome in colorectal cancer

Project description:Colorectal cancer (CRC) is a major cause of cancer mortality and a serious health concern worldwide. Vitamin D deficiency is associated with high CRC incidence and mortality, suggesting a protective effect of vitamin D against this neoplasia. Although the antiproliferative and prodifferentiation action of active vitamin D (1alpha,25-dihydroxyvitamin D3, 1,25(OH)2D3) on colon carcinoma cells is well documented, its potential effects on CRC stroma are unknown. Here, we show that high vitamin D receptor (VDR) expression in tumor stromal fibroblasts is associated with better overall and progression-free survival in a large cohort of CRC patients, irrespective of its expression in carcinoma cells. Consistently, 1,25(OH)2D3 inhibits the activation of patient-derived normal and cancer-associated fibroblasts, and their pro-migratory effect on carcinoma cells. Importantly, we show by global transcriptomic analyses that 1,25(OH)2D3 regulates cancer-associated fibroblast gene expression and imposes a gene signature that is associated with longer overall and disease-free survival of CRC patients. Moreover, expression of two genes from the signature, CD82 and S100A4, correlates with stromal VDR expression and clinical outcome in CRC. This study provides the first evidence that vitamin D has protective effects against CRC through the regulation of stromal fibroblasts. Characterization of 1,25(OH)2D3 action on gene expression in primary cultures of colon normal and tumor fibroblasts established from samples from colorectal cancer patients. RNA from seven paired normal and tumor fibroblast primary cultures treated with 1,25(OH)2D3 or vehicle for 48 h were analyzed.

2016-04-07 | E-GEOD-70468 | biostudies-arrayexpress

TRMT6-mediated tRNA m1A modification serves as a translational checkpoint of histone biosynthesis and facilitates colorectal cancer progression [tRNA]

Project description:Reprogramming of mRNA translation drives malignant transformation and cancer development. Recently, increasing studies have demonstrated that tRNA modification emerges as a critical regulator of translational reprogramming; however, its function in cancers remains largely elusive. Herein, we identify the oncogenic role of tRNA N1-methyladenosine (m1A) modification in colorectal cancer (CRC). Targeting m1A methyltransferase TRMT6 in CRC cells decreases the abundance of a specific subset of tRNAs (e.g., tRNA-Arg-ACG-1-1, tRNA-Lys-TTT-1-1) and impairs histone mRNA translation in a codon-biased manner, thus restricting histone biosynthesis and cell cycle progression. We further demonstrate that the combination of TRMT6 inhibition and CDK4/6 inhibition shows a stronger anti-cancer effect on CRC cells by synergistically inhibit histone biosynthesis. Collectively, our study reveals that tRNA m1A modification acts as a translational checkpoint of histone biosynthesis and promotes CRC progression, providing new insights for the development of efficient therapeutic strategies against CRC.

2025-02-08 | GSE233354 | GEO

Chromosomal abnormalities in colorectal cancer

Project description:Microarray-based comparative genomic hybridization of CRC DNA samples from 17 patients who underwent colon resection for biopsy-proven invasive colorectal adenocarcinoma. Microarray-based comparative genomic hybridization of CRC DNA samples against a common reference.

2012-11-01 | E-GEOD-25228 | biostudies-arrayexpress

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