Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Studying the selectivity of a small molecule Synucleozid on transcriptome

ABSTRACT: Studying the selectivity of a small molecule Synucleozid on transcriptome

PROVIDER: PRJNA531895 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR8875240_1.fastq.gz	Fastqsanger.gz
	SRR8875240_2.fastq.gz	Fastqsanger.gz
	SRR8875250_1.fastq.gz	Fastqsanger.gz
	SRR8875250_2.fastq.gz	Fastqsanger.gz
	SRR8875260_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 96

Similar Datasets

Studying the selectivity of a small molecule Synucleozid on transcriptome

Project description:One strategy to drugging undruggable proteins is to directly target the mRNA that encodes them, thereby inhibit translation and reducing protein levels. Inforna, a sequence-based design approach to target RNA, enables the design of a small molecule Synucleozid that binds SNCA mRNA which encodes alpha-synuclein. Herein, we investigate the selectivity of Synucleozid on the whole transcriptome. Based on mechanistic studies, Synucleozid targets IRE locates in 5' UTR of SNCA mRNA and reduces alpha-synuclein protein levels by decreasing the amount of SNCA mRNA loaded into polysomes. Different from alpha-synuclein siRNA, Synucleozid binds mRNA and affect its function without regulating mRNA expression.

2019-12-11 | GSE129590 | GEO

Studying the selectivity of a targeted small molecule degrading a hypoxia-associated non-coding RNA

Project description:Small molecule targeted recruitment of nucleases to RNA is a powerful method to affect RNA biology. Inforna, a sequence-based design approach to target RNA, enables the design of small molecules that bind and cleave RNA in a selective and substoichiometric manner. Herein, we investigate the ability of RNA targeted degradation to improve the selectivity of small molecules targeting RNA. The microRNA-210 hairpin precursor (pre-miR-210) is overexpressed in hypoxic cancers. Previously, a small molecule (Targapremir-210, TGP-210) targeted this RNA in cells, but with only a 5-fold window for DNA binding. Appendage of a nuclease recruitment module onto TGP-210 locally recruited ribonuclease L onto pre-miR-210, triggering its degradation. The chimera has enhanced selectivity compared to TGP-210 with nanomolar binding to the pre-miR-210, but no DNA binding, and is broadly selective for affecting RNA function in cells. Importantly, it cleaved pre-miR-210 substoichiometrically and induced apoptosis in breast cancer cells.

2019-04-04 | GSE129307 | GEO

Studying the selectivity of a targeted small molecule degrading a hypoxia-associated non-coding RNA

Project description:Studying the selectivity of a targeted small molecule degrading a hypoxia-associated non-coding RNA

| PRJNA530777 | ENA

Transcriptome analysis of a potent Small-Molecule immunomodulator

Project description:Transcriptome analysis of a potent Small-Molecule immunomodulator

| PRJNA931296 | ENA

Selective stalling of human translation through small molecule engagement of the ribosome nascent chain

Project description:We use ribosome profiling to demonstrate the selectivity of a small molecule, PF-06446846 that inhibits translation of its target by selectively inducing ribosome-stalling in a nascent chain sequence dependent manner.

2017-06-05 | GSE94454 | GEO

PEARL-seq: A Photoaffinity Platform for the Analysis of Small Molecule-RNA Interactions

Project description:RNA is emerging as a valuable target for the development of novel therapeutic agents. The rational design of RNA-targeting small molecules, however, has been hampered by the relative lack of methods for the analysis of small molecule-RNA interactions. Here we present our efforts to develop such a platform using photoaffinity labeling. This technique, termed Photoaffinity Evaluation of RNA Ligation-Sequencing (PEARL-seq), enables the rapid identification of small molecule binding locations within their RNA targets and can provide information on ligand selectivity across multiple different RNAs. These data, when supplemented with small molecule SAR data and RNA probing data enables the construction of a computational model of the RNA-ligand structure, thereby enabling the rational design of novel RNA-targeted ligands.

2020-08-17 | GSE156312 | GEO

Transcriptome analysis of small molecule-mediated astrocyte-to-neuron reprogramming

Project description:Transcriptome analysis of small molecule-mediated astrocyte-to-neuron reprogramming

| PRJNA506035 | ENA

Transcriptome analysis of high potent DCs using small molecule compounds

Project description:Transcriptome analysis of high potent DCs using small molecule compounds

| PRJNA998841 | ENA

Reactivity-Based RNA Profiling (RBRP) determined transcriptome interactions of small molecule drugs

Project description:We developed Reactivity-Based RNA Profiling (RBRP) approach to determine the off-target transcriptome interactions of small molecule drugs. Deep sequencing was used to locate and quantify drug-promoted acylation of RNA 2´-hydroxyl groups as a proxy of RNA-drug interaction in HEK293.

2023-04-13 | GSE229331 | GEO

Transcriptome analysis of high potent DCs using small molecule compounds

Project description:Comparative gene expression analysis of generated DCs on several condition with small molecule compounds

2023-10-02 | GSE239334 | GEO