Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Microbial iCLIP2: Enhanced mapping of RNA-protein interaction by promoting protein and RNA stability

ABSTRACT: Microbial iCLIP2: Enhanced mapping of RNA-protein interaction by promoting protein and RNA stability

PROVIDER: PRJNA1142020 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Microbial iCLIP2: Enhanced mapping of RNA-protein interaction by promoting protein and RNA stability

Project description:From synthesis to decay, the entire lifecycle of RNAs is precisely regulated by RNA-binding proteins (RBPs). Understanding the RBP-RNA interaction network, specifically their binding position on the transcriptome, is crucial for uncovering the regulatory potential of these proteins. CLIP-based methods, particularly the iCLIP method, represent a state-of-the-art technique for identifying RBP binding sites at single-nucleotide resolution. However, these methods require adaption for microbiological applications. Here, we have optimized the recent iCLIP2 method using the RBP Rrm4 for use in the fungal model system Ustilago maydis and successfully demonstrated its efficacy in conditions with high RNAse and protease activity.

2025-01-14 | GSE273496 | GEO

The genetic architecture of protein stability

Project description:The genetic architecture of protein stability

| PRJNA1032554 | ENA

Disentangling the mutational effects on protein stability and interaction of human MLH1

Project description:Missense mutations can have diverse effects on proteins, depending on their location within the protein and the specific amino acid substitution. Mutations in the DNA mismatch repair gene MLH1 are associated with Lynch syndrome, yet the underlying mechanism of most disease-causing mutations remain elusive. To address this gap, we aim to disentangle the mutational effects on two essential properties for MLH1 function: protein stability and protein-protein interaction. We systematically examine the cellular abundance and interaction with PMS2 of 4839 (94%) MLH1 variants in the C-terminal domain. Our combined data shows that most MLH1 variants lose interaction with PMS2 due to reduced cellular abundance. However, substitutions to charged residues in the canonical interface lead to reduced interaction with PMS2. Unexpectedly, we also identify a distal region in the C-terminal domain of MLH1 where substitutions cause both decreased and increased binding with PMS2. Our data successfully distinguish benign from pathogenic MLH1 variants and correlate with thermodynamic stability predictions and evolutionary conservation. This work provides mechanistic insights into variant consequences and may help interpret MLH1 variants.

2024-08-01 | GSE273652 | GEO

Disentangling the mutational effects on protein stability and interaction of human MLH1

Project description:Disentangling the mutational effects on protein stability and interaction of human MLH1

| PRJNA1142564 | ENA

Prdx1,a RNA binding protein,regulate inflammatory injury in intracerebral hemorrhage by targeting RNA stability

Project description:Prdx1,a RNA binding protein,regulate inflammatory injury in intracerebral hemorrhage by targeting RNA stability

| PRJNA555335 | ENA

Preanalytical impacts on protein stability by IHC evaluation

Project description:Preanalytical impacts on protein stability by IHC evaluation

| PRJNA701506 | ENA

CHD2 maintains spermatogonial self-renewal by promoting chromatin activity and mRNA stability

Project description:CHD2 maintains spermatogonial self-renewal by promoting chromatin activity and mRNA stability

| PRJNA816070 | ENA

Structural stability based deep sequencing of 5 protein targets

Project description:Structural stability based deep sequencing of 5 protein targets

| PRJNA1045539 | ENA

Prdx1,a RNA binding protein,regulate inflammatory injury in intracerebral hemorrhage by targeting RNA stability (PRDX1_OE_RNA-seq)

Project description:Prdx1,a RNA binding protein,regulate inflammatory injury in intracerebral hemorrhage by targeting RNA stability (PRDX1_OE_RNA-seq)

| PRJNA555345 | ENA

Prdx1,a RNA binding protein,regulate inflammatory injury in intracerebral hemorrhage by targeting RNA stability (PRDX1_iRIP-seq)

Project description:Prdx1,a RNA binding protein,regulate inflammatory injury in intracerebral hemorrhage by targeting RNA stability (PRDX1_iRIP-seq)

| PRJNA555344 | ENA

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