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TranscriptomicsMicroRNA expression data from Bcl-xL silenced A549 lung adenocarcinoma cells
Bcl-xL is an anti-apoptotic protein that is frequently found to be overexpressed in non-small cell lung cancer leading to an inhibition of apoptosis and poor prognosis. Recently, the role of miRNAs in regulating apoptosis and cell survival during tumorigenesis has become evident, with cancer cells s...
ORGANISM(S): Homo sapiens 
2013-05-18 | E-GEOD-47059 | biostudies-arrayexpress
GenomicsReciprocal interactions of human C10orf12 and C17orf96 with PRC2 revealed by BioTAP-XL crosslinking and affinity purification
Short-read sequencing of DNA fractions of the BioTAP-XL pull-downs on human EZH2 and interacting proteins. ChIP-seq-like pulldown/input samples
ORGANISM(S): Homo sapiens 
2014-02-01 | E-GEOD-53495 | biostudies-arrayexpress
TranscriptomicsThe RNA-binding protein Musashi1 is a central regulator of adhesion pathways in glioblastoma
The conserved RNA-binding protein Musashi1 (MSI1) has emerged as a key oncogenic factor in numerous solid tumors, including glioblastoma. However, its mechanism of action has not yet been established comprehensively. We set out to map its impact on the transcriptome in U251 cells using RNA-seq and i...
ORGANISM(S): Homo sapiens 
2015-06-29 | E-GEOD-68800 | biostudies-arrayexpress
ProteomicsRNxQuest: an extension to the xQuest pipeline enabling analysis of protein-RNA cross-linking/mass spectrometry data
The recently introduced cross-linking of isotope-labelled RNA coupled with mass spectrometry (CLIR-MS) technique enables protein-RNA cross-links to be used as precisely localized distance restraints in de novo structural modelling. The novel data type requires a bespoke data analysis approach. The n...
ORGANISM(S): Bos taurus (Bovine) Homo sapiens (Human) 
2023-09-06 | PXD039754 | Pride
Uv cross-linking  mbnl1  fox1  ptbp1  bsa  cross-linking  xl-ms  structural proteomics  protein-rna  rna-protein  protein-rna complex  rna-protein complex  clir-ms 
ProteomicsA novel RNA binding protein YebC enhances translation of proline-rich amino acid stretches in bacteria
The ribosome employs a set of highly conserved translation factors to efficiently synthesise proteins. Some translation factors interact with the ribosome in a transient manner and are thus challenging to identify. However, proteins involved in translation could be specifically identified by their i...
ORGANISM(S): Streptococcus pyogenes M1 GAS 
2025-07-14 | PXD054642 | Pride
Streptococcus pyogenes Rna binding protein Rna Rna-protein xl 
TranscriptomicsHeterochromatin-associated interactions of Drosophila HP1 with dADD1, HIPP1, and repetitive RNAs
We report chromatin-associated protein and RNA interactions of HP1a, indentified by BioTAP-XL mass spectrometry and sequencing. We identify an extensive list of both known and novel HP1a-interacting proteins from Drosophila S2 cells and from whole organisms across embryonic, larval and adult stages....
ORGANISM(S): Drosophila melanogaster 
2014-07-03 | E-GEOD-56101 | biostudies-arrayexpress
ProteomicsSingle Nucleotide Resolution RNA-Protein Cross-Linking/MS: Simple Extension of the CLIR-MS Workflow
RNA-protein interactions mediate a vast number of intracellular processes. CLIR-MS (cross-linking of isotope labeled RNA and tandem mass spectrometry) is a mass spectrometric technique that allows the identification of RNA-protein interaction sites at single nucleotide/amino acid resolution in a sin...
ORGANISM(S): Homo sapiens (Human) 
2021-11-04 | PXD024010 | Pride
Protein rna cross-linking clir-ms uv xl 
TranscriptomicsTranscription profiling of mouse spleens of wild type mice and mutants lacking Nix, a proapoptotic BH3-only factor that is transcriptionally induced during erythropoiesis
Normal erythropoiesis requires a critical balance between proapoptotic and antipaoptotic pathways. Bcl-xl, an antiapoptotic protein is induced at end-stages of differentiation of erythroid precursors in response to erythropoietin. The details of the proapoptotic pathway and the critical proapoptotic...
ORGANISM(S): Mus musculus 
2007-11-07 | E-GEOD-7020 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of human SCLC cell line set 2
RNA expression analysis was performed to compare patterns to sensitivity to BCL2 inhibitors (ABT-263). Overexpression of the prosurvival Bcl-2 family members (Bcl-2, Bcl-xL and Mcl-1) is commonly associated with tumor maintenance, progression and chemoresistance. We previously reported the discover...
ORGANISM(S): Homo sapiens 
2008-06-19 | E-GEOD-10841 | biostudies-arrayexpress
ProteomicsSensitive detection and structural characterisation of UV-induced cross-links in protein-ribonucleic acid complexes using stable isotope labelling and mass spectrometry
The recently introduced cross-linking of isotope-labelled RNA coupled with mass spectrometry (CLIR-MS) technique enables protein-RNA cross-links to be used as precisely localized distance restraints in de novo structural modelling, but little is known about the structural characteristics of UV-induc...
ORGANISM(S): Homo sapiens (Human) 
2023-09-06 | PXD029930 | Pride
Uv cross-linking  mbnl1  fox1  ptbp1  sf3a1  u1  u2  cross-linking  xl-ms  structural proteomics  protein-rna  rna-protein  protein-rna complex  rna-protein complex  clir-ms 
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