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ProteomicsSpecific inhibition of splicing factor activity by decoy RNA oligonucleotides
Alternative splicing, a fundamental step in gene expression, is deregulated in many diseases. Splicing factors (SFs), which regulate this process, are up- or down regulated or mutated in several diseases including cancer. To date, there are no inhibitors that directly inhibit the activity of SFs. We...
ORGANISM(S): Homo sapiens (Human) 
2019-01-31 | PXD012564 | Pride
Splicing factors Alternative splicing Rbfox2 Ptbp1 Cancer Lc-ms Srsf1 Decoy oligonucleotides 
ProteomicsStereo-random Oligonucleotides Enable Efficient Recruitment of ADAR in vitro and in vivo
We used our previously published isASO-ID protocol to identify binders for two different adenosine deaminases acting on RNA- (ADAR-) recruiting antisense oligonucleotides (ONs). The ONs differed in their phosphorothioate content and their RNA editing potency and efficiency through the recruitment of...
ORGANISM(S): Homo sapiens (Human) 
2025-07-31 | PXD066763 | Pride
Antisense oligonucleotide Basu Drug protein interactome Rna editing Proximity biotinylation Biotin ligase Silac In situ biotinylation Adar-recruiting oligonucleotides 
TranscriptomicsMismatch oligonucleotides in human and yeast
Background Mismatched oligonucleotides are widely used on microarrays to differentiate specific from nonspecific hybridization. While many experiments rely on such oligos, the hybridization behavior of various degrees of mismatch (MM) structure has not been extensively studied. Here, we present the ...
ORGANISM(S): Homo sapiens 
2010-05-05 | E-GEOD-13175 | biostudies-arrayexpress
ProteomicsDesign and evaluation of universal control antisense oligonucleotides across cellular models
Antisense oligonucleotides (ASOs) are emerging as a promising therapeutic approach for many disorders. Currently, fourteen ASOs have been FDA/EMA-approved, with many more in preclinical development. An important requirement for preclinical studies is the inclusion of negative controls to properly as...
ORGANISM(S): Homo sapiens (Human) 
2026-09-01 | PXD070121 | Pride
Antisense oligonucleotides Oligonucleotides 
ProteomicsInhibition of the RNA exosome by chemically stabilized long antisense oligonucleotides
The protein interactions of ADAR-recruiting oligonucleotides inside the cellular environment was identified using the isASO-ID protocol and SILAC-MS/MS. We identified two exoribonucleases to bind differently to the oligonucleotides with respect to their 3’-terminal 2’-ribose modifications leading to...
ORGANISM(S): Homo sapiens (Human) 
2026-09-30 | PXD079777 | Pride
Antisense oligonucleotide Basu Proximity biotinylation Biotin ligase Silac Rna quality control In situ biotinylation Rna exosome 
GenomicsGene expression profile of modified gapmer antisense oligonucleotides treated mouse liver
Gene expression profile of modified gapmer antisense oligonucleotides treated mouse liver
PRJNA1225661 | ENA
GenomicsSpecific inhibition of splicing factor activity by decoy RNA oligonucleotides
Specific inhibition of splicing factor activity by decoy RNA oligonucleotides
PRJNA522237 | ENA
TranscriptomicsGene expression profile in cells treated with different oligonucleotides
Oligonucleotides are normally used to down regulate gene expression via RISC or RNase H dependent mechanisms. However, properly designed oliognucleotides can be used to specifically increase translation of proteins by targeting certain regions of mRNAs. To determine if this type of oligonucleotide t...
ORGANISM(S): Homo sapiens 
2016-03-30 | E-GEOD-76343 | biostudies-arrayexpress
ProteomicsProteomic profiling of human colorectal adenocarcinoma Caco-2 cells in response to treatment with mesyl oligonucleotides targeting microRNAs miR-21, miR-155, and miR-17
Colorectal cancer (CRC) ranks among the most aggressive human malignancies and remains a leading cause of cancer mortality globally (Matsuda T. et al., Digestion, 2025). Despite advances in treatment, there is a critical need for novel therapeutic agents that combine high selectivity and minimal tox...
ORGANISM(S): Homo sapiens (Human) 
2025-12-04 | PXD069826 | Pride
Mesyl oligonucleotides Mir-21 Antisense oligonucleotides Antimirs Colorectal adenocarcinoma Microrna Mir-17 Mir-155 Proteomic profiling Caco-2 Lc-ms/ms 
Genomics(CA)n oligonucleotides correct RNA mis-splicing in TDP-43 pathology (I)
(CA)n oligonucleotides correct RNA mis-splicing in TDP-43 pathology (I)
PRJNA1028630 | ENA
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