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TranscriptomicsiCLIP of TDP-43
A stable HEK293 FlpIn T-Rex cells expressing TDP-43 with an N-terminal eGFP-tag was generated that allowed inducible physiological expression of the protein (Ling et al. 2010). Duplicate iCLIP experiments were performed using an antibody targeting eGFP (Abcam ab290). Crosslinked RNA-protein complexe...
ORGANISM(S): Homo sapiens 
2017-05-01 | E-MTAB-4733 | biostudies-arrayexpress
Transcriptomics3'-end targeted sequencing of 6 control and 6 TDP-43 KD samples in HEK293
HEK293 FlpIn T-Rex cells were maintained in Dulbeccos Modified Eagle Medium (DMEM) with 10% fetal bovine serum (FBS), supplemented with 3 g/ml blasticidine and 50 g/ml zeocin. For the siRNA-induced knockdown of TDP-43, 20 nM of TDP-43 stealth siRNA was mixed with 10 L of RNAiMAX following the manufa...
ORGANISM(S): Homo sapiens 
2017-05-01 | E-MTAB-4732 | biostudies-arrayexpress
ProteomicsProximity-dependent TurboID labeling screen on the LAMTOR complex
This proximity-dependent labeling screen was set up to investigate the “proxisome” (i.e. the sum of proteins in the labeling diameter around a bait protein) of the LAMTOR complex. Furthermore, we aimed at understanding the recruitment dynamics of known and unknown proteins to and from the LAMTOR com...
ORGANISM(S): Homo sapiens (Human) 
2026-07-10 | PXD080046 | Pride
Lc-msms Flpin-t-rex 293 cells Human Lamtor baits Embryonic kidney Turboid 
TranscriptomicsGlobal Target mRNA Specification and Regulation by RNA-Binding Protein ZFP36/Tristetraprolin/TTP [PAR-CLIP]
Tristetraprolin/ZFP36/TTP and ELAVL1/HuR are two disease-relevant RNA-binding proteins (RBPs) that both interact with AU-rich sequences but have antagonistic roles. While ELAVL1 binding has been profiled in several studies, the precise in vivo binding specificity of ZFP36 has not been investigated o...
ORGANISM(S): Homo sapiens 
2013-12-24 | E-GEOD-53184 | biostudies-arrayexpress
TranscriptomicsGlobal Target mRNA Specification and Regulation by RNA-Binding Protein ZFP36/Tristetraprolin/TTP
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Homo sapiens 
2013-12-24 | E-GEOD-53185 | biostudies-arrayexpress
ProteomicsNuclear RNA forms an interconnected network of transcription-dependent and tunable microgels
The human cell nucleus is comprised of proteins, chromatin and RNA, yet how they interact to form supramolecular structures and drive key biological processes remains unknown. Conflicting models have proposed either a fluid-like or solid-like nature for the intranuclear microenvironment. To reconcil...
ORGANISM(S): Homo sapiens (Human) 
2024-06-18 | PXD053208 | Pride
Nuclear architecture Chromatin Transcription Hnrnpu Xrn2 Saf-a Rna Microphase separation Bridging-induced attraction 
TranscriptomicsFMR1 targets distinct mRNA sequence elements to regulate protein expression [PAR-CLIP]
Fragile-X Syndrome (FXS) is a multi-organ disease leading to mental retardation, macro-orchidism in males, and premature ovarian insufficiency in female carriers. FXS is also a prominent monogenic disease associated with autism spectrum disorders (ASD). FXS is typically caused by the loss of FRAGILE...
ORGANISM(S): Homo sapiens 
2012-12-13 | E-GEOD-39682 | biostudies-arrayexpress
TranscriptomicsFMR1 targets distinct mRNA sequence elements to regulate protein expression [Affymetrix]
Fragile-X Syndrome (FXS) is a multi-organ disease leading to mental retardation, macro-orchidism in males, and premature ovarian insufficiency in female carriers. FXS is also a prominent monogenic disease associated with autism spectrum disorders (ASD). FXS is typically caused by the loss of FRAGILE...
ORGANISM(S): Homo sapiens 
2012-12-13 | E-GEOD-39504 | biostudies-arrayexpress
TranscriptomicsFMR1 targets distinct mRNA sequence elements to regulate protein expression
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Homo sapiens 
2012-12-13 | E-GEOD-39686 | biostudies-arrayexpress
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