INT196215

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Context Info
Confidence 0.33
First Reported 2006
Last Reported 2006
Negated 2
Speculated 0
Reported most in Body
Documents 1
Total Number 14
Disease Relevance 0.47
Pain Relevance 0

This is a graph with borders and nodes. Maybe there is an Imagemap used so the nodes may be linking to some Pages.

cytosol (REST) nucleolus (REST) nucleus (REST)
intracellular (REST) DNA binding (REST) transcription factor binding (REST)
Anatomy Link Frequency
HeLa 2
neuron 1
stem cells 1
L1RE1 (Homo sapiens)
REST (Homo sapiens)
Pain Link Frequency Relevance Heat
Calcium channel 154 35.00 Quite Low
Neurotransmitter 70 5.00 Very Low Very Low Very Low
gABA 28 5.00 Very Low Very Low Very Low
Migraine 14 5.00 Very Low Very Low Very Low
Central nervous system 14 5.00 Very Low Very Low Very Low
Glutamate 14 5.00 Very Low Very Low Very Low
Neuropeptide 14 5.00 Very Low Very Low Very Low
Disease Link Frequency Relevance Heat
Disease 56 99.32 Very High Very High Very High
Repression 42 58.00 Quite High
Anaplastic Astrocytoma 14 5.00 Very Low Very Low Very Low
Epilepsy 14 5.00 Very Low Very Low Very Low
Cerebellar Diseases 14 5.00 Very Low Very Low Very Low
Nervous System Malformation 14 5.00 Very Low Very Low Very Low
Adhesions 14 5.00 Very Low Very Low Very Low
Headache 14 5.00 Very Low Very Low Very Low
Ataxia 14 5.00 Very Low Very Low Very Low
Neurodegenerative Disease 14 5.00 Very Low Very Low Very Low

Sentences Mentioned In

Key: Protein Mutation Event Anatomy Negation Speculation Pain term Disease term
These results underlined the accuracy of using a 0.91 cutoff in predicting high-affinity RE1s, while demonstrating that a minority of below-cutoff RE1s can interact with REST, albeit more weakly.
RE1s Binding (interact) of REST
1) Confidence 0.33 Published 2006 Journal Nucleic Acids Research Section Body Doc Link PMC1557810 Disease Relevance 0.06 Pain Relevance 0
From human Chromosome 1 we randomly selected five non-consensus, PSSM-predicted RE1s, and five consensus RE1s with PSSM scores below cutoff, and tested their ability to interact with REST in vitro by EMSA (Figure 2B).
RE1s Binding (interact) of REST
2) Confidence 0.28 Published 2006 Journal Nucleic Acids Research Section Body Doc Link PMC1557810 Disease Relevance 0.07 Pain Relevance 0
From human Chromosome 1 we randomly selected five non-consensus, PSSM-predicted RE1s, and five consensus RE1s with PSSM scores below cutoff, and tested their ability to interact with REST in vitro by EMSA (Figure 2B).
RE1s Binding (interact) of REST
3) Confidence 0.28 Published 2006 Journal Nucleic Acids Research Section Body Doc Link PMC1557810 Disease Relevance 0.07 Pain Relevance 0
One might expect that as score constraints are progressively relaxed, the ratio of sequences identified by RE1 and shuffled PSSMs should approach 1; the fact that there is still a 5:1 excess of RE1s between 0.88 and 0.91, strongly suggests that the population of below-cutoff RE1s has genuine biological significance, despite evidence that the majority cannot bind REST.
RE1s Binding (bind) of REST
4) Confidence 0.25 Published 2006 Journal Nucleic Acids Research Section Body Doc Link PMC1557810 Disease Relevance 0 Pain Relevance 0
In agreement with previous findings (26), neither hERV Class I RE1 showed detectable affinity for REST.
RE1 Binding (affinity) of REST
5) Confidence 0.25 Published 2006 Journal Nucleic Acids Research Section Body Doc Link PMC1557810 Disease Relevance 0 Pain Relevance 0
A number of REST target genes have been found to contain pairs of RE1s arranged in tandem: human SNAP25 and L1CAM recruit REST more effectively than single sites in the same cells (26), while KCNN4 contains a strong, well-conserved RE1 together with a second, more weakly conserved site that is capable of interacting with REST in mouse but not human (42).
RE1 Binding (interacting) of REST
6) Confidence 0.25 Published 2006 Journal Nucleic Acids Research Section Body Doc Link PMC1557810 Disease Relevance 0 Pain Relevance 0
The majority of consensus RE1 sequences failed to meet the RE1 PSSM cutoff, including 99.5% of contaminating hERV Class I RE1-like sequences (Figure 1B), which do not bind REST.
RE1 Neg (not) Binding (bind) of REST
7) Confidence 0.22 Published 2006 Journal Nucleic Acids Research Section Body Doc Link PMC1557810 Disease Relevance 0.09 Pain Relevance 0
We assayed REST occupancy at the four functional CACNA1A RE1s in HeLa by ChIP assay.
RE1s Binding (occupancy) of REST in HeLa
8) Confidence 0.22 Published 2006 Journal Nucleic Acids Research Section Body Doc Link PMC1557810 Disease Relevance 0 Pain Relevance 0
REST is the sole transcription factor to bind the highly conserved repressor element 1 (RE1, also known as neuron-restrictive silencing element, NRSE), to which it recruits various histone-modifying and chromatin-remodelling complexes (21–24).
RE1 Binding (bind) of REST in neuron
9) Confidence 0.21 Published 2006 Journal Nucleic Acids Research Section Body Doc Link PMC1557810 Disease Relevance 0.10 Pain Relevance 0
To confirm that duplicated RE1s are functional binding sites, we tested a selection of these RE1s’ ability to interact with REST in vitro by EMSA competition assay (Figure 5C).
RE1s Binding (interact) of REST
10) Confidence 0.21 Published 2006 Journal Nucleic Acids Research Section Body Doc Link PMC1557810 Disease Relevance 0 Pain Relevance 0
Therefore REST is only recruited to the high-affinity RE1s of the CACNA1A gene in HeLa cells under normal conditions, but weaker RE1s retain the ability to specifically recruit REST at elevated concentrations.
RE1s Binding (recruit) of REST in HeLa
11) Confidence 0.19 Published 2006 Journal Nucleic Acids Research Section Body Doc Link PMC1557810 Disease Relevance 0 Pain Relevance 0
The majority of consensus RE1 sequences failed to meet the RE1 PSSM cutoff, including 99.5% of contaminating hERV Class I RE1-like sequences (Figure 1B), which do not bind REST.
RE1 Neg (not) Binding (bind) of REST
12) Confidence 0.19 Published 2006 Journal Nucleic Acids Research Section Body Doc Link PMC1557810 Disease Relevance 0.09 Pain Relevance 0
As we have shown, some below-cutoff sites represent low-affinity RE1s which are only capable of recruiting REST at elevated concentrations and/or permissive chromatin states, such as occurs in ischemic neurons (17) or neural stem cells (44,45), respectively.
RE1s Binding (recruiting) of REST in stem cells
13) Confidence 0.19 Published 2006 Journal Nucleic Acids Research Section Body Doc Link PMC1557810 Disease Relevance 0 Pain Relevance 0
In order to construct an RE1 PSSM, we compiled 93 RE1 sequences which have been shown to bind REST either in vitro (by EMSA) or in vivo (by ChIP).
RE1 Binding (bind) of REST
14) Confidence 0.18 Published 2006 Journal Nucleic Acids Research Section Body Doc Link PMC1557810 Disease Relevance 0 Pain Relevance 0

General Comments

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