Derivative Assay:Article Title: Inhibition of Proteasome Activity Induces Formation of Alternative Proteasome Complexes
Article Snippet: Cells were trypsinized, mixed with trypan blue (Sigma), and the cell number was determined using a Neubauer counting chamber. .. Bioinformatics—All sequences were derived from the promoter sequence retrieval database ElDorado 12-2013 (Genomatix), which is based on NCBI build 37. .. Promoter sequences of PSME4 (PA200) and PSME3 (PA28 ) from six different species were aligned with the DiAlign TF program (42) in the Genomatix software suite GEMS Launcher to evaluate overall promoter similarity and identify conserved NRF1 (i.e. nuclear factor, erythroid 2-like 1 (NFE2L1)) binding sites.
Article Title: Inhibition of Proteasome Activity Induces Formation of Alternative Proteasome Complexes
Article Snippet: Cells were trypsinized, mixed with trypan blue (Sigma), and the cell number was determined using a Neubauer counting chamber. .. All sequences were derived from the promoter sequence retrieval database ElDorado 12-2013 (Genomatix), which is based on NCBI build 37. .. Promoter sequences of PSME4 (PA200) and PSME3 (PA28γ) from six different species were aligned with the DiAlign TF program ( 42 ) in the Genomatix software suite GEMS Launcher to evaluate overall promoter similarity and identify conserved NRF1 ( i.e. nuclear factor, erythroid 2-like 1 (NFE2L1)) binding sites.
Sequencing:Article Title: Inhibition of Proteasome Activity Induces Formation of Alternative Proteasome Complexes
Article Snippet: Cells were trypsinized, mixed with trypan blue (Sigma), and the cell number was determined using a Neubauer counting chamber. .. Bioinformatics—All sequences were derived from the promoter sequence retrieval database ElDorado 12-2013 (Genomatix), which is based on NCBI build 37. .. Promoter sequences of PSME4 (PA200) and PSME3 (PA28 ) from six different species were aligned with the DiAlign TF program (42) in the Genomatix software suite GEMS Launcher to evaluate overall promoter similarity and identify conserved NRF1 (i.e. nuclear factor, erythroid 2-like 1 (NFE2L1)) binding sites.
Article Title: Loss of heterozygosity of chromosome 13q33-34 region and molecular analysis of ING1 and p53 genes in bladder carcinoma.
Article Snippet: Cancer is a consequence of accumulation of genetic and epigenetic alterations in the cell which can lead to activation of oncogenes or inactivation of tumor suppressor genes (TSG).. Since members of ING family were discovered as TSGs in different cancer types, it was aimed to analyze the chromosome 13q33-34 region, ING1 and p53 genes in bladder cancer.. 30 paired normal and tumor tissues were investigated in terms of microdeletion of chromosome 13q33-34 region, ING1 expression and mutation status of ING1 and p53 genes.
Article Title: Inhibition of Proteasome Activity Induces Formation of Alternative Proteasome Complexes
Article Snippet: Cells were trypsinized, mixed with trypan blue (Sigma), and the cell number was determined using a Neubauer counting chamber. .. All sequences were derived from the promoter sequence retrieval database ElDorado 12-2013 (Genomatix), which is based on NCBI build 37. .. Promoter sequences of PSME4 (PA200) and PSME3 (PA28γ) from six different species were aligned with the DiAlign TF program ( 42 ) in the Genomatix software suite GEMS Launcher to evaluate overall promoter similarity and identify conserved NRF1 ( i.e. nuclear factor, erythroid 2-like 1 (NFE2L1)) binding sites.
Article Title: Requirement for NF-κB in maintenance of molecular and behavioral circadian rhythms in mice
Article Snippet: .. Sequence analysis using the promoter prediction and regulatory sequence algorithm (http://www.genomatix.de/matinspector.html) identified putative NF-κB binding sites. (B) 2 Representative browser tracks of total POL II ChIP-seq following saline or LPS treatment at the positive control Pai1 (plasminogen activator inhibitor-1) and the negative control Drd2 (Dopamine receptor D2) gene promoters. (C) Relative luciferase activity of PER2-LUCIFERASE in the presence of increasing doses of the NF-κB subunits p65 and p50 in HepG2 cells (n=5-11). (D) Time course of clock gene expression in liver following LPS injection. ..
Article Title: Circadian clock dysfunction in human omental fat links obesity to metabolic inflammation
Article Snippet: .. Human core clock genes possess NF-κB binding sites Sequence analysis using the promoter prediction and regulatory sequence algorithm (http://www.genomatix.de/matinspector/ )7 identified putative NF-κB binding sites to the promoter regions of human core clock genes. ..
Article Title: In silico Analysis and Site-directed Mutagenesis of Promoters
Article Snippet: .. Promoter analysis The proximal promoter sequence of the promoter of interest, the ITGA1 gene, can be downloaded from the reference human genome or from the switchdb website: http://switchdb.switchgeargenomics.com/productinfo/id_706788/ Genomatix website: upload the promoter sequence and use the default parameters or use the promoter search. ..
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Binding Assay:Article Title: Requirement for NF-κB in maintenance of molecular and behavioral circadian rhythms in mice
Article Snippet: .. Sequence analysis using the promoter prediction and regulatory sequence algorithm (http://www.genomatix.de/matinspector.html) identified putative NF-κB binding sites. (B) 2 Representative browser tracks of total POL II ChIP-seq following saline or LPS treatment at the positive control Pai1 (plasminogen activator inhibitor-1) and the negative control Drd2 (Dopamine receptor D2) gene promoters. (C) Relative luciferase activity of PER2-LUCIFERASE in the presence of increasing doses of the NF-κB subunits p65 and p50 in HepG2 cells (n=5-11). (D) Time course of clock gene expression in liver following LPS injection. ..
Article Title: Circadian clock dysfunction in human omental fat links obesity to metabolic inflammation
Article Snippet: .. Human core clock genes possess NF-κB binding sites Sequence analysis using the promoter prediction and regulatory sequence algorithm (http://www.genomatix.de/matinspector/ )7 identified putative NF-κB binding sites to the promoter regions of human core clock genes. ..
Chromatin Immunoprecipitation:Article Title: Requirement for NF-κB in maintenance of molecular and behavioral circadian rhythms in mice
Article Snippet: .. Sequence analysis using the promoter prediction and regulatory sequence algorithm (http://www.genomatix.de/matinspector.html) identified putative NF-κB binding sites. (B) 2 Representative browser tracks of total POL II ChIP-seq following saline or LPS treatment at the positive control Pai1 (plasminogen activator inhibitor-1) and the negative control Drd2 (Dopamine receptor D2) gene promoters. (C) Relative luciferase activity of PER2-LUCIFERASE in the presence of increasing doses of the NF-κB subunits p65 and p50 in HepG2 cells (n=5-11). (D) Time course of clock gene expression in liver following LPS injection. ..
Saline:Article Title: Requirement for NF-κB in maintenance of molecular and behavioral circadian rhythms in mice
Article Snippet: .. Sequence analysis using the promoter prediction and regulatory sequence algorithm (http://www.genomatix.de/matinspector.html) identified putative NF-κB binding sites. (B) 2 Representative browser tracks of total POL II ChIP-seq following saline or LPS treatment at the positive control Pai1 (plasminogen activator inhibitor-1) and the negative control Drd2 (Dopamine receptor D2) gene promoters. (C) Relative luciferase activity of PER2-LUCIFERASE in the presence of increasing doses of the NF-κB subunits p65 and p50 in HepG2 cells (n=5-11). (D) Time course of clock gene expression in liver following LPS injection. ..
Positive Control:Article Title: Requirement for NF-κB in maintenance of molecular and behavioral circadian rhythms in mice
Article Snippet: .. Sequence analysis using the promoter prediction and regulatory sequence algorithm (http://www.genomatix.de/matinspector.html) identified putative NF-κB binding sites. (B) 2 Representative browser tracks of total POL II ChIP-seq following saline or LPS treatment at the positive control Pai1 (plasminogen activator inhibitor-1) and the negative control Drd2 (Dopamine receptor D2) gene promoters. (C) Relative luciferase activity of PER2-LUCIFERASE in the presence of increasing doses of the NF-κB subunits p65 and p50 in HepG2 cells (n=5-11). (D) Time course of clock gene expression in liver following LPS injection. ..
Negative Control:Article Title: Requirement for NF-κB in maintenance of molecular and behavioral circadian rhythms in mice
Article Snippet: .. Sequence analysis using the promoter prediction and regulatory sequence algorithm (http://www.genomatix.de/matinspector.html) identified putative NF-κB binding sites. (B) 2 Representative browser tracks of total POL II ChIP-seq following saline or LPS treatment at the positive control Pai1 (plasminogen activator inhibitor-1) and the negative control Drd2 (Dopamine receptor D2) gene promoters. (C) Relative luciferase activity of PER2-LUCIFERASE in the presence of increasing doses of the NF-κB subunits p65 and p50 in HepG2 cells (n=5-11). (D) Time course of clock gene expression in liver following LPS injection. ..
Luciferase:Article Title: Requirement for NF-κB in maintenance of molecular and behavioral circadian rhythms in mice
Article Snippet: .. Sequence analysis using the promoter prediction and regulatory sequence algorithm (http://www.genomatix.de/matinspector.html) identified putative NF-κB binding sites. (B) 2 Representative browser tracks of total POL II ChIP-seq following saline or LPS treatment at the positive control Pai1 (plasminogen activator inhibitor-1) and the negative control Drd2 (Dopamine receptor D2) gene promoters. (C) Relative luciferase activity of PER2-LUCIFERASE in the presence of increasing doses of the NF-κB subunits p65 and p50 in HepG2 cells (n=5-11). (D) Time course of clock gene expression in liver following LPS injection. ..
Activity Assay:Article Title: Requirement for NF-κB in maintenance of molecular and behavioral circadian rhythms in mice
Article Snippet: .. Sequence analysis using the promoter prediction and regulatory sequence algorithm (http://www.genomatix.de/matinspector.html) identified putative NF-κB binding sites. (B) 2 Representative browser tracks of total POL II ChIP-seq following saline or LPS treatment at the positive control Pai1 (plasminogen activator inhibitor-1) and the negative control Drd2 (Dopamine receptor D2) gene promoters. (C) Relative luciferase activity of PER2-LUCIFERASE in the presence of increasing doses of the NF-κB subunits p65 and p50 in HepG2 cells (n=5-11). (D) Time course of clock gene expression in liver following LPS injection. ..
Gene Expression:Article Title: Requirement for NF-κB in maintenance of molecular and behavioral circadian rhythms in mice
Article Snippet: .. Sequence analysis using the promoter prediction and regulatory sequence algorithm (http://www.genomatix.de/matinspector.html) identified putative NF-κB binding sites. (B) 2 Representative browser tracks of total POL II ChIP-seq following saline or LPS treatment at the positive control Pai1 (plasminogen activator inhibitor-1) and the negative control Drd2 (Dopamine receptor D2) gene promoters. (C) Relative luciferase activity of PER2-LUCIFERASE in the presence of increasing doses of the NF-κB subunits p65 and p50 in HepG2 cells (n=5-11). (D) Time course of clock gene expression in liver following LPS injection. ..
Injection:Article Title: Requirement for NF-κB in maintenance of molecular and behavioral circadian rhythms in mice
Article Snippet: .. Sequence analysis using the promoter prediction and regulatory sequence algorithm (http://www.genomatix.de/matinspector.html) identified putative NF-κB binding sites. (B) 2 Representative browser tracks of total POL II ChIP-seq following saline or LPS treatment at the positive control Pai1 (plasminogen activator inhibitor-1) and the negative control Drd2 (Dopamine receptor D2) gene promoters. (C) Relative luciferase activity of PER2-LUCIFERASE in the presence of increasing doses of the NF-κB subunits p65 and p50 in HepG2 cells (n=5-11). (D) Time course of clock gene expression in liver following LPS injection. ..
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