ERGR - Ethanol-Related Gene Resource

Gene Information

Gene ID:

Symbol:

SOX9

Full Name:

SRY (sex determining region Y)-box 9 (campomelic dysplasia, autosomal sex-reversal)

Alias:

CMD1|CMPD1|SRA1

Organism:

Homo sapiens (Human)

Chromosome:

Genetic Location:

17q24.3-q25.1

Physical Location:

67628755-67634155 on NC_000017.9

Gene Type:

protein-coding

Orthologs:

This gene has Mouse: 20682 ortholog(s) in other dataset(s).

Gene in Ethanol Study Datasets

Gene Information

Original ID1:		SOX9
Original ID2:		Z46629

Dataset Information

Name:		11093800
Method:		Microarray
Tissue:		SH-SY5Y neuroblastoma cells
Phenotype:		Ethanol response
Publication:		Thibault et al. Mol Pharmacol. (2000) Expression profiling of neural cells reveals specific patterns of ethanol-responsive gene expression. PubMed
Summary:		We used oligonucleotide arrays to study nearly 6000 genes in human SH-SY5Y neuroblastoma cells exposed to chronic ethanol. A set of 42 genes had consistently increased or decreased mRNA abundance after 3 days of ethanol treatment.

Gene Information

Original ID1:		S74506
Fold Change:		-1.4, -1.9
Note:		Differential Expression on the cDNA array (two fold changes are from two case groups)

Dataset Information

Name:		11141048
Method:		Microarray
Tissue:		Frontal cortex
Phenotype:		Alcohol dependence (AD)/Alcohol abuse/Alcoholism
Publication:		Lewohl et al. Alcohol Clin Exp Res. (2000) Gene expression in human alcoholism: microarray analysis of frontal cortex. PubMed
Summary:		RNA was extracted from postmortem samples of superior frontal cortex of alcoholics and nonalcoholics. Relative levels of RNA were determined by array techniques. This study used both cDNA and oligonucleotide microarrays to provide coverage of a large number of genes and to allow cross-validation for those genes represented on both types of arrays. Expression levels were determined for over 4000 genes and 163 of these were found to differ by 40% or more between alcoholics and nonalcoholics.

Gene Information

Original ID1:

NM_000346

Dataset Information

Name:		12065639
Method:		Microarray
Tissue:		Frontal and motor cortices
Phenotype:		Alcohol dependence (AD)/Alcohol abuse/Alcoholism
Publication:		Mayfield et al. J Neurochem. (2002) Patterns of gene expression are altered in the frontal and motor cortices of human alcoholics. PubMed
Summary:		We used cDNA microarrays to analyze expression of approximately 10 000 genes in the frontal and motor cortices of three groups of chronic alcoholic and matched control cases. Fluorescent intensity ratios of 1.4-fold or greater in either direction (representing the 99% confidence interval) were used to indicate differentially expressed genes.

Gene Information

Original ID1:

SOX9

Dataset Information

Name:		Literature Search
Method:		Literature search
Summary:		We search all human protein coding gene names and the keywords Alcohol or Ethanol or Alcoholism in the title or abstract of all PUBMED publications. For those gene name less than 3 characters or search result hits more than 100, we use the full name to search again and manually check the results to reduce false positive.

Gene Refseq Sequence Annotation

mRNA	Protein	Reference assembly Genomic
NM_000346.3	NP_000337.1	NC_000017.9 range: 67628755..67634155

Gene Ontology (GO) Annotation

GO ID	GO Term	Category	Evidence (PubMed)
GO:0005634	nucleus	Cellular Component	TAS (10805756)
GO:0003677	DNA binding	Molecular Function	IEA
GO:0003704	specific RNA polymerase II transcription factor activity	Molecular Function	TAS (10805756)
GO:0001501	skeletal development	Biological Process	NR
GO:0001502	cartilage condensation	Biological Process	NR
GO:0006350	transcription	Biological Process	IEA
GO:0006357	regulation of transcription from RNA polymerase II promoter	Biological Process	TAS (10805756)