ERGR - Ethanol-Related Gene Resource

Gene Information

Gene ID:

Symbol:

Phgdh

Full Name:

3-phosphoglycerate dehydrogenase

Alias:

MGC105399

Organism:

Rattus norvegicus (Rat)

Chromosome:

Genetic Location:

2q34

Physical Location:

193147942-193177136 on NC_005101.2, complement

Gene Type:

protein-coding

Human Ortholog:

GeneID: 26227 Symbol (Name): PHGDH (phosphoglycerate dehydrogenase)

Ortholog Status:

The human GeneID 26227 is not in current human dataset.

Gene in Ethanol Study Datasets

Gene Information

Original ID1:		Rn.6872
Original ID2:		Phgdh
Fold Change:		1.42
P Value:		0.00003
Note:		Lower levels in the hippocampus of iP than iNP rats

Dataset Information

Name:		15660665
Method:		Microarray
Tissue:		Hippocampus
Phenotype:		Alcohol-preferring, alcohol-nonpreferring
Publication:		Edenberg et al. Genes Brain Behav. (2005) Gene expression in the hippocampus of inbred alcohol-preferring and -nonpreferring rats. PubMed
Summary:		The objective of this study was to test the hypothesis that there are innate differences in gene expression in the hippocampus of inbred alcohol-preferring (iP) and -nonpreferring (iNP) rats that may contribute to differences in sensitivity to ethanol and/or in the development of tolerance. Affymetrix microarrays were used to measure gene expression in the hippocampus of alcohol-naive male iP and iNP rats in two experiments (n = 4 and 6 per strain in the two experiments). Combining data from the two experiments, there were 137 probesets representing 129 genes that significantly differed (P ? 0.01).

Gene Information

Gene Information

Gene Information

Gene Information

Dataset Information

Name:		17517326
Method:		Microarray
Tissue:		Nucleus accumbens, amygdala, frontal cortex, caudate-putamen, and hippocampus
Phenotype:		Alcohol-preferring, alcohol-nonpreferring
Publication:		Kimpel et al. Alcohol. (2007) Functional gene expression differences between inbred alcohol-preferring and -non-preferring rats in five brain regions. PubMed
Summary:		The objective of this study was to determine if there are innate differences in gene expression in selected CNS regions between inbred alcohol-preferring (iP) and -non-preferring (iNP) rats. Gene expression was determined in the nucleus accumbens (ACB), amygdala (AMYG), frontal cortex (FC), caudate-putamen (CPU), and hippocampus (HIPP) of alcohol-naive adult male iP and iNP rats, using Affymetrix Rat Genome U34A microarrays (n = 6/strain). Using Linear Modeling for Microarray Analysis with a false discovery rate threshold of 0.1, there were 16 genes with differential expression in the ACB, 54 in the AMYG, 8 in the FC, 24 in the CPU, and 21 in the HIPP. All the fold change are iP vs. iNP fold change.

Gene Refseq Sequence Annotation

mRNA	Protein	Reference assembly Genomic
NM_031620.1	NP_113808.1	NC_005101.2 range: 193147942..193177136, complement

Gene Ontology (GO) Annotation

GO ID	GO Term	Category	Evidence (PubMed)
GO:0005575	cellular_component	Cellular Component	ND
GO:0004617	phosphoglycerate dehydrogenase activity	Molecular Function	IDA (9163325)
GO:0048037	cofactor binding	Molecular Function	IEA
GO:0016491	oxidoreductase activity	Molecular Function	IEA
GO:0051287	NAD binding	Molecular Function	IEA
GO:0004617	phosphoglycerate dehydrogenase activity	Molecular Function	IEA
GO:0008152	metabolic process	Biological Process	IEA
GO:0009070	serine family amino acid biosynthetic process	Biological Process	TAS (9163325)
GO:0006564	L-serine biosynthetic process	Biological Process	IEA
GO:0008652	amino acid biosynthetic process	Biological Process	IEA