[an error occurred while processing this directive]
Gene set: COPD_DOWN_NING (C2:PERT:0104)
Standard nameCOPD_DOWN_NING
Systematic nameC2:PERT:0104
Brief descriptionDownregulated genes in lung tissue of smokers with chronic obstructive pulmonary disease (COPD) vs smokers without disease (GOLD-2 vs GOLD-0)
CategoryC2: Curated
Sub-categoryPERT: Experimental pertuberation
Full description or Abstract

Toggle abstract view

To better understand the molecular basis of chronic obstructive
pulmonary disease (COPD), we used serial analysis of gene expression
(SAGE) and microarray analysis to compare the gene expression
patterns of lung tissues from COPD and control smokers. A total
of 59,343 tags corresponding to 26,502 transcripts were sequenced
in SAGE analyses. A total of 327 genes were differentially expressed
(1.5-fold up- or down-regulated). Microarray analysis using the
same RNA source detected 261 transcripts that were differentially
expressed to a significant degree between GOLD-2 and GOLD-0 smokers.
We confirmed the altered expression of a select number of genes
by using real-time quantitative RT-PCR. These genes encode for
transcription factors (EGR1 and FOS), growth factors or related
proteins (CTGF, CYR61, CX3CL1, TGFB1, and PDGFRA), and extracellular
matrix protein (COL1A1). Immunofluorescence studies on the same
lung specimens localized the expression of Egr-1, CTGF, and Cyr61
to alveolar epithelial cells, airway epithelial cells, and stromal
and inflammatory cells of GOLD-2 smokers. Cigarette smoke extract
induced Egr-1 protein expression and increased Egr-1 DNA-binding
activity in human lung fibroblast cells. Cytomix (tumor necrosis
factor alpha, IL-1beta, and IFN-gamma) treatment showed that the
activity of matrix metalloproteinase-2 (MMP-2) was increased in
lung fibroblasts from EGR1 control (+/+) mice but not detected
in that of EGR1 null (-/-) mice, whereas MMP-9 was regulated by
EGR1 in a reverse manner. Our study represents the first comprehensive
analysis of gene expression on GOLD-2 versus GOLD-0 smokers and
reveals previously unreported candidate genes that may serve as
potential molecular targets in COPD. 
Publication URL15469929
External linksna
Keywords & MeSH headingsTranscription Factors/genetics,Immediate-Early Proteins/genetics,Middle Aged,Gene Expression Profiling,Oligonucleotide Array Sequence Analysis,P.H.S.,Lung/pathology,Humans,genetics,Gene Expression Regulation,Polymerase Chain Reaction,Smoking/pathology,Pulmonary Disease,physiology,DNA-Binding Proteins/genetics,Chronic Obstructive,physiopathology
OrganismHuman
Contributed byKate Stafford
Source platformGene_Symbol
Downloadgrp|xml|map
Genes

144 genes, 144 accessions (Toggle view)

GeneTitleLinks
PHCAphytoceramidase, alkalineSource|GeneCards
RNPEPL1arginyl aminopeptidase (aminopeptidase B)-like 1Source|GeneCards
AKAP9A kinase (PRKA) anchor protein (yotiao) 9Source|GeneCards
MONDOAMlx interactorSource|GeneCards
NEURLneuralized-like (Drosophila)Source|GeneCards
RTN3reticulon 3Source|GeneCards
NDUFB8NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 8, 19kDaSource|GeneCards
SFRS11splicing factor, arginine/serine-rich 11Source|GeneCards
IFI30interferon, gamma-inducible protein 30Source|GeneCards
GOLGA2golgi autoantigen, golgin subfamily a, 2Source|GeneCards
RAMP2receptor (calcitonin) activity modifying protein 2Source|GeneCards
BTBD2BTB (POZ) domain containing 2Source|GeneCards
S100A8S100 calcium binding protein A8 (calgranulin A)Source|GeneCards
CGI-38brain specific proteinSource|GeneCards
UBTFupstream binding transcription factor, RNA polymerase ISource|GeneCards
SCAND1SCAN domain containing 1Source|GeneCards
MAP1LC3Bmicrotubule-associated protein 1 light chain 3 betaSource|GeneCards
CANXcalnexinSource|GeneCards
STK24serine/threonine kinase 24 (STE20 homolog, yeast)Source|GeneCards
CSF3colony stimulating factor 3 (granulocyte)Source|GeneCards
ELOVL5ELOVL family member 5, elongation of long chain fatty acids (FEN1/Elo2, SUR4/Elo3-like, yeast)Source|GeneCards
PYGBphosphorylase, glycogen; brainSource|GeneCards
GLRXglutaredoxin (thioltransferase)Source|GeneCards
RPL12ribosomal protein L12Source|GeneCards
SNRPBsmall nuclear ribonucleoprotein polypeptides B and B1Source|GeneCards
SELTselenoprotein TSource|GeneCards
TDE1tumor differentially expressed 1Source|GeneCards
C6ORF82chromosome 6 open reading frame 82Source|GeneCards
CPT1Bcarnitine palmitoyltransferase 1B (muscle)Source|GeneCards
TIMP2tissue inhibitor of metalloproteinase 2Source|GeneCards
PIN1protein (peptidyl-prolyl cis/trans isomerase) NIMA-interacting 1Source|GeneCards
TEGTtestis enhanced gene transcript (BAX inhibitor 1)Source|GeneCards
LGALS3lectin, galactoside-binding, soluble, 3 (galectin 3)Source|GeneCards
BTF3basic transcription factor 3Source|GeneCards
CORO1Ccoronin, actin binding protein, 1CSource|GeneCards
C21ORF51chromosome 21 open reading frame 51Source|GeneCards
RAB6ARAB6A, member RAS oncogene familySource|GeneCards
RPL5ribosomal protein L5Source|GeneCards
NEDD5neural precursor cell expressed, developmentally down-regulated 5Source|GeneCards
CDW52CDW52 antigen (CAMPATH-1 antigen)Source|GeneCards
RPS12ribosomal protein S12Source|GeneCards
GSNgelsolin (amyloidosis, Finnish type)Source|GeneCards
ZFP36L1zinc finger protein 36, C3H type-like 1Source|GeneCards
LAPTM4Alysosomal-associated protein transmembrane 4 alphaSource|GeneCards
GC20translation factor sui1 homologSource|GeneCards
CAPZBcapping protein (actin filament) muscle Z-line, betaSource|GeneCards
PSMD2proteasome (prosome, macropain) 26S subunit, non-ATPase, 2Source|GeneCards
RPS3Aribosomal protein S3ASource|GeneCards
RPL26ribosomal protein L26Source|GeneCards
CALUcalumeninSource|GeneCards
CBX7chromobox homolog 7Source|GeneCards
URBsteroid sensitive gene 1Source|GeneCards
CD47CD47 antigen (Rh-related antigen, integrin-associated signal transducer)Source|GeneCards
ANAPC2anaphase-promoting complex subunit 2Source|GeneCards
CATCatalaseSource|GeneCards
C3complement component 3Source|GeneCards
DENRdensity-regulated proteinSource|GeneCards
AMY2Bamylase, alpha 2B; pancreaticSource|GeneCards
ARMETarginine-rich, mutated in early stage tumorsSource|GeneCards
PVRL2poliovirus receptor-related 2 (herpesvirus entry mediator B)Source|GeneCards
ATP2A2ATPase, Ca++ transporting, cardiac muscle, slow twitch 2Source|GeneCards
BAT8HLA-B associated transcript 8Source|GeneCards
SETSET translocation (myeloid leukemia-associated)Source|GeneCards
ICAM1intercellular adhesion molecule 1 (CD54), human rhinovirus receptorSource|GeneCards
HPCAL1hippocalcin-like 1Source|GeneCards
XBP1X-box binding protein 1Source|GeneCards
YWHAGtyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptideSource|GeneCards
SLC2A11solute carrier family 2 (facilitated glucose transporter), member 11Source|GeneCards
AP2S1adaptor-related protein complex 2, sigma 1 subunitSource|GeneCards
USP9Xubiquitin specific protease 9, X-linked (fat facets-like, Drosophila)Source|GeneCards
SKP1AS-phase kinase-associated protein 1A (p19A)Source|GeneCards
EHD2EH-domain containing 2Source|GeneCards
PP2135PP2135 proteinSource|GeneCards
PDGFRAplatelet-derived growth factor receptor, alpha polypeptideSource|GeneCards
VCPvalosin-containing proteinSource|GeneCards
KDELR3KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 3Source|GeneCards
GGA2golgi associated, gamma adaptin ear containing, ARF binding protein 2Source|GeneCards
SIGLEC5sialic acid binding Ig-like lectin 5Source|GeneCards
GDI1GDP dissociation inhibitor 1Source|GeneCards
HMOX1heme oxygenase (decycling) 1Source|GeneCards
ENO1enolase 1, (alpha)Source|GeneCards
RPS24ribosomal protein S24Source|GeneCards
HDAC2histone deacetylase 2Source|GeneCards
FGRGardner-Rasheed feline sarcoma viral (v-fgr) oncogene homologSource|GeneCards
SPARCL1SPARC-like 1 (mast9, hevin)Source|GeneCards
SREBF2sterol regulatory element binding transcription factor 2Source|GeneCards
CRR9cisplatin resistance related protein CRR9pSource|GeneCards
PPP2R5Cprotein phosphatase 2, regulatory subunit B (B56), gamma isoformSource|GeneCards
CNN3calponin 3, acidicSource|GeneCards
SORBS1sorbin and SH3 domain containing 1Source|GeneCards
COX5Bcytochrome c oxidase subunit VbSource|GeneCards
SELENBP1selenium binding protein 1Source|GeneCards
AOC3amine oxidase, copper containing 3 (vascular adhesion protein 1)Source|GeneCards
RPS16ribosomal protein S16Source|GeneCards
RPL18ribosomal protein L18Source|GeneCards
IGFBP6insulin-like growth factor binding protein 6Source|GeneCards
COL3A1collagen, type III, alpha 1 (Ehlers-Danlos syndrome type IV, autosomal dominant)Source|GeneCards
KCND1potassium voltage-gated channel, Shal-related subfamily, member 1Source|GeneCards
SIAT6sialyltransferase 6 (N-acetyllacosaminide alpha 2,3-sialyltransferase)Source|GeneCards
GPR74G protein-coupled receptor 74Source|GeneCards
SNF1LKSNF1-like kinaseSource|GeneCards
GNB1guanine nucleotide binding protein (G protein), beta polypeptide 1Source|GeneCards
BHMT2betaine-homocysteine methyltransferase 2Source|GeneCards
RPS29ribosomal protein S29Source|GeneCards
MMP14matrix metalloproteinase 14 (membrane-inserted)Source|GeneCards
UBE2L6ubiquitin-conjugating enzyme E2L 6Source|GeneCards
C5R1complement component 5 receptor 1 (C5a ligand)Source|GeneCards
AHCYL1S-adenosylhomocysteine hydrolase-like 1Source|GeneCards
COL1A1collagen, type I, alpha 1Source|GeneCards
STXBP2syntaxin binding protein 2Source|GeneCards
PLEKHC1pleckstrin homology domain containing, family C (with FERM domain) member 1Source|GeneCards
HSPA8heat shock 70kDa protein 8Source|GeneCards
VARS2valyl-tRNA synthetase 2Source|GeneCards
RPS28ribosomal protein S28Source|GeneCards
ATP5A1ATP synthase, H+ transporting, mitochondrial F1 complex, alpha subunit, isoform 1, cardiac muscleSource|GeneCards
SCGB3A1secretoglobin, family 3A, member 1Source|GeneCards
PTTG1IPpituitary tumor-transforming 1 interacting proteinSource|GeneCards
DAZAP2DAZ associated protein 2Source|GeneCards
CST6cystatin E/MSource|GeneCards
SLC40A1solute carrier family 40 (iron-regulated transporter), member 1Source|GeneCards
DFD component of complement (adipsin)Source|GeneCards
CSTBcystatin B (stefin B)Source|GeneCards
GAS1growth arrest-specific 1Source|GeneCards
RPL17Ribosomal protein L17Source|GeneCards
HYPKHuntingtin interacting protein KSource|GeneCards
POLR2Jpolymerase (RNA) II (DNA directed) polypeptide J, 13.3kDaSource|GeneCards
B3GAT3beta-1,3-glucuronyltransferase 3 (glucuronosyltransferase I)Source|GeneCards
IFITM3interferon induced transmembrane protein 3 (1-8U)Source|GeneCards
SH3BP2SH3-domain binding protein 2Source|GeneCards
SBDSShwachman-Bodian-Diamond syndromeSource|GeneCards
FCGRTFc fragment of IgG, receptor, transporter, alphaSource|GeneCards
RPL31ribosomal protein L31Source|GeneCards
PFDN5prefoldin 5Source|GeneCards
CHST5carbohydrate (N-acetylglucosamine 6-O) sulfotransferase 5Source|GeneCards
EIF4A2eukaryotic translation initiation factor 4A, isoform 2Source|GeneCards
COL6A1collagen, type VI, alpha 1Source|GeneCards
PPP1R14Bprotein phosphatase 1, regulatory (inhibitor) subunit 14BSource|GeneCards


[an error occurred while processing this directive]