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Gene expressions in normal breast duct vs lobule

ABSTRACT: Gene expressions were measured in 8 normal breast duct samples and 8 normal breast lobule samples from premenopausal patients using Agilent-028004 SurePrint G3 Human GE 8x60K Microarray. A total of 426 transcripts were identified as being significantly differentially expressed. Supervised hierarchical clustering based on the 426 differentially expressed genes showed distinct clustering of the duct and lobule samples.The significant enrichment analysis of GO terms for the differentially expressed genes using the R language package software demonstrated that these 426 differentially expressed genes were involved in many important biological processes, including negative regulation of low-density lipoprotein receptor biosynthetic process, response to steroid hormone stimulus and oxidation reduction. 17 differential expressed genes identified by microarray were randomly chosen for further validation using quantitative RT-PCR. As results, fold changes measured by quantitative RT-PCR were closely correlated with those measured by microarray.

ORGANISM(S): Homo sapiens

PROVIDER: GSE39021 | GEO | 2012/06/30

SECONDARY ACCESSION(S): PRJNA169617

REPOSITORIES: GEO

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Gene expressions in normal breast duct vs lobule

Project description:Gene expressions were measured in 8 normal breast duct samples and 8 normal breast lobule samples from premenopausal patients using Agilent-028004 SurePrint G3 Human GE 8x60K Microarray. A total of 426 transcripts were identified as being significantly differentially expressed. Supervised hierarchical clustering based on the 426 differentially expressed genes showed distinct clustering of the duct and lobule samples.The significant enrichment analysis of GO terms for the differentially expressed genes using the R language package software demonstrated that these 426 differentially expressed genes were involved in many important biological processes, including negative regulation of low-density lipoprotein receptor biosynthetic process, response to steroid hormone stimulus and oxidation reduction. 17 differential expressed genes identified by microarray were randomly chosen for further validation using quantitative RT-PCR. As results, fold changes measured by quantitative RT-PCR were closely correlated with those measured by microarray. 8 normal breast duct samples vs 8 normal breast lobule samples from premenopausal patients, unpaired

2012-06-29 | E-GEOD-39021 | biostudies-arrayexpress

Development of blood biomarkers that distinguish pancreatic cancer from biliary tract cancer

Project description:We have developed a method for diagnosing pancreatic cancer and bile duct cancer based on miRNA expression information in the circulating blood. 2565 miRNAs in 426 serum samples were analyzed.

2023-06-30 | GSE212211 | GEO

MicroRNA expression during somatic embryogenesis in Arabidopsis

Project description:The microarray test aims to find the miRNAs involved in somatic embryogenesis in Arabidopsis. The plant microRNA array V2.0 (CapitalBio Corp., Beijing, China) contained 426 non-reduplicated plant miRNA probes, including 188 in Arabidopsis. Finally, 75 plant miRNAs expressed differentially, 36 increased and 39 decreased included.

2012-02-13 | GSE35759 | GEO

Homo sapiens

Project description:Gene expressions in normal breast duct vs lobule

| PRJNA169617 | ENA

Cholangiocarcinoma tissues VS. corresponding normal bile duct tissues

Project description:To identify miRNAs differentially expressed in cholangiocarcinoma,3 human cholangiocarcinoma and their corresponding normal bile duct tissues were obtained from 3 patients after operation with postoperative pathological diagnosed perihilar or distal biliary cholangiocarcinoma miRNAs expression in human cholangiocarcinoma/normal bile duct samples was measured after operation.Three independent experiments were performed using different patients for each experiment.

2013-06-10 | E-GEOD-47764 | biostudies-arrayexpress

Differential miRNA expression of inherently high- and low-active inbred mice

Project description:To further our understanding of the biological mechanisms regulating voluntary physical activity levels, we measured differential miRNA expression in two strains of mice that have been repeatedly shown to have inherently high and low voluntary physical activity levels measured by wheel running. RNA from skeletal muscle (soleus and extensor digitorum longus (EDL)) and nucleus accumbens in the brain tissues were evaluated by microarray. There were no other variables besides inherent strain differences. Thirteen miRNAs from nucleus accumbens, 22 from soleus, and nine miRNAs from EDL were determined to be differentially expressed by microarray analysis. RT-qPCR validated mir-342b-3p and 466d-3p to be differentially expressed in the NA, and miR-466b-3p in the soleus.

2015-06-01 | GSE56374 | GEO

Examine strain and gender associated gene expression in Schistosoma japonicum

Project description:We utilised a 22,575 feature custom oligonucleotide DNA microarray designed from public domain databases of schistosome expressed sequence tags to explore differential gene expression between the Philippine (SJP) and Chinese (SJC) strains of S. japonicum, and between male and female S. japonicum. We found that 593, 664 and 426 probes were differentially expressed between the two geographical strains when we compared mix sexed adults, male worms and female worms. Additionally, the study revealed that 1,163 male- and 1,016 femaleassociated probes were differentially expressed in SJP whereas 1,047 male- and 897 female-associated probes were differentially expressed in SJC. Keywords: Strain and Gender Comparison

2006-07-07 | GSE5234 | GEO

Human placental tissues:control group vs non-diabetic fetal macrosomia (NDFMS) group

Project description:To investigate whether aberrant lncRNA expression in the placenta is involved in the pathogenesis of NDFMS and to elucidate its biological mechanisms. The expression profile of lncRNAs in the placentas of pregnant women with NDFMS was investigated using an Agilent Human LncRNA Microarray. Differentially expressed lncRNAs were selected for validation using reverse transcription-quantitative polymerase chain reaction (RT-qPCR).

2022-03-25 | GSE199148 | GEO

Unlimited in vitro expansion of adult bi-potent pancreas progenitors through the Lgr5/Rspondin axis

Project description:Lgr5 marks adult stem cells in multiple adult organs and is a receptor for the Wnt-agonistic R-spondins (RSPOs). Intestinal, stomach and liver Lgr5+ stem cells grow in 3D cultures to form ever-expanding organoids, which resemble the tissues of origin. Wnt signaling is inactive and Lgr5 is not expressed under physiological conditions in the adult pancreas. However, we now report that the Wnt pathway is robustly activated upon injury by Partial Duct Ligation (PDL), concomitant with the appearance of Lgr5 expression in regenerating pancreatic ducts. In vitro, duct fragments from mouse pancreas initiate Lgr5 expression in RSPO1-based cultures, and develop into budding cyst-like structures (organoids) which expand 5-fold weekly for >40 weeks. Single isolated duct cells can also be cultured into pancreatic organoids, containing Lgr5 stem/progenitor cells that can be clonally expanded. Clonal pancreas organoids can be induced to differentiate into duct as well as endocrine cells upon transplantation, thus proving their bi-potentiality We generated arrays from whole pancreas, islet, acinar and duct (Sox9+ sorted) cells and pancreas derived cultures maintained in our defined medium. For the clustering analysis we substracted the pancreas array to all arrays. Genes 2 fold differentially expressed in the ductal array were used for the analsyis. For the genes enriched in organoid cultures compared to pancreas we substracted the organoid culture arrays to the pancreas array. Genes >2-fold differentially expressed were used for the analysis.

2013-09-17 | E-GEOD-50103 | biostudies-arrayexpress

Expression profiles and initial confirmation of long non-coding RNAs in Chinese patients with pulmonary adenocarcinoma

Project description:There are significant differences in the lncRNA expression profiles in Chinese patients with pulmonary adenocarcinoma. LncRNAs such as AK124939 may be anti-cancer factors related to the progress of pulmonary adenocarcinoma. RNA extracted from three paired pulmonary adenocarcinoma tissue and adjacent normal lung tissue specimens was used to synthesize double-stranded complementary DNA (cDNA) after labeling and hybridization. The cDNA was labeled and hybridized to the lncRNA expression microarray, and array data were analyzed for hierarchical clustering. Gene coexpression networks were constructed to identify interactions among genes. To validate the microarray findings, we measured the relative expression levels of four random differentially expressed lncRNAs in the same tissue used for microarray using real-time quantitative polymerase chain reaction (qRT-PCR). The expression level of one lncRNA AK124939, in the paired pulmonary adenocarcinoma/adjacent normal lung tissue of another 30 patients was measured using qRT-PCR. The experimental data were further analyzed and compared with clinical features.

2014-04-17 | E-GEOD-56850 | biostudies-arrayexpress

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