Microarray gene expression profiling and bioinformatics analysis of premature ovarian failure in a rat model
| العنوان: | Microarray gene expression profiling and bioinformatics analysis of premature ovarian failure in a rat model |
|---|---|
| المؤلفون: | Jiaming Xie, Ji Li, Pengling Ge, Dongwei Han, Shengjun Fan, Haixue Kuang |
| المصدر: | Experimental and molecular pathology. 97(3) |
| سنة النشر: | 2014 |
| مصطلحات موضوعية: | endocrine system diseases, Clinical Biochemistry, Enzyme-Linked Immunosorbent Assay, Biology, Primary Ovarian Insufficiency, Pathology and Forensic Medicine, Rats, Sprague-Dawley, Complementary DNA, Gene expression, medicine, Animals, Cluster Analysis, Gene Regulatory Networks, RNA, Messenger, Molecular Biology, Transcription factor, Gene, Oligonucleotide Array Sequence Analysis, Genetics, Messenger RNA, Principal Component Analysis, Gene Expression Profiling, Computational Biology, medicine.disease, female genital diseases and pregnancy complications, Premature ovarian failure, Rats, Gene expression profiling, Disease Models, Animal, Female, Signal transduction |
| الوصف: | Premature ovarian failure (POF) remains one of the major gynecological problems worldwide which affected 1% of women. Even though tremendous achievements had been acquired as opposed to years past, molecular pathogenesis associated with POF is still unclear and needs to be well-defined. The aim of this study was to analyze the gene expression profiles in the POF rat model. To predict potential regulating factors, we firstly treated female Sprague Dawley (SD) rat with 4-vinylcyclohexene diepoxide (VCD). Total RNA from ovarian tissue was converted to cDNA and hybridized to mRNA Chip array. The differentially expressed genes (DEGs) were identified by two-sample t test and assessed using hierarchical clustering and Principal Component Analysis methods. Potential regulatory targets associated with these DEGs were constructed using BisoGenet in Cytoscape. Gene Ontology (GO) and functional enrichment analysis were performed using BiNGO and DAVID, respectively. As the results, 25 DEGs were found to be closely associated with POF initiation. Hierarchical clustering and Principal Component Analysis on the transcriptional profiles revealed an excellent separation of the vehicle and POF compartments. Pathway enrichment analysis based on the disease-gene interaction network analysis led to the identification of two core signaling pathways that were strongly affected during POF initiation and progression: immune response and cardiovascular disorders. In conclusion, we constructed a gene regulatory network associated with POF using the microarray gene expression profiling, and screened out some genes or transcription factors that may be used as potential molecular therapeutic targets for POF. |
| تدمد: | 1096-0945 |
| الوصول الحر: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::ee4e7e6e84aa552ddf9841447d66c95aTest https://pubmed.ncbi.nlm.nih.gov/25445499Test |
| حقوق: | CLOSED |
| رقم الانضمام: | edsair.doi.dedup.....ee4e7e6e84aa552ddf9841447d66c95a |
| قاعدة البيانات: | OpenAIRE |
| ResultId |
1 |
|---|---|
| Header |
edsair OpenAIRE edsair.doi.dedup.....ee4e7e6e84aa552ddf9841447d66c95a 788 3 unknown 787.911193847656 |
| PLink |
https://search.ebscohost.com/login.aspx?direct=true&site=eds-live&scope=site&db=edsair&AN=edsair.doi.dedup.....ee4e7e6e84aa552ddf9841447d66c95a&custid=s6537998&authtype=sso |
| FullText |
Array
(
[Availability] => 0
)
|
| Items |
Array
(
[Name] => Title
[Label] => Title
[Group] => Ti
[Data] => Microarray gene expression profiling and bioinformatics analysis of premature ovarian failure in a rat model
)
Array ( [Name] => Author [Label] => Authors [Group] => Au [Data] => <searchLink fieldCode="AR" term="%22Jiaming+Xie%22">Jiaming Xie</searchLink><br /><searchLink fieldCode="AR" term="%22Ji+Li%22">Ji Li</searchLink><br /><searchLink fieldCode="AR" term="%22Pengling+Ge%22">Pengling Ge</searchLink><br /><searchLink fieldCode="AR" term="%22Dongwei+Han%22">Dongwei Han</searchLink><br /><searchLink fieldCode="AR" term="%22Shengjun+Fan%22">Shengjun Fan</searchLink><br /><searchLink fieldCode="AR" term="%22Haixue+Kuang%22">Haixue Kuang</searchLink> ) Array ( [Name] => TitleSource [Label] => Source [Group] => Src [Data] => <i>Experimental and molecular pathology</i>. 97(3) ) Array ( [Name] => DatePubCY [Label] => Publication Year [Group] => Date [Data] => 2014 ) Array ( [Name] => Subject [Label] => Subject Terms [Group] => Su [Data] => <searchLink fieldCode="DE" term="%22endocrine+system+diseases%22">endocrine system diseases</searchLink><br /><searchLink fieldCode="DE" term="%22Clinical+Biochemistry%22">Clinical Biochemistry</searchLink><br /><searchLink fieldCode="DE" term="%22Enzyme-Linked+Immunosorbent+Assay%22">Enzyme-Linked Immunosorbent Assay</searchLink><br /><searchLink fieldCode="DE" term="%22Biology%22">Biology</searchLink><br /><searchLink fieldCode="DE" term="%22Primary+Ovarian+Insufficiency%22">Primary Ovarian Insufficiency</searchLink><br /><searchLink fieldCode="DE" term="%22Pathology+and+Forensic+Medicine%22">Pathology and Forensic Medicine</searchLink><br /><searchLink fieldCode="DE" term="%22Rats%2C+Sprague-Dawley%22">Rats, Sprague-Dawley</searchLink><br /><searchLink fieldCode="DE" term="%22Complementary+DNA%22">Complementary DNA</searchLink><br /><searchLink fieldCode="DE" term="%22Gene+expression%22">Gene expression</searchLink><br /><searchLink fieldCode="DE" term="%22medicine%22">medicine</searchLink><br /><searchLink fieldCode="DE" term="%22Animals%22">Animals</searchLink><br /><searchLink fieldCode="DE" term="%22Cluster+Analysis%22">Cluster Analysis</searchLink><br /><searchLink fieldCode="DE" term="%22Gene+Regulatory+Networks%22">Gene Regulatory Networks</searchLink><br /><searchLink fieldCode="DE" term="%22RNA%2C+Messenger%22">RNA, Messenger</searchLink><br /><searchLink fieldCode="DE" term="%22Molecular+Biology%22">Molecular Biology</searchLink><br /><searchLink fieldCode="DE" term="%22Transcription+factor%22">Transcription factor</searchLink><br /><searchLink fieldCode="DE" term="%22Gene%22">Gene</searchLink><br /><searchLink fieldCode="DE" term="%22Oligonucleotide+Array+Sequence+Analysis%22">Oligonucleotide Array Sequence Analysis</searchLink><br /><searchLink fieldCode="DE" term="%22Genetics%22">Genetics</searchLink><br /><searchLink fieldCode="DE" term="%22Messenger+RNA%22">Messenger RNA</searchLink><br /><searchLink fieldCode="DE" term="%22Principal+Component+Analysis%22">Principal Component Analysis</searchLink><br /><searchLink fieldCode="DE" term="%22Gene+Expression+Profiling%22">Gene Expression Profiling</searchLink><br /><searchLink fieldCode="DE" term="%22Computational+Biology%22">Computational Biology</searchLink><br /><searchLink fieldCode="DE" term="%22medicine%2Edisease%22">medicine.disease</searchLink><br /><searchLink fieldCode="DE" term="%22female+genital+diseases+and+pregnancy+complications%22">female genital diseases and pregnancy complications</searchLink><br /><searchLink fieldCode="DE" term="%22Premature+ovarian+failure%22">Premature ovarian failure</searchLink><br /><searchLink fieldCode="DE" term="%22Rats%22">Rats</searchLink><br /><searchLink fieldCode="DE" term="%22Gene+expression+profiling%22">Gene expression profiling</searchLink><br /><searchLink fieldCode="DE" term="%22Disease+Models%2C+Animal%22">Disease Models, Animal</searchLink><br /><searchLink fieldCode="DE" term="%22Female%22">Female</searchLink><br /><searchLink fieldCode="DE" term="%22Signal+transduction%22">Signal transduction</searchLink> ) Array ( [Name] => Abstract [Label] => Description [Group] => Ab [Data] => Premature ovarian failure (POF) remains one of the major gynecological problems worldwide which affected 1% of women. Even though tremendous achievements had been acquired as opposed to years past, molecular pathogenesis associated with POF is still unclear and needs to be well-defined. The aim of this study was to analyze the gene expression profiles in the POF rat model. To predict potential regulating factors, we firstly treated female Sprague Dawley (SD) rat with 4-vinylcyclohexene diepoxide (VCD). Total RNA from ovarian tissue was converted to cDNA and hybridized to mRNA Chip array. The differentially expressed genes (DEGs) were identified by two-sample t test and assessed using hierarchical clustering and Principal Component Analysis methods. Potential regulatory targets associated with these DEGs were constructed using BisoGenet in Cytoscape. Gene Ontology (GO) and functional enrichment analysis were performed using BiNGO and DAVID, respectively. As the results, 25 DEGs were found to be closely associated with POF initiation. Hierarchical clustering and Principal Component Analysis on the transcriptional profiles revealed an excellent separation of the vehicle and POF compartments. Pathway enrichment analysis based on the disease-gene interaction network analysis led to the identification of two core signaling pathways that were strongly affected during POF initiation and progression: immune response and cardiovascular disorders. In conclusion, we constructed a gene regulatory network associated with POF using the microarray gene expression profiling, and screened out some genes or transcription factors that may be used as potential molecular therapeutic targets for POF. ) Array ( [Name] => ISSN [Label] => ISSN [Group] => ISSN [Data] => 1096-0945 ) Array ( [Name] => URL [Label] => Access URL [Group] => URL [Data] => <link linkTarget="URL" linkTerm="https://explore.openaire.eu/search/publication?articleId=doi_dedup___::ee4e7e6e84aa552ddf9841447d66c95a" linkWindow="_blank">https://explore.openaire.eu/search/publication?articleId=doi_dedup___::ee4e7e6e84aa552ddf9841447d66c95a</link><br /><link linkTarget="URL" linkTerm="https://pubmed.ncbi.nlm.nih.gov/25445499" linkWindow="_blank">https://pubmed.ncbi.nlm.nih.gov/25445499</link> ) Array ( [Name] => Copyright [Label] => Rights [Group] => Cpyrght [Data] => CLOSED ) Array ( [Name] => AN [Label] => Accession Number [Group] => ID [Data] => edsair.doi.dedup.....ee4e7e6e84aa552ddf9841447d66c95a ) |
| RecordInfo |
Array
(
[BibEntity] => Array
(
[Languages] => Array
(
[0] => Array
(
[Text] => Undetermined
)
)
[Subjects] => Array
(
[0] => Array
(
[SubjectFull] => endocrine system diseases
[Type] => general
)
[1] => Array
(
[SubjectFull] => Clinical Biochemistry
[Type] => general
)
[2] => Array
(
[SubjectFull] => Enzyme-Linked Immunosorbent Assay
[Type] => general
)
[3] => Array
(
[SubjectFull] => Biology
[Type] => general
)
[4] => Array
(
[SubjectFull] => Primary Ovarian Insufficiency
[Type] => general
)
[5] => Array
(
[SubjectFull] => Pathology and Forensic Medicine
[Type] => general
)
[6] => Array
(
[SubjectFull] => Rats, Sprague-Dawley
[Type] => general
)
[7] => Array
(
[SubjectFull] => Complementary DNA
[Type] => general
)
[8] => Array
(
[SubjectFull] => Gene expression
[Type] => general
)
[9] => Array
(
[SubjectFull] => medicine
[Type] => general
)
[10] => Array
(
[SubjectFull] => Animals
[Type] => general
)
[11] => Array
(
[SubjectFull] => Cluster Analysis
[Type] => general
)
[12] => Array
(
[SubjectFull] => Gene Regulatory Networks
[Type] => general
)
[13] => Array
(
[SubjectFull] => RNA, Messenger
[Type] => general
)
[14] => Array
(
[SubjectFull] => Molecular Biology
[Type] => general
)
[15] => Array
(
[SubjectFull] => Transcription factor
[Type] => general
)
[16] => Array
(
[SubjectFull] => Gene
[Type] => general
)
[17] => Array
(
[SubjectFull] => Oligonucleotide Array Sequence Analysis
[Type] => general
)
[18] => Array
(
[SubjectFull] => Genetics
[Type] => general
)
[19] => Array
(
[SubjectFull] => Messenger RNA
[Type] => general
)
[20] => Array
(
[SubjectFull] => Principal Component Analysis
[Type] => general
)
[21] => Array
(
[SubjectFull] => Gene Expression Profiling
[Type] => general
)
[22] => Array
(
[SubjectFull] => Computational Biology
[Type] => general
)
[23] => Array
(
[SubjectFull] => medicine.disease
[Type] => general
)
[24] => Array
(
[SubjectFull] => female genital diseases and pregnancy complications
[Type] => general
)
[25] => Array
(
[SubjectFull] => Premature ovarian failure
[Type] => general
)
[26] => Array
(
[SubjectFull] => Rats
[Type] => general
)
[27] => Array
(
[SubjectFull] => Gene expression profiling
[Type] => general
)
[28] => Array
(
[SubjectFull] => Disease Models, Animal
[Type] => general
)
[29] => Array
(
[SubjectFull] => Female
[Type] => general
)
[30] => Array
(
[SubjectFull] => Signal transduction
[Type] => general
)
)
[Titles] => Array
(
[0] => Array
(
[TitleFull] => Microarray gene expression profiling and bioinformatics analysis of premature ovarian failure in a rat model
[Type] => main
)
)
)
[BibRelationships] => Array
(
[HasContributorRelationships] => Array
(
[0] => Array
(
[PersonEntity] => Array
(
[Name] => Array
(
[NameFull] => Jiaming Xie
)
)
)
[1] => Array
(
[PersonEntity] => Array
(
[Name] => Array
(
[NameFull] => Ji Li
)
)
)
[2] => Array
(
[PersonEntity] => Array
(
[Name] => Array
(
[NameFull] => Pengling Ge
)
)
)
[3] => Array
(
[PersonEntity] => Array
(
[Name] => Array
(
[NameFull] => Dongwei Han
)
)
)
[4] => Array
(
[PersonEntity] => Array
(
[Name] => Array
(
[NameFull] => Shengjun Fan
)
)
)
[5] => Array
(
[PersonEntity] => Array
(
[Name] => Array
(
[NameFull] => Haixue Kuang
)
)
)
)
[IsPartOfRelationships] => Array
(
[0] => Array
(
[BibEntity] => Array
(
[Dates] => Array
(
[0] => Array
(
[D] => 06
[M] => 08
[Type] => published
[Y] => 2014
)
)
[Identifiers] => Array
(
[0] => Array
(
[Type] => issn-print
[Value] => 10960945
)
[1] => Array
(
[Type] => issn-locals
[Value] => edsair
)
)
[Numbering] => Array
(
[0] => Array
(
[Type] => volume
[Value] => 97
)
[1] => Array
(
[Type] => issue
[Value] => 3
)
)
[Titles] => Array
(
[0] => Array
(
[TitleFull] => Experimental and molecular pathology
[Type] => main
)
)
)
)
)
)
)
|
| IllustrationInfo |