Ontology highlight
ABSTRACT:
PROVIDER: PRJNA703776 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR13760017_1.fastq.gz | Fastqsanger.gz | |||
| SRR13760017_2.fastq.gz | Fastqsanger.gz | |||
| SRR13760018_1.fastq.gz | Fastqsanger.gz | |||
| SRR13760018_2.fastq.gz | Fastqsanger.gz | |||
| SRR13760019_1.fastq.gz | Fastqsanger.gz |
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Project description:Interventions: Electro-acupuncture group:Electro-acupuncture;Sham electro-acupuncture group:Sham electro-acupuncture;Routine group:Routine therapy
Primary outcome(s): The time of first postoperative anal exhaust
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Project description:Purpose:Acupuncture exerts cardioprotective effect on myocardial I/R injury. In order to elucidate the potential mechanisms, RNA-seq by next generation sequencing was used to identify the rat genome-wide alterations by EA at Neiguan acupoint pretreatment in this study Methods: Adult male Sprague Dawley rats (250-300g) were divided into four groups: Sham operation(SO), I/R, electro-acupuncture at Neiguan pretreatment (EA) and electro-acupuncture at non-acupoint (NA) groups and myocardium mRNA profiles of rats in each group were generated by deep sequencing,using Illumina Hiseq 2000. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat followed by Cufflinks. Results: Using an optimized data analysis workflow, we mapped about 20~43 million sequence reads per sample to the mouse genome (UCSC RN4) and identified 26190 22895 25160 22852 transcripts in the SO, I/R, EA and NA rats with TopHat and Cufflinks workflow respectively. Approximately 32% and 22% of the transcripts showed differential expression between the SO and I/R, I/R and EA , I/R and NA, respectively with a |log2 fold change |≥1. Conclusions: Our results for the first time generated genome-wide gene expression profiles both in the rat I/R model and in acupuncture treatment by high throughput sequencing. The optimized data analysis workflows reported here should provide a framework for acupuncture investigations of expression profiles.
2016-03-20 | GSE61840 | GEO
Project description:Purpose: Acupuncture exerts cardioprotective effects on several types of cardiac injuries, especially myocardial ischemia (MI). In order to elucidate the potential mechanisms, RNA-seq by next generation sequencing was used to identify the rat genome-wide alterations after MI and EA treatment in this study Methods: Adult male Sprague Dawley rats (250-300g) were divided into three groups: Control, MI and electro-acupuncture (EA) groups, myocardium mRNA profiles of rats in each group were generated by deep sequencing,using Illumina Hiseq 2000. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: BurrowsâWheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat followed by Cufflinks. Results: Using an optimized data analysis workflow, we mapped about 25 million sequence reads per sample to the mouse genome (UCSC RN4) and identified 121,233, 178,242, 161,880 transcripts in the Control, MI and EA rats with TopHat and Cufflinks workflow respectively. Approximately 32% and 22% of the transcripts showed differential expression between the Control and MI, MI and EA respectively with a fold change â¥2.0. Conclusions: Our results for the first time generated genome-wide gene expression profiles both in the rat MI model and in acupuncture treatment by high throughput sequencing. The optimized data analysis workflows reported here should provide a framework for acupuncture investigations of expression profiles. Myocardium mRNA profiles of Control, MI and EA rats were generated by Hiseq 2000, Control and MI+EA group there were three samples, MI group there were two samples.
2016-03-21 | E-GEOD-54132 | biostudies-arrayexpress
Project description:Purpose: Acupuncture is reported to be effective in treating obesity related illnesses, but its mechanism is still unclear. To investigate this mechanism we applied electro-acupuncture (EA) in a mouse model of obesity and used RNA-seq to identify molecular consequences. Methods: Adult male mice (17w) were divided into three groups: Stat5fl/fl, Stat5NKO, Stat5NKO+EA groups, hypothalamus and Epi-WAT mRNA profiles of mice in each group were generated by deep sequencing,using Illumina Hiseq 2000. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat followed by Cufflinks. Results: Using an optimized data analysis workflow, we mapped about 25 million sequence reads per sample to the mouse genome (UCSC mm9) and identified transcripts in the Stat5fl/fl, Stat5NKO and Stat5NKO+EA mice with TopHat and Cufflinks workflow respectively. Genes with lower than one FPKM (average fragments per kilobase of transcript per million fragments mapped) were filtered out. Up-regulation and down-regulation were defined as a relative transcription level above Log2 fold change (FC) ≥ |±1| and P value <0.05. Conclusions: Our results provided, for the first time, insight into genomic networks of obesity and their modulation by electro-acupuncture, which in turn reveals potential mechanisms that explain acupuncture-induced weight-loss.
2017-09-14 | GSE100599 | GEO
Project description:Purpose: Acupuncture exerts cardioprotective effects on several types of cardiac injuries, especially myocardial ischemia (MI). In order to elucidate the potential mechanisms, RNA-seq by next generation sequencing was used to identify the rat genome-wide alterations after MI and EA treatment in this study Methods: Adult male Sprague Dawley rats (250-300g) were divided into three groups: Control, MI and electro-acupuncture (EA) groups, myocardium mRNA profiles of rats in each group were generated by deep sequencing,using Illumina Hiseq 2000. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat followed by Cufflinks. Results: Using an optimized data analysis workflow, we mapped about 25 million sequence reads per sample to the mouse genome (UCSC RN4) and identified 121,233, 178,242, 161,880 transcripts in the Control, MI and EA rats with TopHat and Cufflinks workflow respectively. Approximately 32% and 22% of the transcripts showed differential expression between the Control and MI, MI and EA respectively with a fold change ≥2.0. Conclusions: Our results for the first time generated genome-wide gene expression profiles both in the rat MI model and in acupuncture treatment by high throughput sequencing. The optimized data analysis workflows reported here should provide a framework for acupuncture investigations of expression profiles.
2016-03-21 | GSE54132 | GEO
Project description:<p> Background: Constipation is a common gastrointestinal disorder. Lactobacillus plantarum has been reported to have the effect of relieving constipation, but its underlying mechanism remains unclear. </p><p> Results: Lactiplantibacillus plantarum SYS1 was identified through in vitro probiotic screening and zebrafish models as a potential candidate for alleviating constipation. Further studies confirmed its efficacy in constipated mice, evidenced not only by phenotypic indicators but also by improvements in intestinal villi morphology, expression of gut barrier-related genes and aquaporin genes, and beneficial modulation of gut microbiota structure. Colonic transcriptomics, qPCR, and Western blot results identified the serotonin receptor 4 (5-HT4R) as the likely primary target for SYS1's anti-constipation effect. Subsequent 5-HT4R antagonism experiments confirmed this, as SYS1 lost its efficacy when 5-HT4R was blocked. Further characterization of the enteric nervous structure revealed that SYS1 partially reversed loperamide - induced enteric nervous degeneration, an effect also dependent on 5-HT4R. Experiments in zebrafish and mice showed that the fermented supernatant of SYS1 could alleviate constipation, also primarily targeting 5-HT4R. Non-targeted metabolomics identified maleic acid as a characteristic metabolite of SYS1. Both zebrafish and mouse models demonstrated the anti-constipation effect of maleic acid. This study reveals that L. plantarum SYS1 alleviates constipation by promoting enteric neurogenesis through its metabolite, which activates the 5-HT4R.</p><p> Conclusions: L. plantarum SYS1 alleviates constipation by promoting enteric neurogenesis through its metabolite, which activates the 5-HT4R pathway. This study elucidates a novel mechanism linking microbial metabolites, and ENS restoration via 5-HT4R signaling.</p>
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Project description:Acupuncture is an important component of complementary and alternative medicine, which has been found to help improve sperm motility, improve semen quality, and ultimately enhance male fertility. However, its role and potential molecular mechanisms are still not fully understood. In this study, we aim to investigate the potential mechanism of acupuncture improving reproductive function in cyclophosphamide induced asthenozoospermia mice through proteomics.
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