GEO DataSets

(Submitter supplied) The identification of the molecular mechanisms regulating pathways associated to the potential of fat deposition in pigs can lead to the detection of key genes and markers for the genetic improvement of fat traits. MicroRNAs (miRNAs) interactions with target RNAs regulate gene expression and modulate pathway activation in cells and tissues. In pigs, miRNA discovery is well far from saturation and the knowledge of miRNA expression in backfat tissue and particularly of the impact of miRNA variations are still fragmentary. more...

Organism:

Sus scrofa

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:

GPL10945

18 Samples

Download data: TXT

(Submitter supplied) We report the application of Illumina short RNA sequencing for characterization and discovery of miRNAs and moRNAs in two Italian Large White pig backfat tissue.

Organism:

Sus scrofa

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL10945

2 Samples

Download data: TSV, TXT

(Submitter supplied) We report the application of Illumina RNA sequencing for characterization and discovery of genes and transcripts in Italian Large Whtie pig backfat tissue.

Organism:

Sus scrofa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11429

20 Samples

Download data: CSV

(Submitter supplied) Purpose: MicroRNAs (miRNAs) are non-coding small miRNA ~22 nucleotides in length and play a vital role in muscle development by binding to messenger RNAs (mRNAs). Large White (LW, a lean type pig) and Meishan pigs (MS, a Chinese indigenous obese breed) have significant postnatal phenotype differences in growth rate, muscle mass and meat quality, and theses difference are programmed during prenatal muscle development.To shed directly light on the miRNA transcriptome difference in prenatal muscles between these two distinct pig breeds. more...

Organism:

Sus scrofa

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL11429

6 Samples

Download data: XLS

(Submitter supplied) Gene expression data of micro RNA from skeletal muscle sample of pig breed Duroc and Pietrain at adult stage.

Organism:

synthetic construct; Sus scrofa

Type:

Non-coding RNA profiling by array

Platform:

GPL16384

20 Samples

Download data: CEL

(Submitter supplied) To identify miRNAs involved in muscle development, three independent small RNA libraries from porcine skeletal muscle at the age of 63d、98d and 161d were constructed. A total of 4105184， 4606375 and 5113984 mappable small RNA sequences were generated in the three small RNA libraries, respectively, and 887 known and 472 new candidate miRNAs were obtained.

Organism:

Sus scrofa

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL11429

3 Samples

Download data: TXT

(Submitter supplied) Purpose: The paired-end sequencing strategy of RNA-Seq improves sequencing efficiency and extends short read lengths for better understanding pig transcriptome. The goals of this study are to identify whether alternative splicing sites or alternative 3' gene boundary caused by a CNV located in 3' region of MSRB3 gene and find differential expression genes in ear tissue between QQ and qq genotype piglets for QTL of ear size Methods: Ear tissue mRNA profiles of 6 piglets including 3 QQ and 3 qq genotypes responsible for QTL of ear size were generated by deep sequencing, using Illumina HiSeq 2000. more...

Organism:

Sus scrofa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11429

6 Samples

Download data: RPKM

(Submitter supplied) Purpose: The aim of present research was to identify miRNAs potentially related with muscle growth in pig Methods: miRNA-seq analysis was performed on longissimus lumborum samples collected from 13 pigs representing two sire-line breeds – Pietrain and Hampshire. Based on dissection data, pigs were selected from a larger population in terms of weight of loin muscle to obtain the most extreme groups in each breed The miRNA libraries were constructed form total RNA with the use Neb Next Multiplex Small RNA Library Prep Set for Illumina (New England Biolabs) according to the protocol. more...

Organism:

Sus scrofa

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL21186

13 Samples

Download data: FA, XLSX

(Submitter supplied) Autoimmune myasthenia gravis (MG) is characterized by thymic abnormalities such as hyperplasia and thymoma. Thymus plays an important role in self-tolerance and is involved in initiation and progression of the disease. A large proportion of MG patient show the presence of ectopic germinal centers (GC) in thymus that are absent in normal individuals. However, the exact mechanism how this change in thymus morphology is triggered and if this is related to pathophysiology of the disease remains unknown. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17586

13 Samples

Download data: CEL, CHP

(Submitter supplied) Autoimmune myasthenia gravis (MG) is characterized by thymic abnormalities such as hyperplasia and thymoma. Thymus plays an important role in self-tolerance and is involved in initiation and progression of the disease. A large proportion of MG patient show the presence of ectopic germinal centers (GC) in thymus that are absent in normal individuals. However, the exact mechanism how this change in thymus morphology is triggered and if this is related to pathophysiology of the disease remains unknown. more...

Organism:

synthetic construct; Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL21572

16 Samples

Download data: CEL, CHP

(Submitter supplied) We conducted the genome-wide mRNA expression profiling in parallel with miRNA expression profiling using RNA samples extracted from rat incisor enamel organs, so as to refine the number of predicted gene targets for miRNA regulators.

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Platform:

GPL6101

8 Samples

Download data: TXT

(Submitter supplied) Gene expression data of micro RNA of pig, in the first part of this study, they were analysed for correlation of transcripts levels with body weight and meat quality grade traits

Organism:

Sus scrofa; synthetic construct

Type:

Non-coding RNA profiling by array

Platform:

GPL16384

209 Samples

Download data: CEL

(Submitter supplied) Backfat thickness is one of the most important traits of commercially raised pigs. Meishan pigs are renowned for having thicker backfat than Landrace pigs. To examine the genetic factors responsible for the differences, we first produced female crossbred pig lines by mating Landrace (L) × Large White (W) × Duroc (D) females (LWD) with Landrace (L) or Meishan (M) boars (i.e., LWD × L = LWDL for Landrace offspring and LWD × M = LWDM of the Meishan offspring). more...

Organism:

Sus scrofa

Type:

Expression profiling by array

Platform:

GPL23296

102 Samples

Download data: TXT

(Submitter supplied) The miRNA-related signaling pathways in MDS could be screened using high throughput bioinformatics analysis based on the miRNAs expression profile network. Here, we tried to identify the miRNAs-regulated pathways through a miRNA microarray in CD34+ cells from MDS patients.

Organism:

synthetic construct; Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL16384

18 Samples

Download data: CEL, CHP

(Submitter supplied) The pathogenesis-related signaling pathways in MDS could be screened using high throughput bioinformatics analysis based on the gene expression profile network. Here, we tried to identify the mRNAs-regulated pathways through a mRNA microarray in CD34+ cells from MDS patients.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL15207

18 Samples

Download data: CEL, CHP

(Submitter supplied) BACKGROUND MicroRNAs (miRNAs) are small non-coding RNAs that recognize sites of complementarity of target messenger RNAs, resulting in transcriptional regulation and translational repression of target genes. In Huntington’s disease (HD), a neurodegenerative disease caused by a trinucleotide repeat expansion, miRNA dyregulation has been reported, which may impact gene expression and modify the progression and severity of HD. more...

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL11154

64 Samples

Download data: CSV

(Submitter supplied) To investigate the miRNA signature in the serum of systemic sclerosis (SSc) patients. The levels of 758 miRNAs were evaluated in the serum of 26 SSc patients as compared to 9 healthy controls by using an Openarray platform. Patients fulfilling the ACR/EULAR 2013 classification criteria were classified in relation to the extent of skin fibrosis as limited cutaneous (lcSSc) or diffuse cutaneous SSc (dcSSc); patients fulfilling the classification criteria without skin fibrosis will be referred to as non-cutaneous SSc (ncSSc). more...

Organism:

Homo sapiens

Type:

Other

Platform:

GPL22992

35 Samples

Download data: TXT

(Submitter supplied) Domestication caused significant differences in morphology and behavior between wild and domestic animals, and gene expression changes played an important role in this event. circRNA is a class of non-coding RNA that exerts a wide range of functions in biological processes through the regulation of gene expression. However, the regulatory role of circRNA in the process of domestication is still unclear. more...

Organism:

Sus scrofa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22918

6 Samples

Download data: TXT

(Submitter supplied) Purpose: The mycotoxin zearalenone (ZEN) poses a risk to animal health because of its estrogenic effects. Diagnosis of ZEN-induced disorders in animal production remains challenging due to the lack of appropriate non-invasive biomarkers. Thus, we combined untargeted and targeted transcriptomics approaches to investigate the effects of ZEN on the microRNA expression in porcine uterus, jejunum and serum. more...

Organism:

Sus scrofa

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL20983

36 Samples

Download data: XLSX

(Submitter supplied) MicroRNAs (miRNAs) are small regulatory molecules that cause post-transcriptional gene silencing. Although some miRNAs are known to have region-specific expression patterns in the adult brain, the functional consequences of the region-specificity to the gene regulatory networks of the brain nuclei are not clear. Therefore, we studied miRNA expression patterns by miRNA-seq in two brain regions, frontal cortex (FCx) and hippocampus (HP), which have separate biological functions. more...

Organism:

Mus musculus

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL9250

12 Samples

Download data: BED, TXT