Similar Datasets
Project description:Since CNVs play a vital role in genomic studies, it is an imperative need to develop a comprehensive, more accurate and higher resolution porcine CNV map with practical significance in follow-up CNV functional analyses To detect CNV of pigs, we performed high density aCGH data of diverse pig breeds in the framework of the pig draft genome sequence (Sscrofa10.2) 9 Chinese indigenous pig, one Chinese wild boar and 2 commercial pigs were detected using one pig of Duroc as reference. These 12 animals include 1 wild pig, 2 pigs each from Yorkshire and Landrace as the representatives of modern commercial breeds and 9 unrelated individuals selected from 6 Chinese indigenous breeds (2- Tibetan pig, 2- Diannan small-ear pig, 2-Meishan pig, 1- Min pig, 1-Daweizi pig, and 1-Rongchang pig).
2015-06-29 | E-GEOD-49299 | biostudies-arrayexpress
Project description:We performed DNA methylation analysis of the longissimus dorsi (LD) muscle between two development stages (120 and 240 days after birth) in Laiwu pigs, an indigenous fatty pig breed in North China. This study provides a reference for exploring methylation regulation mechanisms affecting fat deposition in obese pigs.
2017-01-13 | GSE93563 | GEO
Project description:Using high-throughput technology, we aim to identify the expression of mRNAs for understanding the comparative pathogenesis of CSF in PBMCs and Macrophages of indigenous verses crossbred pigs.
2018-05-10 | GSE114229 | GEO
Project description:We performed transcriptome analysis of the longissimus dorsi (LD) muscle during four development stages (60, 120, 240 and 400 days after birth) in Laiwu pigs, an indigenous fatty pig breed in North China. This study provides a reference for exploring transcriptome regulation mechanisms affecting muscle growth and development in obese pigs.
2016-11-23 | GSE90135 | GEO
Project description:Since CNVs play a vital role in genomic studies, it is an imperative need to develop a comprehensive, more accurate and higher resolution porcine CNV map with practical significance in follow-up CNV functional analyses To detect CNV of pigs, we performed high density aCGH data of diverse pig breeds in the framework of the pig draft genome sequence (Sscrofa10.2) 9 Chinese indigenous pig, 2 commercial pigs, 1 wild pig were detected using one pig of Duroc as reference.
2013-05-15 | E-GEOD-46847 | biostudies-arrayexpress
Project description:From gestation day 75 to gestation day 90, an important stage for the placental and fetal development, the fetuses grow rapidly and need adequate nutrition. The Meishan pigs and the Large White pigs employ different ways in supplying the enough nutrients and oxygen to the fetus. The Meishan pigs increased the vascular density and the Large White pigs have the second increase in the surface of placenta. To understand the molecular basis related to late gestation placenta development in Chinese indigenous and Western breeds with different placental efficiency, samples were collected and used to hybridized. The results offered new data on understanding the molecular basis of placenta efficiency, and indicated that Erhualian pigs had the more efficient than the Large White pigs.
2009-06-20 | GSE11853 | GEO
Project description:we comprehensively analyzed the whole transcriptome of the spleen from three important developmental nodes(30d, 90d and 210d) of Ningxiang pig (a Chinese indigenous breed). A total of 812, 364 and 865 differentially expressed (DE) mRNAs, 98, 37 and 97 DE miRNAs, 278, 220 and 271 DE lncRNAs, and 113, 96 and 96 DE circRNAs were identified between 90d and 30d, 210d and 30d, and 210d and 90d, respectively. And their molecular characterization, spatio temporal expression pattern, potential function and interaction with miRNAs were analyzed. Additionally, co-expression network analysis identified the potential non coding RNAs(ncRNAs) related to immunomodulation, e.g., ssc-miRNA-150, ssc-miRNA-497, MSTRG.24160, MSTRG.18646. Furthermore, our results also revealed that miRNAs and circRNAs may have evolved to regulate a large set of biological processes of Ningxiang pigs spleens, and circRNAs may play the role of miRNA sponges. Our study provides new insights into the expression changes of RNAs during the spleen development process of Chinese indigenous breed Ningxiang pigs, which might contribute to the phenotypic formation of immune function in Chinese native pig breeds. These results greatly improved our understanding of the molecular mechanisms which regulate the immune function of the spleen of Ningxiang pigs.
2022-06-06 | GSE152087 | GEO
Project description:Genome-wide SNP genotyping array can genotyped SNP highthroughly. It can be used in many aspects, such as phylogeny relationships, genome-wide association studies, copy number identification. 9 Chinese indigenous pig, 4 commercial pigs and 1 wild pig were genotyped by PorcineSNP60 array (Illumina) for exploring the phylogeny relationships among them.
2013-05-09 | E-GEOD-46733 | biostudies-arrayexpress
Project description:Porcine reproductive and respiratory syndrome caused by porcine reproductive and respiratory syndrome virus (PRRSV) is an infectious disease characterized by severe reproductive deficiency in pregnant sows, respiratory symptoms in piglets, and high mortality. In this study, we employed Affymetrix microarray chip technology to compare the gene expression profiles of lung tissue samples from Dapulian (DPL) pigs (a Chinese indigenous pig breed) and Duroc×Landrace×Yorkshire (DLY) pigs after infection with PRRSV. During infection with PRRSV, the DLY pigs exhibited the range of clinical features that typify the disease, while the DPL pigs exhibited only mild signs of the disease. The percentage of CD8+ T cells in the DPL pigs was significantly higher than that in the DLY pigs at 21 days post-infection (dpi) (p< 0.05). Interleukin (IL) 1 beta (IL-1β) and IL-2 levels showed significant differences between the DPL and DLY pigs at 0 and 7 dpi (p< 0.01). For IL-10, the DLY pigs had significantly higher values than the DPL pigs at 0 and 7 dpi (p< 0.01). Significant differences were apparent between the DPL and DLY pigs in terms of their tumor necrosis factor-alpha (TNF-α) and interferon (IFN)-gamma (IFN-γ) levels at 0 and 7 dpi (p< 0.01). Microarray data revealed 16 differentially expressed genes in the lung tissue samples from the DLY and DPL pigs (q≤5%), of which LOC100516029 and LOC100523005 were up-regulated in the PRRSV-infected DPL pigs, while the other 14 genes were down-regulated in the PRRSV-infected DPL pigs compared with the PRRSV-infected DLY pigs. The expression levels of 10 of the 16 genes, namely CCDC84, C6ORF52, THYMOSIN, PRVE, HSPCB, CYP2J2, AMPD3, TOR1AIP2, PTGES3, and ACOX3, were validated by real-time quantitative RT-PCR. This study provides a platform for further investigation of the molecular mechanisms underlying the differential immune responses to PRRSV infection in different breeds or lines of pig. We investigated the response of lung tissues from Dapulian (DPL) pigs (a Chinese indigenous pig breed) and Duroc×Landrace×Yorkshire (DLY) pigs infected with porcine reproductive and respiratory syndrome virus (strain JXA1) by using the Affymetrix Porcine Genome Array.
2013-07-30 | GSE49306 | GEO