Project description:For RNA-seq, the sequencing library of each RNA sample was prepared by using Ion Total RNA-Seq Kit v2. For Solexa suquencing, we download the data obtained by a previous study in our laboratory. Genes and miRNAs were considered differentially expressed according to log2FC >1 or log2FC <-1and FDR <0.05. All target genes regulated by DERs were predicted by the combination of miRbase (http://www.mirbase.org) and TargetScan (http://www.targetscan.org). All the predicted target genes were intersected with the DEGs obtained by RNA-seq, and then the DEGs and DERs were obtained by a combined analysis.In total, 190 DEGs were regulated by 33 DERs that were significantly enriched in 488 GO terms and 12 KEGG pathways (p <0.05).This is of great significance for research on miRNAs and functional genes for the milk fat percentage- and marker-assisted selection of dairy cattle.
2019-09-25 | GSE137488 | GEO
Project description:microbial diversity on biocathode
Project description:Chronic epididymitis (CE) refers to a long-lasting inflammatory condition of the epididymis, which is considered the most common site of intrascrotal inflammation and an important aetiological factor of male infertility. Recent studies demonstrate that small RNAs secreted from epididymal epithelium modulate embryo development and offspring phenotypes via sperm transmission, and the resulting modifications may lead to transgenerational inheritance. However, to date, the genome-wide analysis of small RNA together with the transcriptomic expression profiles of human epididymis and CE is still lacking. In this study, we collect inflamated epdidymis from patients as well as control sample. By simultaneous mRNA and small RNA suquencing, we identified segment-specific inflammation signitures including leukocyte chemotaxis, ion channel and transporter-related processes. We also compare the miRNA, tsRNA, and other small RNA distribution in CE. Together, Interative analysis of miRNA and mRNA identified strong candidate epigenitic cycle in CE.
Project description:To study how MMS19 and ABO4 affect gene expression, we performed RNA deep sequencing for the seedlings materials Col, mms19-1,and abo4 mutants. Compare the mRNA profiles of 14-day old seedlings materials of mutants (mms19-1 and abo4) to wild type Col by Illumina suquencing.
Project description:To study how PRP31, ZOP1 and STA1 affect gene expression and pre-mRNA splicing, we performed RNA deep sequencing for the seedlings materials C24, prp31, zop1, and sta1 mutants. Compare the mRNA profiles of 10-day old seedlings materials of mutants (prp31, zop1 and sta1) to wild type C24 by Illumina suquencing.