Project description:DBA1 mice with collagen-induced arthritis were injected intra-articularly with miR-17-5p mimic lipoplex. At the peak of inflammation (day 7), ankles were processed for bulk RNAseq using Illumina NextSeq 500.
Project description:This study presents a small RNA sequencing (small RNA-seq) dataset from the Andean killifish Orestias ascotanensis, an extremophile teleost endemic to the Ascotán Salt Pan in the Chilean Altiplano. The dataset includes 42 libraries generated from gills, skin, and muscle tissues of 14 adult individuals sampled in summer and winter. Small RNA libraries were prepared using the Illumina TruSeq Small RNA Library Preparation Kit and sequenced on an Illumina NextSeq 500 platform
Project description:We isolated whole livers from male TDG knockout livers (4-month post tamoxifen injection) and HCC, along with their age matched male control livers. RNA was extracted from the samples as per RNAzol manufacturer guidelines with DNase treatment. RNA was then analyzed by bioanalyzer and subjected to sequencing using the Illumina NextSeq 500 platform.
Project description:As part of cross-platform comparisons of microarray and RNA-seq, the current experiment using the Illumina NextSeq 500 and MGI DNBSEQ-G400RS aimed to quantify gene-level expression in subjects administered recombinant human erythropoietin over a 10-week protocol for the identification of gene signatures of blood doping. These results were compared to results obtained from other gene expression quantification platforms using the same experimental cohort, including the Illumina HumanHT-12v4 Expression BeadChips (archived in ArrayExpress; E-MTAB-2874) and Affymetrix Human Transcriptome Array 2.0 (archived in ArrayExpress; E-MTAB-11080).
Project description:Untreated mice or mice treated with paracetamol, in the presence or absence of TSA, were culled after 14 hrs or 24 hrs of treatment, and RNAseq was performed. Method: RNA was extracted, in triplicate, then sequenced with an Illumina NextSeq 500 sequencer. Sequence reads passing the quality control filters were aligned using Tophat2 and then analysed with Cufflinks.
Project description:Purpose: The goal of this study is to identify the whole-genome transcriptome profiling of differentially expressed genes during human embryonic stem cell differentiation. Methods: Triplicate RNA profiles were generated from hESCs and induced endoderm cells, by deep sequencing with Illumina NextSeq 500. Results: We identified 6320 genes differentially expressed between hESCs and induced endoderm cells, with foldchange 1.5 and P < 0.05. Conclusion: Our study confirms that endodermal gene were dramatically induced during endoderm differentiation.
Project description:Transcriptomic profile of human adipose tissue progenitor cells was performed as follows. For AmpliSeq transcriptome sequencing library construction, AmpliSeq™ Library PLUS, AmpliSeq Transcriptome Human Gene Expression Panel and AmpliSeq CD indexes SetA kits were purchased from Illumina and sequencing libraries were constructed as described in AmpliSeq for Illumina Transcriptome Human Gene Expression Panel reference guide (Illumina). Equimolar concentrations of libraries were pooled at 4 nM and denatured and diluted as described in Denature and Dilute Libraries Guide (Illumina) and adjusted to final concentration of 1.4 pM. Resulting library was sequenced on NextSeq 500 using NextSeq 500/550 High Output v2 kit with 2 X 151 bp cycle. Generated raw files were converted to FASTQ files and used for data analysis. AmpliSeq transcriptome FASTQ files were analyzed on Array studio V10.0 (Omicsoft, Qiagen). Following raw read QC, first and last 10 bases were trimmed and mapped to reference genome Human.B38. The read count data was generated using GeneModel RefGene20170606. Resulting data was normalized by DESeq package, transformed to log2 value and used for ANOVA analyses.
Project description:We carry out H3K27pan-acetly chromatin imminoprecipitation (ChIP) and H3K4me1 ChIP prior to sequencing on the Illumina Nextseq 500 sequencing platform to report on the genome-wide epigenetic patterns in rat livers