Reference geneqRT-PCRCancer exosomeRNA-SeqmiRNA-SeqBackground Exosomes are extracellular vesicles (EVs) derived from endocytic compartments of eukaryotic cells which contain various biomolecules like mRNAs or miRNAs. Exosomes influence the biologic behaviour and progression of malignancies and are promising ...
We have developed a new strategy for de novo prediction of splice junctions in short-read RNA-seq data, suitable for detection of novel splicing events and chimeric transcripts. When tested on mouse RNA-seq data, >31,000 splice events were predicted,
BMC Genomics (2016) 17:392 DOI 10.1186/s12864-016-2646-x METHODOLOGY ARTICLE Open Access A robust (re-)annotation approach to generate unbiased mapping references for RNA-seq-based analyses of differential expression across closely related species Montserrat Torres-Oliva1,2, Isabel Almudi3,4, ...
Small RNA-seq Small RNA-seq libraries were made following the general workflow of Hafner et al. (Fig. 1A18). Input RNA for the cellular sample was 500 ng total RNA while input for the plasma samples was total RNA from 200 μl plasma unless otherwise noted. Sequencing adapters were ...
Single-cell RNA-seq (scRNA-seq) is being used widely to resolve cellular heterogeneity. With the rapid accumulation of public scRNA-seq data, an effective and efficient cell-querying method is critical for the utilization of the existing annotations to curate newly sequenced cells. Such a queryi...
Such advances have initiated a quest for measuring single-cell proteomes at a depth similar to that of single-cell RNA-seq (scRNA-seq) and ideally also in a robust and scalable manner. However, proteomics has neither an equivalent to oligonucleotide amplification nor to barcoding that enable mu...
To determine whether cell-type-specific interactors were more highly expressed in the cell type in which they were identified, we measured the expression level of our candidates in each cell line using RNA-seq. We found that candidates specific to M17 cells were more highly expressed in M17 ...
After DEG analysis, the RNA-seq dataset becomes a matrix of vertically-organised vectors, where the rows correspond to the genes (with identifiers associated with gene annotation databases) and the columns to attributes such as fold-change (e.g., up-regulated, downregulated, non-differentially reg...
We developed TRAID-Seq, a screening strategy in S. cerevisiae to identify sequences added to a reporter RNA at single-nucleotide resolution by overexpressing candidate enzymes from different organisms. The rNTase activities of 22 previously unexplored enzymes were determined. In addition to poly(A)-...
Application of RNA-Seq transcriptome analysis: CD151 is an Invasion/Migration target in all stages of epithelial ovarian cancer p pBackground/p pRNA-Seq allows a theoretically unbiased analysis of both genome-wide transcription levels and mutation status of a tumor. Using this techn... RA Mosig...