Space Ranger is a set of analysis pipelines that process Visium Spatial Gene Expression data with brightfield and fluorescence microscope images. Space Ranger allows users to map the whole transcriptome in formalin fixed paraffin embedded (FFPE) and fresh frozen tissues to discover novel insights into...
In addition to TSS determination, Cappable-seq depletes ribosomal RNA and reduces the complexity of the transcriptome to a single quantifiable tag per transcript enabling digital profiling of gene expression in a microbiome. Are there other methods to identify transcription start sites?
RNA is particularly susceptible to degradation during preparation of FFPE samples. The fixation process and storage conditions can lead to fragmentation and chemical modifications, impacting the feasibility of RNA-based analyses. Transcriptional profiling of RNA from FFPE samples can bring great value to ...
Prior to RNA-Seq, the main technology for RNA analysis and gene expression profiling was microarrays. The main limitation of this technology is that it can only detect predefined RNA sequences, providing a biased view of the transcriptome. RNA-Seq is not limited to known sequences and produces...
Finally, we present the promises and challenges that arise when seeking to incorporate microbiome data in dietary planning and portray the anticipated revolution that the field of nutrition is facing upon adopting these novel concepts. Key points Common multifactorial diseases in both industrialized and ...
Profiling lncRNAs at transcript-specific level is important. However, RNA-seq coverage for the splice profiles is weak and non-uniform, particularly for non-predominant isoforms [1] (Fig. 2A). Even at saturating coverage, accurate reconstruction of transcript isoform is inherently challenging due t...
. Transcriptome analysis of a large group of genes under identical conditions, coupled with knowledge about gene expression profiles, is crucial for understanding the molecular pathways regulating the development of specific organs or tissues in all organisms, including plants and their vascular tissues....
[92]. The proteome is highly variable over time, among samples and environmental changes and it is related to mRNA (transcriptome) data but dependent on translation efficiency and post-translation modifications. Comparing proteomes allows the identification of proteins that are differentially expressed ...
Ribosome-profiling techniques were developed in response to the importance of measuring gene expression at the translational level. Ribosome profiling is a direct technique for determining the precise mRNA region read by the ribosome and for directly examining the transcripts associated with the translation...
such as transcriptome profiling using microarrays as well as the next-generation DNA sequencing technology, and characterization of proteome and metabolome using... X Yang,UC Kalluri,SP Difazio,... - 《Critical Reviews in Plant Sciences》 被引量: 91发表: 2009年 The Human Blood Metabolome-Transc...