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Tag Archives: University of Alabama at Birmingham

UALCAN – an interactive web-portal to perform to in-depth analyses of TCGA gene expression data

July 24, 2017 Leave a comment 5,553 Views

rna-seq

Genomics data from The Cancer Genome Atlas (TCGA) project has led to the comprehensive molecular characterization of multiple cancer types. The large sample numbers in TCGA offer an excellent opportunity to address questions associated with tumo heterogeneity. Exploration of the ...

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Recent RNA-SEQ Pubs

The Alternate Consumption of Quercetin and Alliin in the Traditional Asian Diet Reshaped Microbiota and Altered Gene Expression of Colonic Epithelial Cells in Rats.
Driver Network as a Biomarker: Systematic integration and network modeling of multi-omics data to derive driver signaling pathways for drug combination prediction.
Small RNAs in rat sperm are a predictive and sensitive biomarker of exposure to the testicular toxicant ethylene glycol monomethyl ether.
Allele-specific RNA-seq expression profiling of imprinted genes in mouse isogenic pluripotent states.
Insights from transcriptome profiling on the non-photosynthetic and stomatal signaling response of maize carbonic anhydrase mutants to low CO2.
Genome-wide analysis and identification of the low potassium stress responsive gene SiMYB3 in foxtail millet (Setariaitalica L.).

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What is RNA-Seq?

long RNAs are first converted into a library of cDNA fragments through either RNA fragmentation or DNA fragmentation. Sequencing adaptors (blue) are subsequently added to each cDNA fragment and a short sequence is obtained from each cDNA using high-throughput sequencing technology. The resulting sequence reads are aligned with the reference genome or transcriptome, and classified as three types: exonic reads, junction reads and poly(A) end-reads. These three types are used to generate a base-resolution expression profile for each gene. Nat Rev Genet 10(1):57-63 (2009)

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  • rna-seq

    In general, agreement among scRNA-Seq data analysis tools in calling DE genes is not high

    2 days ago
  • rna-seq

    Improved RNA data visualization method gets to the bigger picture faster

    3 days ago
  • rna-seq

    New infographic available from Technology Networks

    3 days ago
  • rna-seq

    Upcoming LiveTutorial: RNA Sequencing Analysis

    10 days ago
  • Single-Cell RNA-Seq reveals how immune cells target different tissues

    10 days ago
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    PROSSTT – probabilistic simulation of single-cell RNA-seq data for complex differentiation processes

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    Oxford Nanopore introduces new cDNA kits for transcriptome sequencing

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