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Tag Archives: Jupyter notebook

GenePattern Notebook for analysis and exploration of single-cell transcriptomic data

October 8, 2019 Leave a comment 2,971 Views

rna-seq

Single-cell RNA sequencing (scRNA-seq) has emerged as a popular method to profile gene expression at the resolution of individual cells...

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Bioconductor’s RNA-seq Workflow in Jupyter notebook format

October 21, 2015 Leave a comment 6,549 Views

rna-seq

Browsing RNA-seq workflow in Jupyter notebook format using Docker virtualisation environment

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Recent RNA-SEQ Pubs

Molecular characterization and analysis of the ATPase ASNA1 homolog gene of Eimeria tenella in a drug sensitive strain and drug resistant strains
27 February 2021
Hydrogen Gas Therapy Attenuates Inflammatory Pathway Signaling in Septic Mice
27 February 2021
Genome-wide investigation and expression analysis of MACPF gene family reveals its immune role in response to bacterial challenge of Manila clam
27 February 2021
Response of the ileum transcriptome to probiotic and fructo-oligosaccharides in Taiping chicken
27 February 2021
Transcriptome Profiling of Long Non-coding RNAs During the Atlantic Salmon Smoltification Process
27 February 2021
Genome-wide identification and functional characterization of natural antisense transcripts in Salvia miltiorrhiza
27 February 2021

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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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    scRNA-Seq reveals a new type of bone cell that may uncover therapeutic targets for a range of skeletal diseases

    1 hour ago
  • rna-seq

    DEBKS – a tool to detect differentially expressed circular RNA

    2 hours ago
  • rna-seq

    Single-cell RNA and protein expression in relation to cell cycle progression

    3 days ago
  • rna-seq

    Evaluating capture sequence performance for single-cell CRISPR activation experiments

    3 days ago
  • rna-seq

    Seven Bridges Selected by Pfizer to Support Data Management Solution for Single-Cell RNA Sequencing Data

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    Single-cell mapper (scMappR) – using scRNA-seq to infer the cell-type specificities of differentially expressed genes

    4 days ago
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    Featured RNA-Seq Job – Staff Bioinformatics Scientist, RNA-Seq

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