RNA-Seq Blog

RNA-SEQ NEWS

Empirical assessment of the impact of sample number and read depth on RNA-Seq analysis workflow performance

December 27, 2018 Leave a comment 1,161 Views

RNA-Sequencing analysis methods are rapidly evolving, and the tool choice for each step of one common workflow, differential expression analysis, which includes read alignment, expression modeling...

Featured RNA-Seq Job – Single Cell Bioinformatician

December 27, 2018 Leave a comment 956 Views

Emeryville, CA R&D Life Sciences Full-time Berkeley Lights: The power of engineering, brought to life. Berkeley Lights, Inc. is enabling precise cell by cell selection and manipulation to empower: cell ...

An improved method for analyzing differentially expressed genes in RNA-seq data

December 21, 2018 Leave a comment 3,918 Views

RNA sequencing (RNA-seq) has become a widely used technology for analyzing global gene-expression changes during certain biological processes. It is generally acknowledged that RNA-seq data displays equidispersion and overdispersion characteristics; ...

Transcriptomics reveals how plants adapt to the microgravity space environment

December 21, 2018 Leave a comment 785 Views

Understanding how plants respond to microgravity is critical to providing fresh food during space exploration initiatives. Researchers compared two methods - RNA-Seq and microarray -- of analyzing which genes are expressed (the 'transcriptome')...

RNA-Seq reveals the molecular basis for the single-nucleotide precision of primary microRNA processing

December 20, 2018 Leave a comment 685 Views

Microprocessor, composed of DROSHA and its cofactor DGCR8, initiates microRNA (miRNA) biogenesis by processing the primary transcripts of miRNA (pri-miRNAs). Researchers at the Seoul...

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Jobs

Featured RNA-Seq Job – Research Associate Platform Discovery: Single-Cell RNA-Seq

5 days ago Leave a comment 495 Views

Reporting to the Director of Platform Biology, the Research Associate of Platform Discovery will assume a key role responsible for implementing Cogen Therapeutics’ high throughput strategy and discovery platform which is poised to interrogate...
Read More »
Seeking Postdoc – Knowledge of de novo genome assembly, transcriptomics analysis (RNA-seq and others), coding in Python, Perl, and/or R

April 15, 2019 Leave a comment 894 Views
Featured RNA-Seq Job – Inside Sales / Technical Customer Service

April 9, 2019 Leave a comment 580 Views
Wanted – RNA-seq bioinformatics wizard with interest in curing cancer

March 18, 2019 Leave a comment 935 Views
Postdoc Position Available – Computational Genomics

March 11, 2019 Leave a comment 1,037 Views

Industry News

Caris Life Sciences Receives FDA Breakthrough Device Designation for RNA-Seq Based Companion Diagnostic Test

12 days ago Leave a comment 814 Views

This is the first companion diagnostic to detect gene fusions across all solid tumors; Caris expects to submit for Pre-Market Approval later this year Caris Life Sciences, a leading innovator in molecular...
Read More »
Agilent introduces new RNA / DNA QC system for NGS samples

April 4, 2019 Leave a comment 1,145 Views
sRNAlytics receives FDA support for an AI-powered, small RNA sequencing analysis platform

March 21, 2019 Leave a comment 1,015 Views
Canopy Biosciences exclusively licenses technology for error correction in NGS from Washington University

March 11, 2019 Leave a comment 935 Views
RNA Sequencing identifies new cannabis pathogen

March 8, 2019 Leave a comment 1,132 Views

Biostars RNA-Seq
SEQanswers - RNA Sequencing

Rna-Seq Pipeline

So, there're papers on designing an RNA-seq experiment, and normalizing the data (Bullard et. a [...]

Visualisation Of Alternative Splicing Events Using Rna-Seq Data

Hi, I am looking for tools that provide a nice graphical display of different alternative splicing e [...]

How Are Rna-Seq Transcripts Assigned?

I am looking at some RNA-seq data analyzed by cufflinks using standard conditions, and trying to det [...]

Tophat Time And Memory Requirement

Hi, Anyone has an idea of memory and time requirement for tophat 1.4.1 for 76 paired-end reads (~60M [...]

Rna-Seq Data Variant Calling

Has anyone tried calling variants from RNA-seq data and comparing those with WGS/Exome sequencing va [...]

Tutorial: Workshop - Analysis Of Next Generation Sequencing Data

Workshop - Analysis of Next Generation Sequencing Data (Programming for Evolutionary Biology 2012 ht [...]

Searching For A Simple Yet Powerful Workflow For Rna-Seq

Hi, I have to start working with RNA-Seq data and have worked previously with ChIP-Seq so I am famil [...]

Rna-Seq Data For Cd34+ Cells Or An Alternative Approach To Compare My Expression Set

Hi! I am looking for a RNA-seq data on CD34+ cells (human), to compare the expression of genes in my [...]

Distribution Of Isoform Length

Is there any paper that contains the distribution of isoform length in different organisms? Here I [...]

Building A Webpage For Accessing Rna-Seq Expression Data

Hello all, I would like to get some hints to go about this task. I'd like to design a webpage/s [...]

Tophat Error : Oserror: [Errno 2] No Such File Or Directory

Hi, I am running tophat and getting a lot of different errors, I could understand some of them, but [...]

Tutorial: Visualizing Chip-Seq Data Using Ucsc [Bigwig]

Hola! I would like to write a quick tutorial on viewing your coverage/track/wiggle files using UCSC. [...]

Why Are There Many Rna-Seq Hits To Intronic Regions?

I am looking at RNA-seq data, which I have little experience in. I notice that for many genes, there [...]

Differential Rnaseq Expression Analysis Directly On Stanford'S Great?

Does anybody know if the tool GREAT from Stanford U. can be used for RNAseq differential expression [...]

De Novo Transcriptome And Comparative Genomics

Hello all, First time posting here. I am looking at doing some comparative genomics with a mammalian [...]

How To Get Equal Numbers Of Gene_Id And Exon_Id For Use In Newexoncountset Function For Dexseq

I'm trying to run DEXseq but am having trouble with the newExonCountSet function because my gen [...]

Is This Always The Case That The Wig/Bigwig/Bed Files Are Meant Only For Viewing Into Ucsc Browser?

Since I'm currently working with RNA-seq experiment data stored in wig/bigwig format. There are [...]

Strand-Specific Rna-Seq Data For Maqc Samples?

Hi, Is there publicly available strand-specific RNA-Seq data for the MAQC samples? It seems that the [...]

Publicly Available Strand-Specific Rna-Seq Data With Corresponding Rt-Pcr Data?

Hi, I'm wondering if there publicly available strand-specific RNA-Seq data with corresponding R [...]

Public Rnaseq/Dnaseq Data

Hi, I understand this might be a long shot, but : is anybody aware of a public dataset which contain [...]

high percentage of reads mapping to tRNA?

How do you interpret this? What does it mean for wet-lab side of things, does it inform any step tha [...]

Quick way to QC processed RNA-Seq data

Greetings, Is there some software/library that will automatically perform a data consistency check a [...]

Human Fibroblasts

Hi all, Wanted to ask for suggestions-comments-opinions regarding this experiment; We are planning t [...]

Quick Student Survey for Amazon Gift Card

Hello, I am a Master's student doing a project on RNA Seq user issues. Please participate in ou [...]

RNA modifications poster – Discover the chemical structure of different RNA modifications and their distribution and function in mRNA and tRNAs

July 17, 2018

Evaluation of two main RNA-seq approaches for gene quantification in clinical RNA sequencing: polyA+ selection versus rRNA depletion

March 21, 2018

RNA-Seq Blog Transcriptome Research & Industry News

RNA-SEQ NEWS

Empirical assessment of the impact of sample number and read depth on RNA-Seq analysis workflow performance

Featured RNA-Seq Job – Single Cell Bioinformatician

An improved method for analyzing differentially expressed genes in RNA-seq data

Transcriptomics reveals how plants adapt to the microgravity space environment

RNA-Seq reveals the molecular basis for the single-nucleotide precision of primary microRNA processing

Jobs

Featured RNA-Seq Job – Research Associate Platform Discovery: Single-Cell RNA-Seq

Seeking Postdoc – Knowledge of de novo genome assembly, transcriptomics analysis (RNA-seq and others), coding in Python, Perl, and/or R

Featured RNA-Seq Job – Inside Sales / Technical Customer Service

Wanted – RNA-seq bioinformatics wizard with interest in curing cancer

Postdoc Position Available – Computational Genomics

Industry News

Caris Life Sciences Receives FDA Breakthrough Device Designation for RNA-Seq Based Companion Diagnostic Test

Agilent introduces new RNA / DNA QC system for NGS samples

sRNAlytics receives FDA support for an AI-powered, small RNA sequencing analysis platform

Canopy Biosciences exclusively licenses technology for error correction in NGS from Washington University

RNA Sequencing identifies new cannabis pathogen

Featured Presentations

Integrative Genomics Viewer – RNA-Seq Data Basics

Genetic analysis of differentiating cells using single-cell RNA-seq

RNA Sequencing – Case Studies & Clinical Relevance

MSI Tutorial – RNA Sequencing Analysis

Differential Splicing Analysis with RNA-Seq: Current Applications, Approaches, & Limitations

Bioconductor Workshop: RNA Seq and ChIP Seq Analysis

RNA modifications poster – Discover the chemical structure of different RNA modifications and their distribution and function in mRNA and tRNAs

Mastering RNA-Seq Data Analysis – A critical approach to transcriptomic data analysis

Single cell RNA sequencing and multiple myeloma

MaRS: 27,000 human RNA-Seq in one database

Single-Cell RNA-Seq and cell heterogeneity in the central nervous system

Evaluation of two main RNA-seq approaches for gene quantification in clinical RNA sequencing: polyA+ selection versus rRNA depletion

Evaluating and correcting inherent bias of microRNA expression in Illumina sequencing analysis

Small RNA-seq – The RNA 5′-end adapter ligation problem and how to circumvent it

Upcoming Webinar – Applications of TCR repertoire as a biomarker for immunotherapy and beyond

A comprehensive cross-species comparison of short-read RNA-Seq assemblers

New computational tool enables powerful molecular analysis of biomedical tissue samples

Featured RNA-Seq Job – Research Associate Platform Discovery: Single-Cell RNA-Seq

A Bayesian mixture model for clustering droplet-based single-cell transcriptomic data from population studies

RNA-Seq advancing cell therapy for diabetes