RNA-Seq Blog

RNA-SEQ NEWS

IRIS-EDA – An integrated RNA-Seq interpretation system for gene expression data analysis

12 hours ago Leave a comment 180 Views

Next-Generation Sequencing has made available substantial amounts of large-scale Omics data, providing unprecedented opportunities to understand complex biological systems. Specifically, the value of RNA-Sequencing (RNA-Seq) data has...

RNA-Seq reveals specialized lung cells appear very early in development

12 hours ago Leave a comment 196 Views

CHOP/Penn researchers: Fetal signaling pathways may offer future targets for treating lung injury Specialized lung cells appear in the developing fetus...

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

4 days ago Leave a comment 545 Views

The analysis of single-cell RNA sequencing (scRNAseq) data plays an important role in understanding the intrinsic and extrinsic cellular processes in biological and biomedical research. One significant effort in this area is the detection of...

Improved RNA data visualization method gets to the bigger picture faster

5 days ago Leave a comment 1,005 Views

Like going from a pinhole camera to a Polaroid, a significant mathematical update to the formula for a popular bioinformatics data visualization method will...

New infographic available from Technology Networks

5 days ago Leave a comment 299 Views

Sometimes, analyzing our DNA sequences isn’t quite enough. RNA-seq is a next-generation sequencing (NGS)-based technique that looks at the RNA transcripts produced from our DNA, allowing us to...

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Jobs

Computational Scientist Position Open – Human Cell Types at Allen Institute

28 days ago Leave a comment 451 Views

Start Application Scientist I – Computation, Analysis & Biovisualization The Allen Institute for Brain Science, located in Seattle, Washington, has an ambitious, multi-disciplinary effort to reverse engineer complex neural circuits by ...
Read More »
Post-doc Position Available – Extreme Resistance RNA-Seq / Genomic analysis

29 days ago Leave a comment 598 Views
Postdoc – Computational genomics (UCSF Benioff Children’s Hospital Oakland)

January 18, 2019 Leave a comment 384 Views
Featured RNA-Seq Job – Single Cell Bioinformatician

December 27, 2018 Leave a comment 778 Views
Faculty Position Available – Emphasis on RNA Sequencing and Bioinformatics

December 17, 2018 Leave a comment 861 Views

Industry News

Oxford Nanopore introduces new cDNA kits for transcriptome sequencing

13 days ago Leave a comment 558 Views

Oxford Nanopore has launched new ‘109’ cDNA Kits for its real-time, scalable sequencing technology. The new kits provide high throughput whilst generating complete sequences of full-length cDNA strands, with a ...
Read More »
Fluidigm introduces REAP-Seq for multi-omic single-cell analysis on the C1

18 days ago Leave a comment 1,373 Views
Asuragen NGS System for Streamlined Detection of RNA Lung Cancer Variants Demonstrates Superior Performance in Multisite Evaluation

21 days ago Leave a comment 375 Views
1CellBio and Partek Deliver Easy-to-use Single Cell Analysis Solution

22 days ago Leave a comment 410 Views
10X Genomics, developer of scRNA-Seq technologies, lands additional $35 million in financing

January 8, 2019 Leave a comment 862 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 [...]

Tophat error

I am new to RNAseq, I am trying to map my reads to my reference genome. It generates this error Gene [...]

New to RNA seq.. Need help!!!

Hello All I am doing RNA seq using KAPA Stranded RNA-Seq Kit with RiboErase. I am following all the [...]

FastQC and firefox

Hello everyone, I want to perform a quality control of a fastq file. so I run this line *patrizio$ f [...]

download with fastq-dump

Hello everyone, I'm still new to RNAseq and I hope I can find someone to help me out with my qu [...]

MTide/miRDeep2 results problem

Hi :) I use MTide for analysis of my NGS data, and I have a problem with miRDeep2 results. I got two [...]

Plant total RNA with rRNA depletion: result expectations

Hi all, I recently got some RNA-seq data back that's left a bit puzzled. I opted for total RNA [...]

Mechanism preventing unspecific Binding of Adapter post A overhang introduction (10x)

Hello All, I'am designing an scRNA seq experiment using 10x genomics, when I look at their chem [...]

Advice RNA-Seq experimental design

Hello, I've recently started working in a group that would like to start doing RNA-Seq experime [...]

Looking for papers with many technical replicates in bacterial RNA-seq

Hello! I'm new to RNA-seq, soon I will be doing RNA-seq in bacteria with Illumina. Can anyone d [...]

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

Single cell RNA sequencing and Multiple Myeloma

March 21, 2018

RNA-Seq Blog Transcriptome Research & Industry News

RNA-SEQ NEWS

IRIS-EDA – An integrated RNA-Seq interpretation system for gene expression data analysis

RNA-Seq reveals specialized lung cells appear very early in development

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

Improved RNA data visualization method gets to the bigger picture faster

New infographic available from Technology Networks

Jobs

Computational Scientist Position Open – Human Cell Types at Allen Institute

Post-doc Position Available – Extreme Resistance RNA-Seq / Genomic analysis

Postdoc – Computational genomics (UCSF Benioff Children’s Hospital Oakland)

Featured RNA-Seq Job – Single Cell Bioinformatician

Faculty Position Available – Emphasis on RNA Sequencing and Bioinformatics

Industry News

Oxford Nanopore introduces new cDNA kits for transcriptome sequencing

Fluidigm introduces REAP-Seq for multi-omic single-cell analysis on the C1

Asuragen NGS System for Streamlined Detection of RNA Lung Cancer Variants Demonstrates Superior Performance in Multisite Evaluation

1CellBio and Partek Deliver Easy-to-use Single Cell Analysis Solution

10X Genomics, developer of scRNA-Seq technologies, lands additional $35 million in financing

Featured Presentations

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

Single cell RNA sequencing and Multiple Myeloma

IRIS-EDA – An integrated RNA-Seq interpretation system for gene expression data analysis

RNA-Seq reveals specialized lung cells appear very early in development

EMBL Course: Shift your DNA and RNA Sequencing Library Preparation into Hyper-Drive

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

Improved RNA data visualization method gets to the bigger picture faster

New infographic available from Technology Networks

Upcoming LiveTutorial: RNA Sequencing Analysis

Single-Cell RNA-Seq reveals how immune cells target different tissues