RNA-Seq Blog

RNA-SEQ NEWS

RMBase – decoding the atlas of RNA modifications from epitranscriptome sequencing data

18 hours ago Leave a comment 198 Views

Over 100 types of chemical modifications have been identified in protein-coding and noncoding RNAs (ncRNAs). However, the prevalence, regulation, and function of diverse RNA modifications remain largely unknown. Researchers from ...

RNA-Seq reveals transcriptome-wide isoform-level dysregulation in ASD, schizophrenia, and bipolar disorder

21 hours ago Leave a comment 338 Views

Our understanding of the pathophysiology of psychiatric disorders, including autism spectrum disorder (ASD), schizophrenia (SCZ), and bipolar disorder (BD), lags behind other fields of medicine. The diagnosis and study of these disorders currently depend on...

CDRP – architecture for multi-task deep learning to improve prognostic profiling

2 days ago Leave a comment 290 Views

Researchers from Fondazione Bruno Kessler introduce the CDRP (Concatenated Diagnostic-Relapse Prognostic) architecture for multi-task deep learning that incorporates a clinical algorithm, e.g., a risk stratification schema to improve prognostic...

Teasing out diversity in microglia cells with single cell RNA-Seq

2 days ago Leave a comment 346 Views

Microglia, the resident immune cells of the brain, were seen to change throughout the lifespan of mice in a study — and to be diverse, with distinct cell subtypes. Those with pro-inflammatory behavior may be disease-causing, as they were found to accumulate in the brains of a mouse model of multiple...

Sequencing-based methods for detection and quantitation of ribose methylations in RNA

3 days ago Leave a comment 346 Views

Ribose methylation is one of the most abundant RNA modifications and is found in all domains of life and all major classes of RNA (rRNA, tRNA, and mRNA)...

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Jobs

Postdoc position available – cancer and development

5 days ago Leave a comment 435 Views

We are looking to appoint a highly motivated postdoctoral fellow in cancer and developmental transcriptomics and genetics to join Sam Behjati’s group at the Wellcome Sanger Institute...
Read More »
Bioinformatician (m/f) (#CFBIO15)

8 days ago Leave a comment 241 Views
Postdoc Position: Bioinformatics of Long Noncoding RNA Functional Elements

November 8, 2018 Leave a comment 548 Views
Featured RNA-Seq Job – Research Assistant

October 1, 2018 Leave a comment 878 Views
Bioinformatician and Data Engineer

October 1, 2018 Leave a comment 892 Views

Industry News

10x Genomics acquires 2D RNA sequencing firm Spatial Transcriptomics

3 days ago Leave a comment 686 Views

10x Genomics today announced the acquisition of Stockholm-based Spatial Transcriptomics, a pioneer in the emerging field of spatial genomics. The new field enables researchers to not only see what is in a cell but how cells are organized in relation to one...
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Cellecta, Inc. launches DriverMap™ predesigned RNA-Seq panels and analysis software

4 days ago Leave a comment 285 Views
Almac Group Launches claraT – A Unique, Software-driven Gene Expression Report

12 days ago Leave a comment 492 Views
BioLegend partners on TotalSeqTM antibodies to boost single cell surface protein profiling within VIB

November 15, 2018 Leave a comment 544 Views
Amaryllis Nucleics Adds Dual-Indexing Capabilities to its Dual-Mode RNAseq Kit

November 15, 2018 Leave a comment 361 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 [...]

Omics Data Analysis: What keeps you up at night?

Hello everyone, What's the most frustrating thing about doing omics data analysis (RNA-Seq, DNA [...]

which method for Ribo-seq liberary construction is better?

Hi, all I saw some methods for liberary construction of Ribo-seq, some recommend to use small RNA li [...]

Transcriptome construction

Hello all I wanted to ask that whether i can use both genome and transcriptome (generated using PacB [...]

Is Kallisto good for identifying non-coding RNA in a RNAseq data?

Hi I generated a co-expression map using Kallisto for aligning reads. However, after completing my a [...]

Very low TopHat aligment using public available dataset

Probably I'm missing something very simple, but I'm quiet new on this and maybe you can he [...]

Short survey for you bioinformatics struggles!

Hello everyone, I'm doing research on the* issues biologists without bioinformatics skills* fac [...]

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

RMBase – decoding the atlas of RNA modifications from epitranscriptome sequencing data

RNA-Seq reveals transcriptome-wide isoform-level dysregulation in ASD, schizophrenia, and bipolar disorder

CDRP – architecture for multi-task deep learning to improve prognostic profiling

Teasing out diversity in microglia cells with single cell RNA-Seq

Sequencing-based methods for detection and quantitation of ribose methylations in RNA

Jobs

Postdoc position available – cancer and development

Bioinformatician (m/f) (#CFBIO15)

Postdoc Position: Bioinformatics of Long Noncoding RNA Functional Elements

Featured RNA-Seq Job – Research Assistant

Bioinformatician and Data Engineer

Industry News

10x Genomics acquires 2D RNA sequencing firm Spatial Transcriptomics

Cellecta, Inc. launches DriverMap™ predesigned RNA-Seq panels and analysis software

Almac Group Launches claraT – A Unique, Software-driven Gene Expression Report

BioLegend partners on TotalSeqTM antibodies to boost single cell surface protein profiling within VIB

Amaryllis Nucleics Adds Dual-Indexing Capabilities to its Dual-Mode RNAseq Kit

Featured Presentations

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

Transcriptome Analysis using RNA-Seq Data

The Iso-Seq method for transcriptome analysis and genome annotation

RMBase – decoding the atlas of RNA modifications from epitranscriptome sequencing data

RNA-Seq reveals transcriptome-wide isoform-level dysregulation in ASD, schizophrenia, and bipolar disorder

CDRP – architecture for multi-task deep learning to improve prognostic profiling

Teasing out diversity in microglia cells with single cell RNA-Seq

Sequencing-based methods for detection and quantitation of ribose methylations in RNA

10x Genomics acquires 2D RNA sequencing firm Spatial Transcriptomics

A simple guideline to assess the characteristics of RNA-Seq data

Cellecta, Inc. launches DriverMap™ predesigned RNA-Seq panels and analysis software