RNA-Seq Blog

RNA-SEQ NEWS

Single-cell RNA-Seq identifies cell-cell communication associated with tumor characteristics

Tumor ecosystems are composed of multiple cell types that communicate by ligand-receptor interactions. Targeting ligand-receptor interactions (for instance, with immune checkpoint inhibitors) can...

Single-cell analysis reveals how melanoma cells resist immunotherapy

2 days ago Leave a comment 459 Views

Researchers identify a molecular strategy that human melanoma cells use to resist immunotherapy, and develop a new approach to combat the resistance in mouse models. Unleashing the immune system to fight tumors — an approach enabled by...

Upcoming Webinar – Sequence what matters – one-step rRNA removal in 10 seconds

6 days ago Leave a comment 641 Views

QIAseq FastSelect: A new revolutionary technology for rRNA depletion For transcriptomic profiling of gene expression using RNA-seq, removal of highly abundant, but unimportant RNA species increases sensitivity and decreases cost- ...

Postdoc Position: Bioinformatics of Long Noncoding RNA Functional Elements

6 days ago Leave a comment 290 Views

The “Genomics of Long Non-Coding RNAs in Disease” Laboratory (GOLD Lab) at the University of Bern has an opportunity for a Bioinformatics Postdoc. The Project: Understanding how long noncoding RNA ...

AutoImpute – Autoencoder based imputation of single-cell RNA-seq data

6 days ago Leave a comment 573 Views

The emergence of single-cell RNA sequencing (scRNA-seq) technologies has enabled us to measure the expression levels of thousands of genes at single-cell resolution. However, insufficient quantities of starting RNA in the individual cells cause...

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Jobs

Postdoc Position: Bioinformatics of Long Noncoding RNA Functional Elements

6 days ago Leave a comment 290 Views

The “Genomics of Long Non-Coding RNAs in Disease” Laboratory (GOLD Lab) at the University of Bern has an opportunity for a Bioinformatics Postdoc. The Project: Understanding how long noncoding RNA ...
Read More »
Featured RNA-Seq Job – Research Assistant

October 1, 2018 Leave a comment 648 Views
Bioinformatician and Data Engineer

October 1, 2018 Leave a comment 680 Views
Postdoc in Bioinformatics

September 6, 2018 Leave a comment 714 Views
Postdoctoral Position, RNA next-generation sequencing R&D

August 21, 2018 Leave a comment 741 Views

Industry News

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 [...]

RNA-seq data on single nucleotide level (time series data)

Hello, I want to work with multidimensional RNA-Seq dataset on single nucleotide level. anyone have [...]

Failure of tumor FFPE samples sequencing

Dear all, I am a PhD student in Belgium, Brussels, working on RNA sequencing of ~130 tumoral FFPE sa [...]

Trinity Adapter Trimming: Clontech and Illumina?

Apologies for what is an often repeated topic, but with (I believe) a new twist. I have several RNA [...]

miRNA/smallRNA adapter triming: recommendations for adaptor error rate and Q-trim

I am looking for recommendations on how to trim miRNA/smallRNA sequencing data because the trimming [...]

scRNA-seq

Dear all, registration is now open for our course "Analysis of single cell RNA-seq data" i [...]

DGE analysis with >3 treatements

Hello, I have 2 different phenotypes sampled in three populations, with three reps each. I performed [...]

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

Single-cell RNA-Seq identifies cell-cell communication associated with tumor characteristics

Single-cell analysis reveals how melanoma cells resist immunotherapy

Upcoming Webinar – Sequence what matters – one-step rRNA removal in 10 seconds

Postdoc Position: Bioinformatics of Long Noncoding RNA Functional Elements

AutoImpute – Autoencoder based imputation of single-cell RNA-seq data

Jobs

Postdoc Position: Bioinformatics of Long Noncoding RNA Functional Elements

Featured RNA-Seq Job – Research Assistant

Bioinformatician and Data Engineer

Postdoc in Bioinformatics

Postdoctoral Position, RNA next-generation sequencing R&D

Industry News

1CellBio and the Open Medicine Institute to Demonstrate Power of Single-Cell RNA Sequencing in Precision Medicine Applications

Advaita Bioinformatics has announced a new release of their advanced RNA-seq and gene expression analysis software, iPathwayGuide

Illumina to acquire Pacific Biosciences for approximately $1.2 billion

Machine learning analysis of RNA-Seq data to de-risk repositioning of existing FDA-approved drugs

Proteona licenses ESCAPE RNA Sequencing Technology from NUS

Featured Presentations

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

Single cell RNA-sequencing in idiopathic pulmonary fibrosis

Upcoming symposium – Genomics based biomarker discovery in cancer

Portcullis – efficient and accurate detection of splice junctions from RNA-Seq

1CellBio and the Open Medicine Institute to Demonstrate Power of Single-Cell RNA Sequencing in Precision Medicine Applications

Comprehensive evaluation of RNA-Seq analysis pipelines in diploid and polyploid species

RNA-Seq reveals new clues to the origin and progression of multiple sclerosis

Single-cell RNA-Seq identifies cell-cell communication associated with tumor characteristics

Single-cell analysis reveals how melanoma cells resist immunotherapy

DASHR 2.0: Integrated database of human small non-coding RNA genes and mature products