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Biome | Bioinformatics for biologists

Biome | Bioinformatics for biologists | Tools and tips for scientific tinkers and tailors | Scoop.it
The 4273π operating system for Raspberry Pi computers has been developed to facilitate an in-depth bioinformatics course for biologists | Research published by BioMed Central
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Tools and tips for scientific tinkers and tailors
Next gen sequencing, bioinformatics, virology, microbiology, genomes, zoonoses, workshops, conferences, all-around science geekery
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Sequencing Ebola in the field: a tale of nanopores, mosquitos and whatsapp

Posted on behalf of Lauren -------------------------------------------------- Since the 2nd of June I have been in Guinea contributing to the Ebola response by sequencing the new cases on the MinIO...
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Phylogenetic congruence and ecological coherence in terrestrial Thaumarchaeota - Nature.com

Phylogenetic congruence and ecological coherence in terrestrial Thaumarchaeota - Nature.com | Tools and tips for scientific tinkers and tailors | Scoop.it
The ISME Journal: Multidisciplinary Journal of Microbial Ecology is the official Journal of the International Society for Microbial Ecology, publishing high-quality, original research papers, short communications, commentary articles and reviews in...
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Title: Darwin’s Finch Evolution: Improved Taxonomy Reveals Secrets | Illumina SciMon Video

Find out how sequencing is able to accurately detect genes responsible for beak diversity and evolution in Darwin's finches. For more information on ...
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NIH to fund development of methods for direct RNA sequencing | RNA-Seq Blog

Purpose This Funding Opportunity Announcement (FOA) solicits R01 grant applications to develop novel technologies that will enable at least one order of
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The Evolution of RNA-Sequencing | RNA-Seq Blog

Click here to register for free and to view the entire webinar: http://xtalks.com/genomic-know-how.as... Although RNA-Seq is a relatively new methodology,
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Development of Transcriptomic Markers for Population Analysis Using Restriction Site Associated RNA Sequencing (RARseq)

We describe restriction site associated RNA sequencing (RARseq), an RNAseq-based genotype by sequencing (GBS) method. It includes the construction of RNAseq libraries from double stranded cDNA digested with selected restriction enzymes. To test this, we constructed six single- and six-dual-digested RARseq libraries from six F2 pitcher plant individuals and sequenced them on a half of a Miseq run. On average, the de novo approach of population genome analysis detected 544 and 570 RNA SNPs, where
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Lassa virus evolution

I have a soft spot in my heart for Lassa virus, so papers on this virus always catch my attention.
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Frontiers | Broadening the definition of a bioinformatician | Bioinformatics and Computational Biology

Broadening the definition of a bioinformatician
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TWiV 349: One ring to vaccinate them all

How to make a functional ribosome with tethered subunits, and the results of a phase III VSV-vectored Ebolavirus vaccine trial in Guinea.
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Cellular zombies: Mutant cells that can't copy DNA keep dividing when they shouldn't

Researchers at USC have developed a yeast model to study a gene mutation that disrupts the duplication of DNA, causing massive damage to a cell's chromosomes, while somehow allowing the cell to con...
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Ways to do cheap DNA extractions from 1000s of samples?

So - I keep getting asked about this.  I am looking for how people are doing DNA extractions from 1000s of samples. Some questions 1. What are the cheapest service providers out there for doing DNA...
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Avian Flu Diary: ECDC Vector Maps: Invasive Ticks, Mosquitoes & Sand Flies

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Statistical models for RNA-seq data derived from a two-condition 48-replicate experiment

@lpachter The best dist is clearly neg binomial (http://t.co/U43yPTbwtz), so I reckon theres not much debate any more - GLM is better.
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Furthering Data Analysis of Next-gen Sequencing to Facilitate Research

Researchers have developed a user-friendly, integrated platform for analyzing the transcriptomic and epigenomic "big data." Scientists say that the new platform — called BioWardrobe — could help biomedical researchers answer questions about both basic biology and disease. The recent proliferation of NGS-based methods for analysis of gene expression, chromatin structure and protein-DNA interactions have opened new horizons...
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A single chromosome assembly of Bacteroides fragilis strain BE1 from Illumina and MinION nanopore sequencing data

bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
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NGS Infographic | RNA-Seq Blog

This past April marked the 10-year anniversary of the release of the first human genome reference sequence, an epic milestone in the annals of medical science. 
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A sleuth for RNA-Seq

Today my student Harold Pimentel released the beta version of his new RNA-Seq analysis method and software program called sleuth. A sleuth for RNA-Seq begins with the quantification of samples with...
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Avian Flu Diary: MJA: Ethical Considerations In The Management Of Ebola Virus Disease

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Capture RNA-seq for degraded and clinical RNA | RNA-Seq Blog

RNA-seq by poly(A) selection is currently the most common protocol for whole transcriptome sequencing as it provides a broad, detailed, and accurate view of the
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Overcoming bias and batch effects in RNA-Seq data | RNA-Seq Blog

Overcoming bias and batch effects in RNA-Seq data | RNA-Seq Blog | Tools and tips for scientific tinkers and tailors | Scoop.it
Rafael Irizarry - from Dana-FarberVideo From 15w5142: Statistical and Computational Challenges In Bridging Functional Genomics, Epigenomics, Molecular QTLs, and
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Researchers resurrect ancient viruses in hopes of improving gene therapy

It sounds like the start of a horror movie, but Harvard Stem Cell Institute (HSCI) researchers at Massachusetts Eye and Ear (MEE) have reconstructed an ancient virus that is highly effective at del...
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An Ebolavirus vaccine in Africa

An Ebolavirus vaccine that has shown promising results in a clinical trial in Guinea was made possible by advances in basic virology of the past 40 years.
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Another “Frontiers In” journal steps in it

Almost a year ago, I wrote about a terrible article that was published in the journal Frontiers in Public Health. FiPH is a legitimate, peer-reviewed journal, and they had just published a manuscript that was straight-up HIV denial, titled “Questioning the HIV-AIDS hypothesis: 30 years of dissent.” At the time, it was listed as a…
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Ebola and Marburg are Millions of Years Old, Not Thousands

Ebola and Marburg are 16 to 23 million years old, not thousands of years old as once thought, according to a new study. The research also indicates that Ebola and Marburg diverged from each other millions of years ago.
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Experimental validation of methods for differential gene expression analysis and sample pooling in RNA-seq

Massively parallel cDNA sequencing (RNA-seq) experiments are gradually superseding microarrays in quantitative gene expression profiling. However, many biologists are uncertain about the choice of differentially expressed gene (DEG) analysis methods and ...
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