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Bioinformatics Training
Bioinformatics, blended with education and health sciences subjects
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GTPB: IB14S Introductory Bioinformatics, Second course - Home

GTPB: IB14S Introductory Bioinformatics, Second course - Home | Bioinformatics Training | Scoop.it
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This is a 4 day course with minimal pre-requisites that aims at equipping the participants with means to deal with biological sequence data at various levels. In the last day we will focus on NGS data analysis at a basic level.

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Identifying and correcting errors in draft genomes

Identifying and correcting errors in draft genomes | Bioinformatics Training | Scoop.it
Over the past decade we have seen an exponential increase in the number of sequenced, assembled, and annotated genomes. These these genomes are essential for pretty much any genomics research. If y...

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Genome alignment with graph data structures: a comparison « Homolog.us – Bioinformatics

Genome alignment with graph data structures: a comparison « Homolog.us – Bioinformatics | Bioinformatics Training | Scoop.it
Interesting mathematical paper
Background
Recent advances in rapid, low-cost sequencing have opened up the opportunity to study complete genome sequences.

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A Massively Parallel Pipeline to Clone DNA Variants and Examine Molecular Phenotypes of Human Disease Mutations

A Massively Parallel Pipeline to Clone DNA Variants and Examine Molecular Phenotypes of Human Disease Mutations | Bioinformatics Training | Scoop.it
PLOS Genetics is an open-access

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Bayesian Inference of Sampled Ancestor Trees for Epidemiology and Fossil Calibration

Bayesian Inference of Sampled Ancestor Trees for Epidemiology and Fossil Calibration | Bioinformatics Training | Scoop.it
PLOS Computational Biology is an open-access

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MTide – an integrated tool for the identification of miRNA-target interaction in plants | RNA-Seq Blog

MTide – an integrated tool for the identification of miRNA-target interaction in plants | RNA-Seq Blog | Bioinformatics Training | Scoop.it
Small RNA sequencing and degradome sequencing (also known as parallel analysis of RNA ends) have provided rich information on the microRNA (miRNA) and its

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A metagenomic pipeline integrating predictive profiling methods and complex networks for the analysis of NGS microbiome data

A metagenomic pipeline integrating predictive profiling methods and complex networks for the analysis of NGS microbiome data | Bioinformatics Training | Scoop.it
A metagenomic pipeline integrating predictive profiling methods and complex networks for the analysis of NGS microbiome data

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New Nanopore Paper by Phil Ashton « Homolog.us – Bioinformatics

New Nanopore Paper by Phil Ashton « Homolog.us – Bioinformatics | Bioinformatics Training | Scoop.it
Added @pathogenomenick table showing no difference between pacbio and ont2d error rates in R7.3 chemistry @infoecho http://t.co/5tGOJ0LtVA

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Annotate your RNA-Seq data with NextBio Research

Annotate your RNA-Seq data with NextBio Research | Bioinformatics Training | Scoop.it
We've developed a new BaseSpace app named NextBio Annotates RNA-Seq that lets you 'test-drive' NextBio Research on your RNA-Seq data. With a few clicks, you can find how the most differentially exp...

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Rescooped by Pedro Fernandes from Virology and Bioinformatics from Virology.ca
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Oncolytic viruses as anticancer vaccines

Oncolytic viruses as anticancer vaccines | Bioinformatics Training | Scoop.it
Oncolytic viruses are natural or genetically modified viral species that selectively infect and kill cancer cells.

Via Chris Upton + helpers
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Rescooped by Pedro Fernandes from Bioinformatics Software: Sequence Analysis
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The HIV Mutation Browser: A Resource for Human Immunodeficiency Virus Mutagenesis and Polymorphism Data

The HIV Mutation Browser: A Resource for Human Immunodeficiency Virus Mutagenesis and Polymorphism Data | Bioinformatics Training | Scoop.it
PLOS Computational Biology is an open-access

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The Bayesian kitchen: Bayesian automatic control of model complexity

The Bayesian kitchen: Bayesian automatic control of model complexity | Bioinformatics Training | Scoop.it
Stop worrying about over-parametrization in phylogenetics! Bayesian automatic control of model complexity http://t.co/rUv9UAzFbb

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Rescooped by Pedro Fernandes from Virology and Bioinformatics from Virology.ca
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Protocols.io, the online open repository for lab protocols. - atcgeek

Protocols.io, the online open repository for lab protocols. - atcgeek | Bioinformatics Training | Scoop.it
Protocols.io is an online community serving as repository for lab protocols in Life Sciences.

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Welcome! — Practical bioinformatics needs survey 1.0 documentation


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bioinformatics - fastq-dump using mkfifo to stream data - Biology Stack Exchange

bioinformatics - fastq-dump using mkfifo to stream data - Biology Stack Exchange | Bioinformatics Training | Scoop.it
Biology SE: fastq-dump using mkfifo to stream data http://t.co/UfFVwpxLxH #bioinformatics

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MUSCLE: automated multi-objective evolutionary optimization of targeted LC-MS/MS analysis

MUSCLE: automated multi-objective evolutionary optimization of targeted LC-MS/MS analysis | Bioinformatics Training | Scoop.it
ALWAYS check your acronym against other popular bioinformatics software - case in point; we now have another MUSCLE http://t.co/I6Wk1NsfNv

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METAINTER: meta-analysis of multiple regression models in genome-wide association studies

METAINTER: meta-analysis of multiple regression models in genome-wide association studies | Bioinformatics Training | Scoop.it
RT @genetics_blog: Meta-analysis of multiple regression models in GWAS http://t.co/63TFt8kQnP #bioinformatics

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Rescooped by Pedro Fernandes from Bioinformatics Software: Sequence Analysis
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The Genome Factory: Minimum standards for bioinformatics command line tools

Minimum standards for bioinformatics command line tools
by @torstenseemann
via @kbradnam and @RoyChaudhuri
http://t.co/0ftRZHMIb4

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EPGA: de novo assembly using the distributions of reads and insert size

EPGA: de novo assembly using the distributions of reads and insert size | Bioinformatics Training | Scoop.it
RT @SAGRudd: EPGA: de novo assembly using the distributions of reads and insert size http://t.co/OgsLvz71St

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Achievements and challenges in structural bioinformatics and computational biophysics

Achievements and challenges in structural bioinformatics and computational biophysics | Bioinformatics Training | Scoop.it
RT @RNajmanovich: Achievements & challenges in structural bioinformatics & computational biophysics w/ @pebourne http://t.co/1zjlsdGoWu htt…

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Bacteria’s Game of ‘Telephone’ Foils Microbiologists’ Eavesdropping - ScienceBlog.com

Bacteria’s Game of ‘Telephone’ Foils Microbiologists’ Eavesdropping - ScienceBlog.com | Bioinformatics Training | Scoop.it
December 8, 2014 Health While human families are easily illustrated as a tree, bacterial families look more like a heap of branches. Scientists are trying to trace the connections between …

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https://python.g-node.org/wiki/

Pedro Fernandes's insight:
Advanced Scientific Programming in Python

a Summer School by the G-Node, the Bernstein Center for Computational
Neuroscience Munich and the Graduate School of Systemic Neurosciences

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Rescooped by Pedro Fernandes from Virology and Bioinformatics from Virology.ca
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Human Viruses and Cancer

Human Viruses and Cancer | Bioinformatics Training | Scoop.it
To date, seven viruses have been consistently linked to different types of human cancer, and infections are estimated to account for up to 20% of all cancer cases worldwide.

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NCBIminer: Sequences harvest from Genbank

NCBIminer: Sequences harvest from Genbank | Bioinformatics Training | Scoop.it
NCBIminer is freely available, cross-platform and user-friendly software for mining nucleotide sequence data from GenBank.

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4 Minutes of Green Gold: Watch Algae Grow

4 Minutes of Green Gold: Watch Algae Grow | Bioinformatics Training | Scoop.it
There’s something calming about watching algae grow. What you see in the tubes are two types of algae: Thalassiosira psuedonana or “Thaps” is the brown diatom. Chlamydomonas reinhardtii or “Chlamy” is the green algae.
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BMC Bioinformatics | Full text | MPAgenomics: an R package for multi-patient analysis of genomic markers

Last generations of Single Nucleotide Polymorphism (SNP) arrays allow to study copy-number variations in addition to genotyping measures.

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