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What Matters to Academic-Library Directors? Information Literacy

What Matters to Academic-Library Directors? Information Literacy | Bioinformatics Training | Scoop.it
Whether they work at a big research university, a small four-year college, or something in between, academic-library directors share a “resounding dedication” to teaching information literacy to undergraduates.
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Bioinformatics Training
Bioinformatics, blended with education and health sciences subjects
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GTPB: PDA15 - Proteomics Data Analysis - Home

GTPB: PDA15 - Proteomics Data Analysis - Home | Bioinformatics Training | Scoop.it
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Course description

Mass spectrometry based proteomic experiments generate ever larger datasets and, as a consequence, complex data interpretation challenges. In this course, the concepts and methods required to tackle these challenges will be introduced, covering both protein identification and quantification. The course will rely exclusively on free and user friendly software, all of which can be directly applied in your lab upon your return from the course.

An introduction to the available online resources and repositories will also be given. Here you will see how to link the results from proteomic experiments with external data to conduct pathway, gene ontology and interaction analyses.
In the course, you will also learn how to submit data to the ProteomeXchange online repositories, and how to browse and reprocess publicly available data from these repositories.

The course will provide a solid basis for beginners, but also new perspectives to those already familiar with standard data interpretation procedures in proteomics.

Course Pre-requisites

The participants should have a basic knowledge about mass spectrometry based proteomics. Experience in analyzing proteomics data is an advantage, but not mandatory. The course does not require advanced computer skills.

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EMBL-EBI: Celebrating 20 years of bioinformatics

In 2014, the European Molecular Biology Laboratory (http://www.embl.org) turns 40 and its UK site, the European Bioinformatics Institute (http://www.ebi.ac.uk), ...
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GTPB: BPBR15 Bioinformatics using Python for Biomedical Researchers - July 20th-24th

GTPB: BPBR15 Bioinformatics using Python for Biomedical Researchers - July 20th-24th | Bioinformatics Training | Scoop.it
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Course Description

Python is an object-oriented programming language that is ideal for biological data analysis. The course will start from zero knowledge, and will introduce the participants to all the basic concepts of Python such as calculating, organizing data, reading and writing files, program logic and writing larger programs. All the examples and practical sessions will focus on solving biological problems. In particular the sessions will cover:

working with DNA and protein sequencesdata retrieval from files and their manipulationrunning applications, such as BLAST, locally and from a scriptfinding motifs in sequenceparsing common file formats (Uniprot, GenBank, PDB, BLAST) with Biopythonways to find and correct program errors

The course will be highly interactive and the students will continuously put theory into practice while learning. By the end of the course, the participants will have a good understanding of Python basics and will have acquired the skills to manage any type of bioinformatics database record and to run applications from scripts. Basic Unix/Linux skills will be provided at the beginning of the course. Target Audience End-users of bioinformatics databases and tools that aim at developing hands-on capabilities for biological data analysis, ie writing their own or adapting somebody else's Python scripts in an autonomous way. Course Pre-requisites Basic familiarity with bioinformatics data resources such as Uniprot/Swiss-Prot, Blast, ENSEMBL, PDB, etc. The course is directed to biologists with little or no programming experience and aims at making them capable to use Python to autonomously manage and analyse biological data.

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Coding Boot Camps Are on the Rise

Coding Boot Camps Are on the Rise | Bioinformatics Training | Scoop.it
The unaccredited education programs known as coding boot camps are proliferating, and gaining more students.
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Rescooped by Pedro Fernandes from Bioinformatics Software: Sequence Analysis
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A novel statistical method for quantitative comparison of multiple ChIP-seq datasets

A novel statistical method for quantitative comparison of multiple ChIP-seq datasets | Bioinformatics Training | Scoop.it
Another method for quantitative comparison of multiple ChIP-seq datasets http://t.co/Z6wm6kHwkU w/ #Rstats pkg

Via Mel Melendrez-Vallard
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OpenHelix for bioinformatics software training

Knowing which tools are available, and learning to use them, can be challenging in genomics. The OpenHelix site connects you to information and software ...
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BMC Genomics | Full text | Global transcription of CRISPR loci in the human oral cavity

Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs) are active in acquired resistance against bacteriophage and plasmids in a number of environments.
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Huh? Schools Think Kids Don’t Want to Learn Computer Science

Huh? Schools Think Kids Don’t Want to Learn Computer Science | Bioinformatics Training | Scoop.it
The demand for coders is huge. But a new survey finds that schools don't think computer science is what kids (or their parents) want.
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What is PROSITE ? know this BIOINFORMATICS tool

What is PROSITE? Learn all about this Bioinformatics tool that tells about protein sequences studies and analysis. Read History of PROSITE and get definitions ...
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GTPB: PGDH15 - Population Genetics and Demographic History: model-based approaches - July 6th-9th

GTPB: PGDH15 - Population Genetics and Demographic History: model-based approaches - July 6th-9th | Bioinformatics Training | Scoop.it
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Course description

Genetic data are increasingly used by ecologists and evolutionary biologists in general. It has thus become important for many biologists with different levels of experience to produce and analyse genetic (and genomic) data. In this course we will take a practical approach to the analysis of genetic data, but we will also provide some of the theoretical background required to understand the outputs of the software used. This course will be organised so as to mix lectures where important notions are introduced with practicals where freely available software will be used. While this will not be the focus of the course, we will also introduce and discuss genealogical (coalescent-based) simulation methods and those based on forward-in-time simulations. Altogether this will allow to discuss the potentialities and limitations of the tools available to the community.

In this four-day course we will introduce the main concepts that underlie many of the models that are frequently used in population genetics. We will focus on the importance of demographic history (e.g. effective sizes and migration patterns) in shaping genetic data. We will go through the basic notions that are central to population genetics, insisting particularly on the statistics used to measure genetic diversity and population differentiation. The course will also cover a short introduction to coalescent theory, Bayesian inference in population genetics and data simulation, as they are connected to what makes landscape genetics today on the basis of multilocus data. We will also introduce two methods that have been recently developed to analyse genomic data. The PSMC of Li and Durbin reconstructs the demographic history of a species or population with the genome of a single individual. The Rehh package is an R implementation of the Extended Haplotype Homozygosity (EHH) test for selective sweeps and looks for signals of selection based on the analysis of genomic regions.

Most theory will be put into practice in practical sessions, analyzing real and/or simulated datasets. In these sessions, we will look at measures of genetic diversity and differentiation and use methods to detect population structure as implemented in the program STRUCTURE and discuss related programs such as FastSTRUCTURE. We will learn how to perform coalescent simulations of genetic data (using SPAms and ms). Some exercises will make use of R scripts (R being a freely available statistical program). Basic R knowledge is a pre-requisite but we will provide a short introduction to R. The R statistical package is a very powerful tool to analyse data outputs from many population genetics software, and can also be used to simulate genetic data under simple demographic scenarios.

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Rescooped by Pedro Fernandes from Bioinformatics Software: Sequence Analysis
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Hybrid De Novo Genome Assembly Using MiSeq and SOLiD Short Read Data

Hybrid  De Novo  Genome Assembly Using MiSeq and SOLiD Short Read Data | Bioinformatics Training | Scoop.it
A hybrid de novo assembly pipeline was constructed to utilize both MiSeq and SOLiD short read data in combination in the assembly.

Via Mel Melendrez-Vallard
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Rescooped by Pedro Fernandes from PDF Magazines Free Download
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Computational and Visualization Techniques for Structural Bioinformatics Using Chimera

Computational and Visualization Techniques for Structural Bioinformatics Using Chimera | Bioinformatics Training | Scoop.it
Computational and Visualization Techniques for Structural Bioinformatics Using Chimera shows how to perform computations with Python scripts in the Chimera environment.

Via eBooklyn
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Global Bioinformatics Market 2015 2019

Link to Report: https://www.youtube.com/watch?v=yNaL15zWuv4&feature=youtu.be Technavio's report, Global Bioinformatics Market 2015-2019, has been ...
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Translational bioinformatics Meaning

Video shows what translational bioinformatics means. The branch of bioinformatics that uses genomic data as its source. Translational bioinformatics Meaning.
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IonGAP: integrative bacterial genome analysis for Ion Torrent sequence data

IonGAP: integrative bacterial genome analysis for Ion Torrent sequence data | Bioinformatics Training | Scoop.it
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Rescooped by Pedro Fernandes from Virology and Bioinformatics from Virology.ca
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Experimental Evolution of an RNA Virus in Wild Birds: Evidence for Host-Dependent Impacts on Population Structure and Competitive Fitness

Experimental Evolution of an RNA Virus in Wild Birds: Evidence for Host-Dependent Impacts on Population Structure and Competitive Fitness | Bioinformatics Training | Scoop.it
Author Summary Viruses are constantly emerging into new areas and pose significant challenges to public health.

Via Ed Rybicki
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