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Best practices in bioinformatics training for life scientists

Briefings in Bioinformatics 2013

Abstract

The mountains of data thrusting from the new landscape of modern high-throughput biology are irrevocably changing biomedical research and creating a near-insatiable demand for training in data management and manipulation and data mining and analysis. Among life scientists, from clinicians to environmental researchers, a common theme is the need not just to use, and gain familiarity with, bioinformatics tools and resources but also to understand their underlying fundamental theoretical and practical concepts. Providing bioinformatics training to empower life scientists to handle and analyse their data efficiently, and progress their research, is a challenge across the globe. Delivering good training goes beyond traditional lectures and resource-centric demos, using interactivity, problem-solving exercises and cooperative learning to substantially enhance training quality and learning outcomes. In this context, this article discusses various pragmatic criteria for identifying training needs and learning objectives, for selecting suitable trainees and trainers, for developing and maintaining training skills and evaluating training quality. Adherence to these criteria may help not only to guide course organizers and trainers on the path towards bioinformatics training excellence but, importantly, also to improve the training experience for life scientists.
Title Best practices in bioinformatics training for life scientists
Authors
Publication Type Journal Article
Series title Briefings in Bioinformatics
Year of Publication 2013
Date published 06/2013
Volume 14
Issue 5
Start page 528
Language eng
DOI https://doi.org/10.1093/bib/bbt043

Topics

1D Dynamic gating
1D Static gating
Advanced Bioinformatics training
affymetrix
AllBio
Alternative expression
animal pathogens
assembly
awk
bash
binning
Biocuration
Biohistory
bioinformatics
bioinformatics history
BioJS
Biological databases
Biological networks
Biomarker discovery
biomolecular databases
biomolecular sequences
Biopython
biostatistics
BLAST
bootstrap
Chemical biology
ChIP-seq anayses
ChIPSeq
Clinical Bioinformatics
Cloud
Cloud computing
clustalw
command linex
commands
consensus trees
course development
Cross-domain
Curation
Cytoscape
Data analysis
data visualization
De Novo
de-novo genome assembly
Differential expression
Disease causing mutation
DNA & RNA
Dotmatrix plots
e-learning
Education
EMBOSS
European perspective
Evolutionary Bioinformatics
evolutionary biology
Experimental design for RNA-seq
expert systems
Farm animals
FCS files
Flat-file databases
Flat-files
Flow cytometry data
FlowCAP
Functional Association Networks
functional diagnosis
gaming
gene expression
Gene Function Prediction
Gene lists
Gene ontology
GeneMANIA
GeneQuiz
genome browsing
Genome sequence analysis
genomics
Genotyping
GOBLET
GOBLET survey of life scientists
GSEA
High Throughput Sequencing Analysis
HMMER
identification
Identifiers
IGV
Instruction
integrated diagnostic tools
InterPro
introduction to bioinformatics
Introduction to BLAST
Introduction to flow cytometry
Introduction to InterPro
Introduction to RNA-Seq analysis
Introduction to the PDB
Introduction to UniProt
Introduction to Unix
JavaScript
KEGG
Linux basics
Literature
mass spectrometry
metagenomics
microarray data analysis
microarrays
Mind Map
molecular evolution
Molecular phylogeny
MOOC
multiple sequence alignment
multiple sequence analysis
mySQL
Network Visualization
next generation sequencing
Next generation sequencing data analysis
NGS
NGS bioinformatics
online learning
Ontologies
Ontology
Operating System
Over-representation analysis
pathogenesis
Pathway analysis
pattern discovery
pattern matching
pedagogy
perl
phylip
phylogenetic splits
phylogenetics
phylogeny
phytopathogens
plants
Plants bioinformatics
Plotting data
predicting effect of mutation on protein function
Predicting effect of mutation on structure
Preprocessing
Problem Based Learning
programming
protein family characterisation
Protein family classification
protein family databases
Protein family hierarchies
Protein function annotationx
Protein identification
protein sequence analysis
Protein sequence databasesx
protein structure
Protein structure analysisx
Protein structure databases
Protein structure visualisation
Protein structures
protein-protein interaction networks
Proteins
psi-blast
python
Python for Biologists
QC of NGS data
QTL
Quality Assurance
R
R Programming
Reactome
record parsing
Review of R
RNA-seq
RNA-seq alignment
RNASeq
Scoring matrices
Sequence alignment
Sequence analysis
Sequence database searchingx
Sequence similarity searching
Similarity searching
Software
Standards
structural variations
structures
Systems
Teaching Aid
test
The UniProt Knowledgebase
The UniProtKB flat-file formatx
Train the trainer
trainer skills
training
Training portal
Training technique
Transcript isoforms
Transcription factors
transcriptional regulation
Transript expression
Uni
unix
Unix/Linux
upgma
Variant calling
Variant detection
Velvet
Visual aid
visualisation

Keywords

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