Scientific topics: Drug discovery or Metagenomics
The questions this addresses are:
- How can yeast strains in a beer sample be identified?
- How can we process metagenomic data sequenced using Nanopore?
The objectives are:
- Inspect metagenomics data
- Run metagenomics tools
- Identify yeast species contained in a sequenced beer sample...
Scientific topics: Metagenomics
Keywords: metagenomics, nanopore, beer, citizen science, metagenomics
Resource type: hands-on tutorial
This course covered the generation and application of large-scale holo-omic data sets, such as those produced within the HoloFood project. This course was run in September 2022, in-person in Bilbao, as part of the 1st Applied Hologenomics Conference. These course notes include the lecture slides...
Scientific topics: Metatranscriptomics, Sample collections, Metabolomics, Metagenomics
Keywords: hologenomics, metagenomics, Metabolomics, MGnify, Workshop
Resource type: Slides, course materials, hands-on tutorial
The questions this addresses are:
- How to analyze metatranscriptomics data?
- What information can be extracted of metatranscriptomics data?
- How to assign taxa and function to the identified sequences?
The objectives are:
- Choose the best approach to analyze metatranscriptomics data
-...
Scientific topics: Metagenomics
Keywords: metagenomics, metatranscriptomics
Resource type: hands-on tutorial
The questions this addresses are:
- What is the effect of normal variation in the gut microbiome on host health?
The objectives are:
- Analyze of 16S rRNA sequencing data using the mothur toolsuite in Galaxy
- Using a mock community to assess the error rate of your sequencing experiment
-...
Scientific topics: Metagenomics
Keywords: metagenomics
Resource type: hands-on tutorial
The questions this addresses are:
- How to analyze metatranscriptomics data?"
- What information can be extracted of metatranscriptomics data?
- How to assign taxa and function to the identified sequences?
The objectives are:
- Choose the best approach to analyze metatranscriptomics data
...
Scientific topics: Metagenomics
Keywords: metagenomics, metatranscriptomics
Resource type: hands-on tutorial
The questions this addresses are:
- How do I assemble a genome with Nanopore data?
- How do I get more information about the structure of the genomes?
- How do I get more information about the antimicrobial resistance genes?
The objectives are:
- Perform Quality control on your reads
-...
Scientific topics: Metagenomics
Keywords: metagenomics, nanopore, plasmids, assembly, amr
Resource type: hands-on tutorial
The questions this addresses are:
- How to analyze metagenomics data?
- What information can be extracted of metagenomics data?
- What is the difference between amplicon and shotgun data?
- What are the difference in the analyses of amplicon and shotgun data?
The objectives are:
-...
Scientific topics: Metagenomics
Keywords: metagenomics
Resource type: hands-on tutorial
The questions this addresses are:
- What is the effect of normal variation in the gut microbiome on host health?
The objectives are:
- Analyze of 16S rRNA sequencing data using the mothur toolsuite in Galaxy
- Using a mock community to assess the error rate of your sequencing experiment
-...
Scientific topics: Metagenomics
Keywords: metagenomics
Resource type: hands-on tutorial
The questions this addresses are:
- How can we analyse the health status of the soil?
- How do plants modify the composition of microbial communities?
The objectives are:
- Use Nanopore data for studying soil metagenomics
- Analyze and preprocess Nanopore reads
- Use Kraken2 to assign a...
Scientific topics: Metagenomics
Keywords: metagenomics, nanopore
Resource type: hands-on tutorial
The questions this addresses are:
- How to analyze metatranscriptomics data?
- What information can be extracted of metatranscriptomics data?
- How to assign taxa and function to the identified sequences?
Scientific topics: Metagenomics
Keywords: metagenomics
Resource type: slides
Slides for Metagenomics
Scientific topics: Metagenomics
Resource type: slides
This quick tour provides a brief introduction to MGnify - a free resource for analysis, visualisation and discovery of microbiome (metagenomic, metatranscriptomic, amplicon and assembly) datasets.
This course is suitable those with an undergraduate degree in a life science subject would be an...
Scientific topics: Metagenomics
Keywords: Metagenomics, Sequence analysis, MGnify, Microbiology
Resource type: Tutorial
Metagenomics, the genomic analysis of microbial communities from samples like water and soil, involves high throughput sequencing of the microbial DNA, collecting, archiving and resharing the genomic data for taxonomic and functional analysis.
This course covers the use of publicly available...
Scientific topics: Metagenomics
Keywords: Metagenomics, MGnify, Sequence Analysis, Microbiology
Resource type: Tutorial
EBI metagenomics is a freely available hub for the analysis and exploration of metagenomic, metatranscriptomic, amplicon and assembly datasets. The resource provides rich functional and taxonomic analyses of user-submitted sequences, as well as analysis of publicly available metagenomic datasets...
Scientific topics: Metagenomics
Keywords: Metagenomics, MGnify, Sequence Analysis, Microbiology
Resource type: Webinar
The International Union of Basic and Clinical Pharmacology (IUPHAR) / British Pharmacological Society (BPS) Guide to PHARMACOLOGY is an expert-curated resource of ligand-activity-target relationships, the majority of which come from high-quality pharmacological and medicinal chemistry literature....
Scientific topics: Pharmacology, Drug discovery
Resource type: PDF
Materials from the ELIXIR workshop “Hands-on workshop in Marine Metagenomics”, Nov 26-30 2018 at the Arctic University of Norway, Tromso, Norway
Scientific topics: Genomics, Metagenomics, Marine biology
Keywords: Marine Metagenomics, eLearning, EeLP
Resource type: course materials, Training materials, Slides
Metagenomics investigates the composition and function of microbial communities in different environments based on direct isolation of genetic material. It has been accelerated by the advances in high-throughput sequencing technologies, and the increasing data sizes require efficient analysis...
Scientific topics: Metagenomics
Resource type: Video, course materials
Hands-on exercises using a variety of text-mining tools and databases based on text mining, to interpret the results from microbiome studies.
The exercises will teach you how to:
- automatically highlight named entities in a web page
- use named entity recognition for synonym-aware...
Scientific topics: Microbial ecology, Metagenomics, Natural language processing, Data mining
Link to the GitHub repo containing all the publicly available files from the 2015 Metagenomics course held at TGAC in November 2015
Scientific topics: Metagenomics
Keywords: Metagenomics
This course took place at TGAC on 8-12 September 2014
What is the workshop about?
A substantial part of the course will be devoted to bioinformatics resources and tools relevant in metagenomics data analysis. Participants will start at the bench and end in front of the computers for a problem...
Scientific topics: Metagenomics
Keywords: Metagenomics
EBI Metagenomics portal: Quick tour from http://www.ebi.ac.uk/training/online/course/ebi-metagenomics-portal-quick-tour.
Scientific topics: Metagenomics
Keywords: DNA RNA