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21 materials found

Scientific topics: Drug discovery  or Metagenomics 


Hands-on for 'Identification of the micro-organisms in a beer using Nanopore sequencing' tutorial

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

Organisation and utilisation of hologenomic datasets – course notes

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

Hands-on for 'Metatranscriptomics analysis using microbiome RNA-seq data' 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

Hands-on for '16S Microbial Analysis with mothur (extended)' 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

Hands-on for 'Metatranscriptomics analysis using microbiome RNA-seq data (short)' 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

Hands-on for 'Antibiotic resistance detection' 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

Hands-on for 'Analyses of metagenomics data - The global picture' 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

Hands-on for '16S Microbial Analysis with mothur (short)' 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

Hands-on for '16S Microbial analysis with Nanopore data' 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

Slides for 'Introduction to metatranscriptomics' 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

Introduction to 'Metagenomics'

Slides for Metagenomics

Scientific topics: Metagenomics

Resource type: slides

MGnify quick tour

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 Bioinformatics

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: analysing and exploring metagenomics data

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

IUPHAR/BPS Guide to Pharmacology online tutorial

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

Hands-on workshop in Marine Metagenomics

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 data analysis

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

Text-mining exercises

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

Metagenomics 2015

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

TGAC Metagenomics: From bench to data analysis

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

Scientific topics: Metagenomics

Keywords: DNA RNA