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58 materials found

Keywords: Exploratory-analysis  or metagenomics  or Roslin Institute  or John Innes Centre 


Phylogenetics & Phylogeography (Advanced Analytical Methods)

Phylogenetics and Phylogeography(Advanced Analytical Methods) Lecture by Dr Sam Lycett, filmed at The Roslin Institute, March 2015.

Keywords: Phylogenetics, Roslin Institute

Phylogenetics & Phylogeography (Advanced Analytical Methods) https://tess.elixir-europe.org/materials/phylogenetics-phylogeography-advanced-analytical-methods Phylogenetics and Phylogeography(Advanced Analytical Methods) Lecture by Dr Sam Lycett, filmed at The Roslin Institute, March 2015. Phylogenetics, Roslin Institute
Molecular epidemiology practical

Practical session with Dr. Emily Richardson, filmed at The Roslin Institute, March 2015.

Keywords: Molecular epidemiology, Roslin Institute

Molecular epidemiology practical https://tess.elixir-europe.org/materials/molecular-epidemiology-practical Practical session with Dr. Emily Richardson, filmed at The Roslin Institute, March 2015. Molecular epidemiology, Roslin Institute
Phylogenetic analysis of pathogens: Staphylococcus aureus, host switching and antibiotic resistance

Lecture by professor Ross Fitzgerald, filmed at The Roslin Institute, March 2015.

Keywords: Phylogenetic analysis, Roslin Institute

Phylogenetic analysis of pathogens: Staphylococcus aureus, host switching and antibiotic resistance https://tess.elixir-europe.org/materials/phylogenetic-analysis-of-pathogens-staphylococcus-aureus-host-switching-and-antibiotic-resistance Lecture by professor Ross Fitzgerald, filmed at The Roslin Institute, March 2015. Phylogenetic analysis, Roslin Institute
Graphical & Computational Modelling of Biological Pathways

Lecture by professor Tom Freeman. Filmed at The Roslin Institute, The University of Edinburgh, March 2015

Keywords: Graphical modelling, Roslin Institute

Graphical & Computational Modelling of Biological Pathways https://tess.elixir-europe.org/materials/graphical-computational-modelling-of-biological-pathways-d0b38ce1-0e2e-4ba9-9e0c-39c6af558782 Lecture by professor Tom Freeman. Filmed at The Roslin Institute, The University of Edinburgh, March 2015 Graphical modelling, Roslin Institute
An Introduction to BioLayout Express3D

Lecture by professor Tom Freeman. Filmed during a half-day training course held at The Roslin Institute, January 2015, aimed at training biologists with little or no experience of gene expression analysis the basics. Features 15 short films covering the background to data generation through to...

Keywords: Gene expression analysis, Roslin Institute

An Introduction to BioLayout Express3D https://tess.elixir-europe.org/materials/an-introduction-to-biolayout-express3d Lecture by professor Tom Freeman. Filmed during a half-day training course held at The Roslin Institute, January 2015, aimed at training biologists with little or no experience of gene expression analysis the basics. Features 15 short films covering the background to data generation through to deriving meaning using network analysis. - Course aims: the basics of expression data analysis introduction to graph-based analysis introduction to BioLayout Express3D data import navigation of graphs clustering graph analysis data export Gene expression analysis, Roslin Institute
Phylogenetics & Phylogeography Practical (Advanced Analytical Methods)

Practical session with Dr Sam Lycett, filmed at The Roslin Institute, March 2015.

Keywords: Phylogenetics, Phylogeography, Roslin Institute

Phylogenetics & Phylogeography Practical (Advanced Analytical Methods) https://tess.elixir-europe.org/materials/phylogenetics-phylogeography-practical-advanced-analytical-methods Practical session with Dr Sam Lycett, filmed at The Roslin Institute, March 2015. Phylogenetics, Phylogeography, Roslin Institute
Graphical & Computational Modelling of Biological Pathways

Lecture by professor Tom Freeman. Filmed at The Roslin Institute, The University of Edinburgh, March 2015

Keywords: Graphical modelling, Computational modelling, Roslin Institute

Graphical & Computational Modelling of Biological Pathways https://tess.elixir-europe.org/materials/graphical-computational-modelling-of-biological-pathways Lecture by professor Tom Freeman. Filmed at The Roslin Institute, The University of Edinburgh, March 2015 Graphical modelling, Computational modelling, Roslin Institute
SAS Introduction

Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, April 2015. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute.

Keywords: SAS, Roslin Institute

SAS Introduction https://tess.elixir-europe.org/materials/sas-introduction Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, April 2015. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute. SAS, Roslin Institute
A Brief Introduction to R

A short training session with Dr. Ian Handel at The Roslin Institute, April 2015

Keywords: R language, Roslin Institute

A Brief Introduction to R https://tess.elixir-europe.org/materials/a-brief-introduction-to-r A short training session with Dr. Ian Handel at The Roslin Institute, April 2015 R language, Roslin Institute
Summarising Data

Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, December 2015. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute.

Keywords: Summarising data, Roslin Institute

Summarising Data https://tess.elixir-europe.org/materials/summarising-data Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, December 2015. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute. Summarising data, Roslin Institute
Basic Statistical Tests

Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, December 2015. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute.

Keywords: Statistical tests, Roslin Institute

Basic Statistical Tests https://tess.elixir-europe.org/materials/basic-statistical-tests Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, December 2015. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute. Statistical tests, Roslin Institute
Introduction to Experimental Design

Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, January 2016. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute.

Keywords: Experimental design, Roslin Institute

Introduction to Experimental Design https://tess.elixir-europe.org/materials/introduction-to-experimental-design Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, January 2016. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute. Experimental design, Roslin Institute
Introduction to Sample Size Calculation

Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, January 2016. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute. A spreadsheet...

Keywords: Sample size, Roslin Institute

Introduction to Sample Size Calculation https://tess.elixir-europe.org/materials/introduction-to-sample-size-calculation Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, January 2016. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute. A spreadsheet to carry out the calculations described in the presentation may be copied here: http://datashare.is.ed.ac.uk/handle/10283/1996 Sample size, Roslin Institute
Introduction to Statistical Modelling

Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, December 2015. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute.

Keywords: Statistical modelling, Roslin Institute

Introduction to Statistical Modelling https://tess.elixir-europe.org/materials/introduction-to-statistical-modelling Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, December 2015. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute. Statistical modelling, Roslin Institute
Introduction to Mixed Models

Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, March 2016. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute.

Keywords: Mixed models, Roslin Institute

Introduction to Mixed Models https://tess.elixir-europe.org/materials/introduction-to-mixed-models Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, March 2016. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute. Mixed models, Roslin Institute
Introduction to Analysing Repeated Measures Data

Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, March 2016. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute.

Keywords: Data analysis, Repeated measures, Roslin Institute

Introduction to Analysing Repeated Measures Data https://tess.elixir-europe.org/materials/introduction-to-analysing-repeated-measures-data Training session with Dr Helen Brown, Senior Statistician, at The Roslin Institute, March 2016. These training sessions were given to staff and research students at the Roslin Institute. The material is also used for the Animal Biosciences MSc course taught at the Institute. Data analysis, Repeated measures, Roslin Institute
Introduction to ChIP-Seq Using Galaxy: Analysing protein interactions with DNA

ChIP-sequencing, also known as ChIP-Seq, is a powerful technique for investigating protein interactions with DNA. This course will take you through an example ChIP-Seq analysis pipeline, following a published methodology to show how we can understand and reproduce these published results.

Scientific topics: ChIP-seq

Keywords: Roslin Institute

Introduction to ChIP-Seq Using Galaxy: Analysing protein interactions with DNA https://tess.elixir-europe.org/materials/introduction-to-chip-seq-using-galaxy-analysing-protein-interactions-with-dna ChIP-sequencing, also known as ChIP-Seq, is a powerful technique for investigating protein interactions with DNA. This course will take you through an example ChIP-Seq analysis pipeline, following a published methodology to show how we can understand and reproduce these published results. ChIP-seq Roslin Institute Any student, postdoc or RA who has an interest in bioinformatics and who intends to conduct ChIP-Seq analysis on a Galaxy platform.
Introduction to Linux: The operating system for bioinformatics

Linux is the operating system of high performance clusters and supercomputers all over the world. Learning to use Linux is a key part of making use of cutting edge bioinformatics tools. This course provides an extensive introduction to Linux, covering both basic and advanced use.

Keywords: John Innes Centre, JIC

Introduction to Linux: The operating system for bioinformatics https://tess.elixir-europe.org/materials/introduction-to-linux-the-operating-system-for-bioinformatics Linux is the operating system of high performance clusters and supercomputers all over the world. Learning to use Linux is a key part of making use of cutting edge bioinformatics tools. This course provides an extensive introduction to Linux, covering both basic and advanced use. John Innes Centre, JIC Any students, postdocs or RAs who have an interest in bioinformatics and who intend to conduct their own analyses on a Linux platform. Those intending to register for the upcoming Introduction to HPC course are very strongly encouraged to attend this short (two morning) course and it should be seen as a prerequisite for later courses to be offered on ChIP-Seq analysis and command line/Galaxy implementations of NGS workflows.
Python for Biologists: Programming for Scientific Computing

Python is a flexible programming language that is becoming increasingly popular for scientific computing. This course will give you a basic introduciton in how to use Python. The course will work towards a script for parsing FASTA files and calculating the GC-content of DNA sequences.

Scientific topics: Software engineering

Keywords: Python for Biologists, John Innes Centre, JIC

Python for Biologists: Programming for Scientific Computing https://tess.elixir-europe.org/materials/python-for-biologists-programming-for-scientific-computing Python is a flexible programming language that is becoming increasingly popular for scientific computing. This course will give you a basic introduciton in how to use Python. The course will work towards a script for parsing FASTA files and calculating the GC-content of DNA sequences. Software engineering Python for Biologists, John Innes Centre, JIC For beginners interested in using Python to solve problems in Biology.
Introduction to R: A software environment for statistical computing

R is a free software environment for statistical computing and graphics. It is widely used in scientific data analysis. R is a great tool for biologists, since it provides cutting edge statistical techniques, excellent graph and figure plotting capabilities and bioinformatics tools all in one...

Scientific topics: Software engineering, Statistics and probability

Keywords: John Innes Centre, JIC

Introduction to R: A software environment for statistical computing https://tess.elixir-europe.org/materials/introduction-to-r-a-software-environment-for-statistical-computing R is a free software environment for statistical computing and graphics. It is widely used in scientific data analysis. R is a great tool for biologists, since it provides cutting edge statistical techniques, excellent graph and figure plotting capabilities and bioinformatics tools all in one package. Software engineering Statistics and probability John Innes Centre, JIC Any students, postdocs or RAs who have an interest in bioinformatics and who intend to carry out statistical analysis of their experimental data using R. This two day course is planned to be a very gentle introduction to the very basic concepts of R.
Introduction to Perl: Programming for bioinformatics

Perl is a powerful programming language that is heavily used in the bioinformatics community. This course will provide a full introduction to the basics of Perl, as well as how to carry out common bioinformatics tasks.

Scientific topics: Software engineering

Keywords: perl, John Innes Centre, JIC

Introduction to Perl: Programming for bioinformatics https://tess.elixir-europe.org/materials/introduction-to-perl Perl is a powerful programming language that is heavily used in the bioinformatics community. This course will provide a full introduction to the basics of Perl, as well as how to carry out common bioinformatics tasks. Software engineering perl, John Innes Centre, JIC Any students, postdocs or RAs who have an interest in programming and who intend to carry out computational analysis of their experimental data. Perl is often used for preparing input files for more specialized software such as R, and also to post-process the output from R and various other bioinformatics tools. It is a glue language allowing you to build pipelines of analyses of arbitrary complexity. This two day course is planned to be a gentle introduction to the basic concepts of Perl and will also introduce you to the BioPerl library of modules.
Computational Bioimaging: From images to data

Bioimaging is a rich source of data in biology. However, quantifying those data requires a strong understanding of the correct computational techniques. This course provides an introduction to those techniques, with a focus on transforming raw data from microscopes into meaningful information...

Scientific topics: Imaging, Biological imaging

Keywords: John Innes Centre, JIC

Computational Bioimaging: From images to data https://tess.elixir-europe.org/materials/computational-bioimaging Bioimaging is a rich source of data in biology. However, quantifying those data requires a strong understanding of the correct computational techniques. This course provides an introduction to those techniques, with a focus on transforming raw data from microscopes into meaningful information about the systems studied. Imaging Biological imaging John Innes Centre, JIC Those interesting in exploring the data contained in their microscopy images, or those planning microscopy as part of their research programme
Introduction to RNA-Seq Using Galaxy: Studying the transcriptome

RNA-Seq provides a method for understanding transcriptional dynamics in biological systems. It has immense power to enhance our understanding of those systems, but carrying out RNA-Seq analysis requires use of multiple related software packages. This hands-on course provides experience in using...

Scientific topics: RNA, RNA-Seq

Keywords: John Innes Centre, JIC

Introduction to RNA-Seq Using Galaxy: Studying the transcriptome https://tess.elixir-europe.org/materials/introduction-to-rna-seq-using-galaxy RNA-Seq provides a method for understanding transcriptional dynamics in biological systems. It has immense power to enhance our understanding of those systems, but carrying out RNA-Seq analysis requires use of multiple related software packages. This hands-on course provides experience in using these packages as part of an RNA-Seq analysis pipeline. RNA RNA-Seq John Innes Centre, JIC Students, postdocs or RAs who have an interest in bioinformatics and who intend to conduct RNA-Seq analysis on a Galaxy platform
Galaxy for NGS analysis: A web-based platform for data intensive biological research

Galaxy is an open, web-based platform for data intensive biomedical research. It offers an accessible, reproducible and transparent computational workbench for the biologist. This workbench is very useful in automating repeated analysis steps in the form of workflows. The workbench interface is...

Scientific topics: Workflows, High-throughput sequencing, Nucleic acid sequence analysis, Bioinformatics

Keywords: John Innes Centre, JIC

Galaxy for NGS analysis: A web-based platform for data intensive biological research https://tess.elixir-europe.org/materials/galaxy-for-ngs-analysis Galaxy is an open, web-based platform for data intensive biomedical research. It offers an accessible, reproducible and transparent computational workbench for the biologist. This workbench is very useful in automating repeated analysis steps in the form of workflows. The workbench interface is simple and intuitive, supports collaboration and integrates data and analysis tools together in a single place. Workflows High-throughput sequencing Nucleic acid sequence analysis Bioinformatics John Innes Centre, JIC
Who is doing what on the cheese surface? Overview of the cheese microbial ecosystem functioning by metatranscriptomic analyses

Cheese ripening is a complex biochemical process driven by microbial communities composed of both eukaryotes and prokaryotes. Surface-ripened cheeses are widely consumed all over the world and are appreciated for their characteristic flavor. Microbial community composition has been studied for a...

Keywords: metagenomics

Who is doing what on the cheese surface? Overview of the cheese microbial ecosystem functioning by metatranscriptomic analyses https://tess.elixir-europe.org/materials/who-is-doing-what-on-the-cheese-surface-overview-of-the-cheese-microbial-ecosystem-functioning-by-metatranscriptomic-analyses-55c4b5d0-ba6e-4ae0-879f-7bc27c10b3eb Cheese ripening is a complex biochemical process driven by microbial communities composed of both eukaryotes and prokaryotes. Surface-ripened cheeses are widely consumed all over the world and are appreciated for their characteristic flavor. Microbial community composition has been studied for a long time on surface-ripened cheeses, but only limited knowledge has been acquired about its in situ metabolic activities. We used an iterative sensory procedure to select a simplified microbial consortium, composed of only nine species (three yeasts and six bacteria), producing the odor of Livarot-type cheese when inoculated in a sterile cheese curd. All the genomes were sequenced in order to determine the functional capacities of the different species and facilitate RNA-Seq data analyses. We followed the ripening process of experimental cheeses made using this consortium during four weeks, by metatranscriptomic and biochemical analyses. By combining all of the data, we were able to obtain an overview of the cheese maturation process and to better understand the metabolic activities of the different community members and their possible interactions. We next applied the same approach to investigate the activity of the microorganisms in real cheeses, namely Reblochon-style cheeses. This provided useful insights into the physiological changes that occur during cheese ripening, such as changes in energy substrates, anabolic reactions, or stresses. metagenomics 2016-12-15 2017-01-11
Soil metagenomics, potential and pitfalls

The soil microorganisms are responsible for a range of critical functions including those that directly affect our quality of life (e.g., antibiotic production and resistance – human and animal health, nitrogen fixation -agriculture, pollutant degradation – environmental bioremediation)....

Keywords: metagenomics

Soil metagenomics, potential and pitfalls https://tess.elixir-europe.org/materials/soil-metagenomics-potential-and-pitfalls-04d3bb46-36ba-47c0-9993-9c7d0aacad32 The soil microorganisms are responsible for a range of critical functions including those that directly affect our quality of life (e.g., antibiotic production and resistance – human and animal health, nitrogen fixation -agriculture, pollutant degradation – environmental bioremediation). Nevertheless, genome structure information has been restricted by a large extent to a small fraction of cultivated species. This limitation can be circumvented now by modern alternative approaches including metagenomics or single cell genomics. Metagenomics includes the data treatment of DNA sequences from many members of the microbial community, in order to either extract a specific microorganism’s genome sequence or to evaluate the community function based on the relative quantities of different gene families. In my talk I will show how these metagenomic datasets can be used to estimate and compare the functional potential of microbial communities from various environments with a special focus on antibiotic resistance genes. However, metagenomic datasets can also in some cases be partially assembled into longer sequences representing microbial genetic structures for trying to correlate different functions to their co-location on the same genetic structure. I will show how the microbial community composition of a natural grassland soil characterized by extremely high microbial diversity could be managed for sequentially attempt to reconstruct some bacterial genomes. Metagenomics can also be used to exploit the genetic potential of environmental microorganisms. I will present an integrative approach coupling rrs phylochip and high throughput shotgun sequencing to investigate the shift in bacterial community structure and functions after incubation with chitin. In a second step, these functions of potential industrial interest can be discovered by using hybridization of soil metagenomic DNA clones spotted on high density membranes by a mix of oligonucleotide probes designed to target genes encoding for these enzymes. After affiliation of the positive hybridizing spots to the corresponding clones in the metagenomic library the inserts are sequenced, DNA assembled and annotated leading to identify new coding DNA sequences related to genes of interest with a good coverage but a low similarity against closest hits in the databases confirming novelty of the detected and cloned genes. metagenomics 2016-12-16 2017-01-11
Welcome message

Presentation of the workshop (Chairman: Claudine Médigue)

Keywords: metagenomics

Welcome message https://tess.elixir-europe.org/materials/welcome-message-69dc597e-f839-448f-9c9d-3622ddffd592 Presentation of the workshop (Chairman: Claudine Médigue) metagenomics 2016-12-15 2017-01-11
Sequencing 6000 chloroplast genomes : the PhyloAlps project

Biodiversity is now commonly described by DNA based approches. Several actors are currently using DNA to describe biodiversity, and most of the time they use different genetic markers that is hampering an easy sharing of the accumulated knowledges. Taxonomists rely a lot on the DNA Barcoding...

Keywords: metagenomics

Sequencing 6000 chloroplast genomes : the PhyloAlps project https://tess.elixir-europe.org/materials/sequencing-6000-chloroplast-genomes-the-phyloalps-project-a2b30d75-061a-4663-a5b8-593842df23bf Biodiversity is now commonly described by DNA based approches. Several actors are currently using DNA to describe biodiversity, and most of the time they use different genetic markers that is hampering an easy sharing of the accumulated knowledges. Taxonomists rely a lot on the DNA Barcoding initiative, phylogeneticists often prefer markers with better phylogenic properties, and ecologists, with the coming of the DNA metabarcoding, look for a third class of markers easiest to amplify from environmental DNA. Nevertheless they have all the same need of the knowledge accumulated by the others. But having different markers means that the sequecences have been got from different individuals in differente lab, following various protocoles. On that base, building a clean reference database, merging for each species all the available markers becomes a challenge. With the phyloAlps project we implement genome skimming at a large scale and propose it as a new way to set up such universal reference database usable by taxonomists, phylogeneticists, and ecologists. The Phyloalps project is producing for each species of the Alpine flora at least a genome skim composed of six millions of 100bp sequence reads. From such data it is simple to extract all chloroplastic, mitochondrial and nuclear rDNA markers commonely used. Moreover, most of the time we can get access to the complete chloroplast genome sequence and to a shallow sequencing of many nuclear genes. This methodes have already been successfully applied to algeae, insects and others animals. With the new single cell sequencing methods it will be applicable to most of the unicellular organisms. The good question is now : Can we consider the genome skimming as the next-generation DNA barcode ? metagenomics 2016-12-16 2017-01-11
From Samples to Data : Assuring Downstream Analysis with Upstream Planning

Metagenomic studies have gained increasing popularity in the years since the introduction of next generation sequencing. NGS allows for the production of millions of reads for each sample without the intermediate step of cloning. However, just as in the past, the quality of the data generate by...

Keywords: metagenomics

From Samples to Data : Assuring Downstream Analysis with Upstream Planning https://tess.elixir-europe.org/materials/from-samples-to-data-assuring-downstream-analysis-with-upstream-planning-6fac0f49-b453-4c15-a409-9753fb27ee9b Metagenomic studies have gained increasing popularity in the years since the introduction of next generation sequencing. NGS allows for the production of millions of reads for each sample without the intermediate step of cloning. However, just as in the past, the quality of the data generate by this powerful technology depends on sample preparation, library construction and the selection of appropriate sequencing technology and sequencing depth. Here we explore the different variables involved in the process of preparing samples for sequencing analysis including sample collection, DNA extraction and library construction. We also examine the various sequencing technologies deployed for routine metagenomic analysis and considerations for their use in different model systems including humans, mouse and the environment. Future developments such as long-reads will also be discussed to provide a complete picture of important aspects prior to data analyses which play a critical role in the success of metagenomic studies. metagenomics 2017-01-11
Revealing and analyzing microbial networks: from topology to functional behaviors

Understanding the interactions between microbial communities and their environment well enough to be able to predict diversity on the basis of physicochemical parameters is a fundamental pursuit of microbial ecology that still eludes us. However, modeling microbial communities is a complicated...

Keywords: metagenomics

Revealing and analyzing microbial networks: from topology to functional behaviors https://tess.elixir-europe.org/materials/revealing-and-analyzing-microbial-networks-from-topology-to-functional-behaviors-14d83c7f-c5f9-4738-8cd5-42e48a1088f7 Understanding the interactions between microbial communities and their environment well enough to be able to predict diversity on the basis of physicochemical parameters is a fundamental pursuit of microbial ecology that still eludes us. However, modeling microbial communities is a complicated task, because (i) communities are complex, (ii) most are described qualitatively, and (iii) quantitative understanding of the way communities interacts with their surroundings remains incomplete. Within this seminar, we will illustrate two complementary approaches that aim to overcome these points in different manners. metagenomics 2016-12-16 2017-01-11