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Hands-on Training in Oxford Nanopore Sequencing for Metagenomic Applications (3CME hours-in person)
Hands-on Training in Oxford Nanopore Sequencing for Metagenomic Applications (3CME hours-in person) ر.س500.00
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Data Analysis in Human Microbiome Research (Online)

ر.س400.00

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التصنيف:
الوصف

Instructor: Dr.Chang Li

Format: Online | Day:11 /10/2026 |Time: 1 pm

Limited Seats Available – Register Early!

Purpose:This hands-on workshop introduces participants to key concepts and practical tools for analysing microbiome data. Through interactive sessions, participants will explore real datasets and develop practical bioinformatics skills.

Learning Objectives:

  • Gain a foundational understanding of how data analysis supports discoveries in microbial ecology, human health, and disease
  • Develop skills in pre-processing, normalising, and visualising microbiome datasets using bioinformatics tools
  • Discover how to identify and interpret associations between microbial community structures and health-related variables

Expected Outcomes:

  • Build basic bioinformatics skills for analysing real microbiome datasets
  • Gain the ability to interpret complex microbial community patterns and their biological significance
  • Understand the challenges, limitations, and emerging trends in microbiome data analysis

Speaker Biography:

Dr.Chang Li
Postdoctoral researcher and bioinformatics scientist with 8+ years of experience turning large-scale sequencing data into clear biological
and practical insights. Chang has worked across pathogen genomics, clinical metagenomics, RNA-seq/transcriptomics, comparative
genomics, genome assembly, and genomic epidemiology. Her work supports pathogen detection, infectious disease surveillance,
outbreak investigation, antimicrobial-resistance and virulence analysis, and genomics-guided diagnostic development

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متطلبات الورشة

Workshop Requirements

 Required software

Required: R and RStudio Desktop. R is the analysis environment; RStudio provides an easier interface for running the workshop scripts.
Software Recommendation Purpose
R R 4.3 or later Statistical analysis and visualization
RStudio Desktop Latest available version Interface for running R scripts
Web browser Chrome / Edge / Safari Access workshop materials and online resources
No local installation of QIIME 2, Kraken2, Bracken, Bowtie2, HUMAnN, MetaPhlAn, or other large bioinformatics pipelines/databases is required.

Install the R packages before the workshop

Open RStudio, copy the code below into the Console, and press Enter. Installation only needs to be completed once.
install.packages(c(
 "tidyverse",
 "vegan",
 "pheatmap"
))

if (!requireNamespace("BiocManager", quietly = TRUE))
 install.packages("BiocManager")

BiocManager::install(c(
 "phyloseq"
))

  What we will do during the hands-on session

16S rRNA sequencing — Work with prepared ASV/taxonomy and metadata tables to explore microbial composition, alpha diversity, beta diversity, group differences, and biological interpretation.
Shotgun metagenomics (meta-DNA) — Work with prepared Kraken2 taxonomic classification results to visualize microbial composition at different taxonomic levels and explore a pathogen-discovery example. Participants will learn how to identify and evaluate potential pathogens from metagenomic profiles.
Metatranscriptomics (meta-RNA) — Work with prepared Kraken2 taxonomic classification results from RNA sequencing data to visualize transcriptionally represented microbial communities at the species level and compare microbial profiles between meta-DNA and met-RNA from the same sample.

   Files that will be provided

Workshop datasets and R scripts will be provided at the session. The exercises will use small, prepared files suitable for a standard laptop, for example:
 16S: ASV abundance table, taxonomy table, and sample metadata•
• Meta-DNA: species-level classification / pathogen-candidate table and supporting metadata
• Meta-RNA: species-level abundance or transcript-profile table and  sample metadata
 R scripts or R Markdown files used during the exercises•

Quick pre-workshop check

 R opens successfully•
 RStudio opens successfully•
The package-installation commands above complete without errors•
Important: The workshop is designed around analytical logic and biological interpretation rather than installation of computationally intensive microbiome pipelines. Raw-read processing steps will be explained or demonstrated where relevant.