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Full R Bioconductor Training

Embark on an insightful venture into the captivating world of genomics and bioinformatics with our Full R Bioconductor Training. Designed meticulously for professionals and enthusiasts alike, this course deep dives into a plethora of key genomic analysis techniques. From the fundamentals of DNA Blast and the intricacies of sequencing using Bioconductor, to the adept extraction of data from the NCBI, participants will garner a holistic understanding of the R Bioconductor environment and its applications.

Bioinformatics is central to modern genomic research, and mastering the R Bioconductor platform is paramount for in-depth genomic data analysis. This training program elucidates advanced topics such as databases in Bioconductor, microarray analysis, next-generation sequencing (NGS) analysis, and the comprehensive study of proteins. With Tertiary Courses, step confidently into the expansive domain of genomics, fully equipped with the knowledge and skills to lead pioneering research in bioinformatics.

Certificate

All participants will receive a Certificate of Completion from Tertiary Courses after achieved at least 75% attendance.

Funding and Grant

HRD Corp Claimable Course for Employers Registered with HRD Corp

HRDF claimable

Course Code: M570

Course Booking

MYR2,000.00

Course Date

Course Time

* Required Fields

Post-Course Support

We provide free consultation related to the subject matter after the course. Please email your queries to sales@tertiarycourses.com.my and we will forward your queries to the subject matter experts and get back to you asap.

Course Cancellation/Reschedule Policy

We reserve the right to cancel or re-schedule the course due to unforeseen circumstances. If the course is cancelled, we will refund 100% to participants.
Note the venue of the training is subject to changes due to class size and availability of the classroom.
Note the minimal class size to start a class is 3 Pax.


Course Details

Day 1

Topic 1 : Introduction to bioinformatics

  • What is bioinformatics
  • Types of online databases and online tools
  • Genomics resources
  • Protenomics resources


Topic 2 : Introduction to bioConductor

  • BioConductor Website
  • installing BioConductor in R
  • Bioconductor packages, vignettes, tutorials
  • Bioconductor datasets(biocViews)

Topic 3 : Databases in BioConductor

  • Annotation Hub
  • biomarts (online biomarts)
  • Genomic (full genomes)
  • GEOquery (NCBI Gene expression Omnibus) & ArrayExpress
  • KEGG (Kyto Encyclopedia for Genes and Genomes)
  • Gene libraries

Topic 4 : Data files in BioConductor

  • Data containers
  • Importing data types
  • Downloading DNA
  • Manipulating DNA

Topic 5: DNA Blast

  • NCBI blast 
  • Gene sequence blast
  • Protein blast

Topic 6 : Ranges into BioConductor

  • Iranges
  • Granges
  • Granges plotting
  • Granges w genes

Day 2

Topic 7: Visualizing Data in BioConductor

  • Visualizing genomic features
  • Visualizing DNA content
  • Visualizing gene expression

Topic 8: Microarray Analysis

  • Expression sets 
  • Exploratory data analysis
  • Clustering
  • Linear Regression

Topic 9: NGS Analysis

  • Working with shortread data
  • Filtering sequences
  • Matching and counting
  • Visualizing NGS

Topic 10: Protein Analysis

  • Read Fasta file
  • Amino acid count
  • Compute isoelectric and Mw
  • Hydropathy scores

Topic 11: Visualizing Genomes

  • ggbio package
  • Visualizing karyograms
  • Visualizing reference track
  • Visualizing ideogram
  • gvis package
  • genomegraphs package

Course Info

Prerequisite:

This is an intermediate course. the following basic knowledge is assumed

Software Requirement:

Pls download and install the following software prior to the class

HRDF Funding

Please refer to this video https://youtu.be/Kzpd-V1F9Xs

1-     HRD Corp Grant Helper

How to submit grant applications for HRD Corp Claimable Courses

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Second, Click Application

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5-     Click Apply Grant on the left side under Applications

6-     Click Apply

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The application status will be updated via the employer’s dashboard, email, and the e-TRiS inbox.

Job Roles

  • Life Science Workers
  • Bioinformatics Analysts

Trainers

Ghazaleh Babanejad: Ghazaleh Babanejad has received her Ph.D from University Putra Malaysia in Faculty of Computer ‎Science and Information Technology. She is working on recommender systems in the ‎field of skyline queries over Dynamic and Incomplete databases for her PhD thesis. She is also working ‎on Data Science field as a trainer and Data Scientist. She worked on Machine Learning and Process ‎ Mining projects. She also has several international certificates in Practical Machine Learning (John ‎Hopkins University) Mining Massive Datasets (Stanford University), Process Mining (Eindhoven ‎University), Hadoop (University of San Diego), MongoDB for DBAs (MongoDB Inc) and some other ‎certificates. She has more than 5 years of experience as a lecturer and database administrator.

Mostafa: Mostafa has more than 5 years’ experience in teaching mathematics and statistics. His main teaching interests are statistical topics such as descriptive analysis and basic data modeling, regression analysis, design of experiment, non-parametric methods, and statistical software such as SAS, R, SPSS, and Minitab. He has started computer programming using visual basics and C++ around 15 years ago, and he has more than 10 years’ experience in programming using R.

Juv Chan: Juv Chan is a Senior Developer of Azure Marketplace and Product Engineering at Sitecore, Malaysia. He is an expert in cloud computing. He was recognised as Microsoft Most Valuable Professional (MVP) in the Microsoft Azure category in 2016 and 2017. He achieved the Grand Prize Winner in Developer Category of Microsoft Influencer Hero Competition 2015 Regional (Asia Pacific). In Angelhack Kuala Lumpur 2016, the largest angel hack hackathon in 2016 globally, he achieved 2nd Prize Winner in the Big Data Analytics Challenge as the team lead. He was a Top 3% Contributor (Azure tags) on StackOverflow in 2016.

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