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Getting Started with Data Science for Biologists

Hello, visitor! If you are wondering how to get started with computational biology, you have come to the right place. This is where you will find the courses, projects, and programs that will set you on track to learn and apply biomedical data in your research. To view the full path on getting started, explore the links below or go to the learn portal link and get started!

What is Omics Logic?

A Growing Community of Students, Experts, and Mentors

Our community leverages publicly available data, online tools for big data analysis, and a network of mentors to help students learn bioinformatics, apply their skills to meaningful research projects and work with mentors on turning their projects into publications or research posters. The programs we offer provide training, access to high-quality tutorials, and tools anyone can learn to use independently. The program is offered at university, high school or community college levels as well as directly to citizen scientists around the world.

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Introduction to Big Data Bioinformatics - Nepal – 2

Register here to get yourself started with Basics in Bioinformatics Training and Research

Scroll down to learn more about the collaboration and the training structure of the Crescent University Abeokuta - OmicsLogic Training & Research Fellowship Program

OmicsLogic Africa

Crescent University Management and Staff. L-R - HOD Chemical Science - Dr. Sulaiman, Community Engagement Manager for OmicsLogic Africa (OA) – Ayanfeoluwa Alabetutu, the Vice-Chancellor Prof Gbajabiamila, Program Director for OA – Adeluwoye Adekunle, Director of Academic Planning for Crescent University & Growth Ambassador for OA – Oyelami Oluwaseun

Crescent University, an Islamic, non-sectarian and co-educational institution. Standing for scholarship, service, and character, Crescent is the pioneer Islamic University in Nigerian and was established in 2005. With a mission to develop world-class human resources to meet global development challenges; the university offers courses in Business, Banking, Accounting, Economics, and Actuarial Sciences, Mass Communication, Chemical Sciences, Biological Sciences, Political Science as well as Information and Communication Technology.

Through our research center, our faculty members are involved in studies that support policy making for national development often in collaboration with renowned international institutions. There are currently a number of Nigerian and international institutions that hold affiliations with Crescent University. As a leader in tertiary education, we plan to establish several link agreements with universities in Africa, Europe, the Middle East, Asia, and North America for students, faculty, and staff exchanges as well as collaborative research.

Program Syllabus : Introduction to Bioinformatics & Big Data Analysis

SESSION TITLE DESCRIPTION
Session 1

 

Introduction to Next Generation Sequencing, Big Data in Biomedical Research, and Program Resources/Tools

  • Introduction to next-generation sequencing, Data-driven research and discovery, Rapid growth of high-throughput data, and omics technologies. 
  • Introduction and commencement of the program
  • Overview of the tools and resources for this program -
  • Omics Logic Learn courses, projects, and profile demonstration
  • T-BioInfo Analytics Platform

Associated online resources:
Session 2

 

 Introduction to Genomics, Mapping, and Sequence Visualization

  • Next-generation Sequencing: Shotgun sequencing reads, the need for structured data and associated bioinformatics methods: processing (germline and somatic mutations), analysis (mapping, detecting variants), and interpretation (significant and insignificant mutations, etc.), mapping to reference genomes, and sequence visualization.

  • Logical steps for Genomic Data Analysis and associated Algorithms - Analysis with Integrative Genomics Viewer.

Associated online resources:
Metagenomics (1)

 

Introduction to Metagenomics

  • Learn about History & Significance of 16s rRNA in Metagenomics
  • 16S Metagenomic Sequencing Library Preparation
  • (Overview): Sample collection and preparation, DNA extraction, 16S rRNA bacterial Amplification, library generation: amplicon PCR, Overview of metagenomics sections in the platform

Associated online resources:
Session 4

 

 Introduction to Transcriptomics: Gene Expression data analysis
  • How we can measure functional proteins by the way of mRNA abundance, and accurate identification of alternative splicing: an overview of RNA-seq.
  • Read quality and mapping on reference genome using various tactics (alignment and alignment-free quantification)
  • Common sources of unwanted technical variation - Pre-processing steps, filtering and cleaning the table of expression.
  • Analysis logic: from raw reads to a table of expression (RNA-seq example)
  • Quantification of genes and transcripts.

Associated online resources:
Session 5

 
Introduction to Biomedical Data Science and Exemplar Bioinformatics Project
  • Introduction to Machine Learning - Types of Machine Learning methods
  • Overview of unsupervised machine learning methods - Finding patterns and similarities in data
  • Principal Component Analysis (PCA) Hierarchical and K-means clustering.
  • Practical coursework and exemplar projects in cancer, neuroscience, agriculture, biotechnology, and infectious diseases
  • Developing your own project.

Associated online resources:

 

Are you ready to get started? Then the wait is over, now you can simply register and start working towards your goals. Below you will find directions in 3 simple steps. If you need help, simply reach out to our team who will be happy to assist you along the way.

STEP 1: Register and Get Started

All you need to get started is an account on learn.omicslogic.com.

Once the account is set up, you can complete it by updating your profile picture and a brief statement about your background and goals. If you are not comfortable uploading your own picture, you can upload your university/organization logo or emblem. 

Make sure you update your name in the proper format: First and Last Name should be spelled as you want them to show up on your certificates. You can also link your account to social media. 

On your profile, you will find access to all of the Omics Logic courses, programs and resources. Once you complete a course, you can access the certificates by clicking on certificate option under profile section. 

OmicsLogic profile set up

Profile-points

STEP 2 - Complete Basic Training

To get your starter qualifications, you must learn about the basics of bioinformatics, completing at least 3 basic modules. These will introduce you to the terminology and applications of bioinformatics in healthcare, biotechnology, pharmacy and agriculture. 

As you complete each step, lesson or assignment, you will start accumulating points under your profile. The objective is to get to at least 3000 points that will be used as a qualification for you to proceed to the next stage.

To view your points and see what each activity amounts to, simply visit your profile or check the course description. The rule of thumb is that each course adds up to about 600-1000 points: 500 for completing a course, 50 for completing each lesson and 10 for completing an assignment or quiz.

BASIC TRAINING MODULES

 (Earn up to 3500 POINTS)

Omics Logic Introduction to Bioinformatics

Introduction to Bioinformatics

This is an introductory course that covers the topics of big data bioinformatics and its uses in basic research, healthcare, and the biotech and pharmaceutical industries. This course is designed to introduce undergraduate and graduate-level students in biology. Total points: 650

Omics Logic Bytes and Molecules

A Beginner's Guide: Bytes and Molecules

Every living cell has its own “hard drive” where it stores bytes of information needed to function and grow. This course is intended for all those interested in understanding how the current revolution in biomedical data impacts biomedical research and human health. Total points: 750

Designing a bioinformatics research project-3

Bioinformatics Research Project Design

In this course, you will learn how to identify a research topic, perform literature review to refine it and find a dataset for your project and translate ideas into an analysis plan that you can execute. After that, you will also learn about project presentation, writing and final submission. Total points: 500

Evaluation and Specialization

After you complete the basics, it is time to decide what you want to specialize in. You can explore various tracks to get familiar with technical skills and research topics in bioinformatics. To continue with training, you can choose between several options, like analysis of special types of data (genomics, transcriptomics, metagenomics, epigenomics, etc.) using the T-BioInfo platform, get training in data science using R and Python, or specialize in a topic like oncology, neuroscience or agriculture. Each track is available as a monthly subscription or mentor-guided program with weekly sessions that you can attend online.

Intermediate Coursework (2000-10000 POINTS)

The Omics Logic curriculum follows a project-based, student-centered learning model. Introductory courses are divided into modules based on beginner, intermediate and advanced levels. The application of analytical methods is illustrated in projects that can be adapted for personalized, inquiry-based research experiences. Basic training in various omics-technologies, methods of statistical analysis, and data science skills are offered as interactive tutorials with practical assignments.

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Specialized Courses & Projects (10,000-30,000 POINTS)

OmicsLogic specialized courses & projects are designed for a more in-depth review and preparation for independent research. These specialized example projects will help you apply the concepts & methodologies learnt in the course work to a real life research problem. This will help you propose your own research problem and come up with your own project design. 

Certification

After you complete the training and specialization, you are expected to have over 10,000 points on your profile. By this time, you should also have the necessary skills to think critically about various types of data, identify important research questions that can be answered with bioinformatics and have the necessary skills to analyze data, finding answers. As a valued expert, you can now work with our team and faculty from various research fields to participate in a research project! 

STEP 3 - Qualification Exam

After your technical qualification, our team will offer you a qualification exam to test your proficiency in bioinformatics and evaluate your critical thinking skills. After completing this step, you will be able to join  the Research Fellowship Program to work with a mentor on a research project.

As a part of this review, faculty would be reviewing your OmicsLogic Learn profile and examination results. After successful review, each student will be assigned with a research topics based on their interest and available faculty projects. Together with an expert mentor, student groups will complete a project within several months (3 or 6 months commitment options). At the end, top projects will be selected for publication, poster presentations and expert review from academia and industry partners.

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OmicsLogic Research Fellowship

STEP 4 - RESEARCH FELLOWSHIP (RF)

The research fellowship program is designed to provide support and guidance on the development of an independent research project within a given timeframe (2-3-6 months). The eligibility criteria to join the research fellowship program is 10,000 points on learn omicslogic. During the RF program, participants meet on a weekly basis to share their progress and get feedback from the program coordinators. They can also request one-on-one sessions with a mentor on a weekly basis or meet in smaller focus groups.

The Bioinformatics fellowship is a structured program that guides students through various areas of Big Data Bioinformatics Research using practical examples to develop a Bioinformatics Project using Big Data.

Graduation

At the end of the process, you are guaranteed to have excellent outcomes that will make you stand out from the crowd and advance your skills in a meaningful way. Not only will you have gained training, experience, and exposure to the world of computational biology, but you will also have a project that you can show to a potential employer or an entry interview for a research position. While many achieve this stage only in advanced degrees after many years of struggling, you will be able to achieve one of the following outcomes in a short time with the help of this streamlined asynchronous training.

Outcome 1 - Systematic Literature Review 

The literature review surveys scholarly articles, books, and other sources relevant to a particular area of research. The review should enumerate, describe, summarize, objectively evaluate and clarify this previous research. Knowing how to perform a comprehensive and systematic review is important in many areas, both in academia and industry. Completing a project using literature review might include:

  • Reviewing current research and identifying unanswered questions
  • Finding datasets to use for exploratory analysis and generating a hypothesis
  • Reviewing methods applied to answer specific questions
Literature Review – 1
Presenting Project

Outcome 3 - Publishing a Research Article

Once your research project is complete and submitted on the portal, a research fellow can then proceed with publishing their work in scientific journals. To achieve this step, it typically requires a longer timeframe, but will be possible with an Omics Logic Mentor that will guide the research fellow through this process. The drafts will be reviewed for editing and feedback to improve the manuscript. The benefits of publishing a peer-reviewed research article include:

  • Exposure in journals dedicated to a specific research domain
  • Real research experience required in many academic positions
  • Novel findings and critical review by the academic community

Outcome 2 - Presenting a Poster for Feedback

After completing a research project and submitting it on the Omics Logic portal, you can get expert feedback and showcase your project in poster competitions and the Omics Research Symposium. This outcome provides you with exposure and allows you to showcase your achievements to an international community of experts that will help you revise and polish a project for publication or inclusion in your resume. Benefits of a research project include:

  • Demonstration of a completed research undertaking
  • Explanation of methods in the context of a project
  • Experience inter-disciplinary collaboration in a research area
Research Collaboration

Research Work by Omicslogic Research Fellows

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