INTRODUCTION

BDG LifeSciences is a distinguished bioinformatics company established in 2010 and operates globally. Headquartered in India, the company specializes in facilitating workshops, training programs, novel and innovative research projects, and online courses in bioinformatics and life sciences. BDG LifeSciences is registered under the Ministry of MSME (Micro, Small, and Medium Enterprises), Government of India, with the registration number UDYAM-UP-01-0019151. Recently, BDG LifeSciences, India, has authorized BBR Group Pty Ltd., Australia (ACN 608 550 849), to operate its programs in Australia and New Zealand.

With a strong focus on the practical application of technology, BDG LifeSciences provides hands-on training where participants work on their own computers/laptops using specialized software and servers. The company has been a leader in this sector for the last 14 years, successfully educating a diverse range of participants, including students, scientists, faculty members, professors, and corporate executives worldwide.

Innovation & creativity is an integral part of the BDG Lifesciences and we always launch new programs on the newest topics. We have launched a 10-day Technical Hands-on Training Program in Next Generation Sequencing | Spatial Transcriptomics Analysis on Windows, Linux & Mac OS. It will be an extensive 10-day training program in which every day 60 minutes interactive training sessions will be conducted to give the user a unique learning experience. VIDEO RECORDING WILL BE PROVIDED. On successful completion of the course participation certificate will be awarded.

As it is 100% hands-on training program participants will run the processes on their own computer systems having Windows/ Mac/ Linux with a unique learning experience. The program will be of great help to students/ researchers/ faculty/ pathologists/ scientists in learning this latest technology.

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Why This Course is Important

Spatial transcriptomics has become essential for biomedical research, particularly in developmental biology, cancer, immunology, and neuroscience. To understand normal development and disease pathology, it is crucial to understand the relationship between cells and their relative locations within tissues. With the use of spatial transcriptomics, a cutting-edge technique in molecular profiling, researchers may map the locations of all the genes active in a tissue sample and assess each gene's activity. The position of any given cell, relative to its neighbours and non-cellular structures, can provide helpful information for defining cellular phenotype, cell state, and ultimately cell and tissue function. Location can determine the signals to which cells are exposed. Spatial transcriptomics techniques use intact tissue sections, spatial barcoding, or in situ hybridization to retain positional information. Scientists are already using this technology to assist them in comprehending biological processes and diseases since it is yielding fresh findings..

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Research Highlights using Spatial Transcriptomics Analysis

• Immunological Atlas
• Understanding the Tumor Microenvironment
• Examine gene expression in the context of the tissue microenvironment
• Spatially Mapping Diverse Tissues

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Schedule

DAY	MODULE	TOPICS
1	Module 1: Introduction to NGS	NGS overview Evolution of sequencing:1st, 2nd & 3rd generation sequencing High throughput sequencing workflow
2	Module 2: Genomics file format	FASTA,FASTQ,BAM/SAM/CRAM
3	Module 3: Introduction to spatial  transcriptomics	RNA-seq technology overview Single-cell RNA technology overview Spatial transcriptomics overview
4	Module 4: Linux command line and shell scripting	Basic Linux command line Shell scripting basics
5	Module 5:10X Visium  technology	Visium technology 10X data exploration Processing raw 10X Genomics spatial  transcriptomics data Explore the output of Space Ranger
6	Module 6: Seurat Object	Seurat package Installing required packages Exploring raw data (count matrix file) Creating Seurat object Exploring Seurat object structure
7	Module 7:Quality control	Quality control Generation quality control plots
8	Module 8: Integration methods	Batch effect correction Different batch effect correction methods
9	Module 9: Downstream process	Introduction to Normalization Log Normalization, SC Transform PCA
10	Module 10: Clustering and finding marker genes and cell annotation	Clustering Generating UMAP/t-SNE plots Finding cluster biomarkers Marker gene expression profile Generate violin and feature plot Cell annotation

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System Requirement: Any OS (Windows/Mac/Ubuntu) with internet connection

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Pre-requisites

• Mobaxterm if using windows operating system
• Basic knowledge of R.

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Learning Outcome: What will I learn? After this course, you should be able to:

1. Understanding of NGS and spatial transcriptomics
2. Describe the range of sequencing technologies available, their pros and cons, and which you may want to use for your experiments.
3. Understanding of biological data and how to extract information from it
4. Explain the steps in the spatial transcriptomics pipeline
5. Compute and assess QC metrics at every step in the workflow
6. Cluster cells based on expression data and derive the identity of the different cell types present
7. Perform integration of different sample conditions. 
8. Apply differential expression and cell abundance between conditions
9. Repeat the course analysis of spatial transcriptomics on your data to do end-to-end analysis
10. Recognize decision-making steps along the analysis pipeline and justify your decisions, from data exploration to final visualization

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Target Audience

Student & Faculty: Bachelor, Masters, Ph.D., students as well as Faculty and Professors from Microbiology, Biochemistry, Biotechnology, Immunology, Pharmacy, Pharmaceutical Chemistry, Biomedical Technology, Genetics, Bioinformatics, Plant Science and Life Sciences.

Professionals: Biotechnology, Bioinformatics and Pharmaceutical scientists from industry, academia, and regulatory agencies. Hands-on exercises will be performed individually using software tools (no prior experience required).

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How To Register

To secure your spot:

• Click on Register Now button and proceed.
• After registering, please email to [email protected] with your preferred start date and choose one of the following time slots: 7:30 PM–8:30 PM India time or 10:30 PM–11:30 PM India time.
• Once you register, please allow us 2-5 working days to make your training schedule, i.e. dates and time.
• For any further queries, feel free to email us at [email protected]

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Previous Events & Testimonials

Gain insight into our past trainings:

• Video Feedback: Visit our YouTube channel for testimonials.
• Upcoming Training Programs: Explore other upcoming events here.
• Upcoming Online Workshops: Explore other upcoming events here.

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To get regular updates on Upcoming Job opportunities, Research Projects, Courses, Training and Trainings, kindly join our WhatsApp Channel /  Telegram

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T & C

• The registration fee for this one-on-one online training is 599 Australian Dollars for all participants irrespective of their location.
• Please provide a GMAIL ID for registration as the recorded video session will be provided on YouTube. Kindly provide that email ID by which you use YouTube.
• Since the training is a one-on-one live session with a trainer on Zoom, you'll need to attend, allowing for practical hands-on learning, real-time explanations, and direct query resolution for a better learning experience.
• At the end of each session, you will receive a video recording, allowing you to review the steps as many times as needed to enhance your learning and master the topics and tasks.
• BDG Lifesceiences (OPC) Private Limited is registered under Ministry of MSME(Micro, Small and Medium Enterprises), Government of India with Registration Number:UDYAM-UP-01-0019151 hence the certificate will be provided of it. BBR Group Pty Ltd, Australia (ACN-Australian Company Number-608 550 849) has the franchisee of BDG Lifesciences to run its programs in Australia & New Zealand.
• The certificate will be issued as per the details which you will provide in the registration form while registering before payment.
• We want to make sure that you learn properly hence the training certificate will be given ONLY on successful completion of all the tasks given by the trainer.
• The certificates of all our Online programs are sent by email (softcopy) which has a unique barcode. You can take a print of that on heavy cardstock or photo paper and get it laminated if required.
• The registration is NON-REFUNDABLE and NON-TRANSFERABLE.
• BDG Lifesciences (OPC) Pvt. Ltd., India and BBR Group Pty Ltd Australia reserve the right of admission in all our programs.
• If you are removed or your registration is canceled then there will be no answer to that. We have our own reasons for such an act of ours. If we do not wish to give this training to any participant then we will refund their amount.
• You should also read the Terms & Conditions page as well as the FAQs page. For any assistance kindly chat with our AI Assistant BioBot on the website www.bdglifesciences.com