Interactomics : Basics & Applications

By Prof. Sanjeeva Srivastava | IIT Bombay

Learners enrolled: 565

Proteins are the key effectors of any living system and are largely responsible for the functioning of a cell. Intricate cell signaling and molecular triggers are dependent on interactions involving proteins at the cellular level. It is due to this very reason that, in an age where clinical biology is thriving to make an impact in global health-care and biomedical diagnostics, there has been a surge of interest in the area of Interactomics. Interactomics essentially involves the study of interactions between biomolecules, particularly proteins and the consequences of those interactions in a biosystem.

Due to rapidly evolving technological platforms in biology, there is a need to keep pace with latest developments in field to explore their versatile applications. Interactions resulting from protein-protein, protein-peptide, protein-RNA, protein-DNA or protein- small molecule have immense application in life-sciences and translational biology. Through this course, we aim to provide an interface between distinguished scientists involved in interactomics research, industrial partners, faculties and students. This course would feature an intensive lecture series followed by some demonstrations designed to provide the much needed training required to explore the endless possibilities in interactomics research using genomics and proteomics approach, that can be useful for a researcher at any stage.

Various technology platforms such as Protein microarrays, Label-free biosensors and Next-Generation Sequencing (NGS) Technology will be discussed. The students/participants will gain exposure to the above mentioned technologies and its applications from some of the experts in the field, from both- academia and industry perspective.

INTENDED AUDIENCE  : Biology or biotechnology background students having interest in latest technologies, (BE/B.Tech) Biotechnology Students, B.Sc. 
					  students science background but course is open to all

PREREQUISITES : None

INDUSTRY SUPPORT : GE Healthcare, Pall Life Sciences, Thermofisher Scientific, Illumina

Summary

Course Status :	Completed
Course Type :	Elective
Language for course content :	English
Duration :	12 weeks
Category :	Biological Sciences & Bioengineering Biosciences
Credit Points :	3
Level :	Undergraduate/Postgraduate
Start Date :	18 Jan 2021
End Date :	09 Apr 2021
Enrollment Ends :	01 Feb 2021
Exam Date :	24 Apr 2021 IST

Note: This exam date is subject to change based on seat availability. You can check final exam date on your hall ticket.

Page Visits

Course layout

Week 1 : Introduction to Interactomics and Protein Arrays, High throughput platforms of interactomics: Protein arrays, An introduction to Cell-free protein synthesis, Cell-free synthesis based protein microarrays: PISA and NAPPA, Cell-free synthesis based protein microarrays: MIST, DAPA and Halotag Arrays

Week 2 : Digging deeper into NAPPA: Basic Workflow, Digging deeper into NAPPA: Surface Chemistry, Printing and Assessment, NAPPA Technology and Protein Arrays-I, NAPPA Technology and Protein Arrays-II, Biomarkers: Harnessing the immune system for early detection of disease-I

Week 3 : Biomarkers: Harnessing the immune system for early detection of disease-II, Biomarkers: Harnessing the immune system for early detection of disease-III, NAPPA and its applications in study of antibody immune response in disease and in drug screening-I, NAPPA and its applications in study of antibody immune response in disease and in drug screening-II, NAPPA and its applications in study of antibody immune response in disease and in drug screening-III

Week 4 : Using functional proteomics to identify biomarkers and therapeutic targets-I, Using functional proteomics to identify biomarkers and therapeutic targets-II, Conventional label based detection techniques for Protein microarrays, Basics of microarray image scanning Software for Image scanning and data processing

Week 5 : Microarray Data Analysis: Part I, Microarray Data Analysis: Part II, Statistical Analysis-I, Statistical Analysis-II, Novel detection techniques for Protein microarrays

Week 6 : Recombinational cloning and its application for Protein microarrays, Introduction to Bioprinting and Iris™ Optical QC Benefits-I, Introduction to Bioprinting and Iris™ Optical QC Benefits-II,Application of cell free expression protein microarrays in biomarker discovery, Application of protein microarray in biomarker discovery-I

Week 7 : Application of protein microarray in biomarker discovery-II Applications of protein microarrays in Cancer Research-I, Applications of protein microarrays in Cancer Research-II, Application of cell free expression protein microarrays in immunological studies, Applications of protein microarrays in Malaria Research-I

Week 8 : Applications of protein microarrays in Malaria Research-II, Basics and Applications of Reverse Phase Protein Arrays-I, Basics and Applications of Reverse Phase Protein Arrays-II, Basics and Applications of Reverse Phase Protein Arrays-III, Antibody signatures defined by high-content peptide microarray analysis

Week 9 : Demo sessions/ Quiz practice/Application based expts, An overview of label-free technologies-I, An overview of label-free technologies-II, Surface Plasmon Resonance- Principles and Assays-I Surface Plasmon Resonance- Principles and Assays-II

Week 10: Basics of SPR: Experimental design, Lab session– Basics of SPR: Surface chemistry, Protein immobilization for protein-protein interaction studies, Protein-protein interaction study: Binding analysis Protein-protein interaction study: Kinetics analysis

Week 11: Use of SPR in unravelling domain motif interactions of proteasomal assembly chaperones Protein-small molecule interaction study: Immobilization & binding analysis,Protein-small molecule interaction study: Kinetic analysis,SPR: Interactive Session - I, SPR: Interactive Session - II

Week 12: An overview of ellipsometry and interferometry techniques, Biomolecular interactions using Bio-Layer Interferometry (BLI)-I, Biomolecular interactions using Bio-Layer Interferometry (BLI)-II Lab session- An introduction to BioLayer Interferometry (BLI) and its applications in protein research, Kinetic analysis of protein-protein interaction using BLI Teaching Assistants:

Mr. Abhilash Barpanda is a senior research scholar in Proteomics lab, IIT Bombay. He joined the institute in 2018 January as a PhD student. His research focuses on identification potential biomarkers in colorectal cancers using molecular and cellular proteomic approaches. He is currently handling tribrid orbitrap mass spectrometer at mass facility IIT Bombay as facility in-charge. He has also worked as a TA in previous Interactomics and Proteomics courses.

Books and references

Proteomics: A Cold Spring Harbor Laboratory Course Manual, A.J. Link and J. LaBaer, Cold Spring Harbor Laboratory Press, 2009.

Selected papers from scientific journals

Instructor bio

Prof. Sanjeeva Srivastava

IIT Bombay

Prof. Sanjeeva Srivastava Dr. Sanjeeva Srivastava is a Professor and group head of proteomics laboratory at the Indian Institute of Technology, Bombay. He obtained his Ph.D. from the University of Alberta and post-doc from the Harvard Medical School in the area of proteomics, stress physiology and has specialized expertise in applications of data enabled sciences in global health, developing country and resource limited settings. He joined IIT Bombay in 2009 as an Assistant Professor and currently working as Professor. Current research in his group centers on biomarker and drug target discovery and deciphering the protein interaction networks in complex human diseases (gliomas) and infectious diseases (malaria) using high throughput proteomics, protein microarrays and mass spectrometry. Dr. Srivastava is an active contributor to global proteomics science and innovation. He serves on the Executive Council of Human Proteome Organization (HUPO) and Proteomics Society, India (PSI). He has organized three successful international conferences & workshops at IIT Bombay PSI-2014, Targeted Proteomics International Symposium in 2015 and 2018. He has published four special issues as editor, Proteomics in India for Journal of Proteomics; Proteomics Research in India for Nature India, Protein Arrays for Proteomics and Neglected Tropical Infectious Diseases for Proteomics Clinical Applications. Having an extensive teaching experience at IITB and experience of conducting proteomics courses at CSHL, New York provided him with the background to increase proteomics education for the global community. One of his special contributions has been the development of e-learning resources (MOOC mass spectrometry and interactomics courses; Virtual Proteomics Laboratory). He has made first ever proteomics documentaries Proteomics: Translating the Code of Life and Human Proteome Project (HPP). He has directed HUPO Perspective in Proteomics video interview series, which is hosted on HUPO website. Recently we have signed a MOU on clinical proteogenomics cancer research with National Cancer Institute, along with Tata Memorial Centre and India has now become 12th country to join the International Cancer Proteogenome Consortium (ICPC). Dr. Srivastava continues to develop proteomics & omics science and innovation together with and for the next generation of keen students, researchers and the research and education commons in Asia and global OMICS community. Click here to view Faculty Profile: http://www.bio.iitb.ac.in/~sanjeeva/ About the Instructor: https://youtu.be/sb4faypvWwk

Course certificate

The course is free to enroll and learn from. But if you want a certificate, you have to register and write the proctored exam conducted by us in person at any of the designated exam centres.
The exam is optional for a fee of Rs 1000/- (Rupees one thousand only).
Date and Time of Exams: 24 April 2021 Morning session 9am to 12 noon; Afternoon Session 2pm to 5pm.
Registration url: Announcements will be made when the registration form is open for registrations.
The online registration form has to be filled and the certification exam fee needs to be paid. More details will be made available when the exam registration form is published. If there are any changes, it will be mentioned then.
Please check the form for more details on the cities where the exams will be held, the conditions you agree to when you fill the form etc.

CRITERIA TO GET A CERTIFICATE

Average assignment score = 25% of average of best 8 assignments out of the total 12 assignments given in the course.
Exam score = 75% of the proctored certification exam score out of 100

Final score = Average assignment score + Exam score

YOU WILL BE ELIGIBLE FOR A CERTIFICATE ONLY IF AVERAGE ASSIGNMENT SCORE >=10/25 AND EXAM SCORE >= 30/75. If one of the 2 criteria is not met, you will not get the certificate even if the Final score >= 40/100.

Certificate will have your name, photograph and the score in the final exam with the breakup.It will have the logos of NPTEL and IIT Bombay.It will be e-verifiable at nptel.ac.in/noc.

Only the e-certificate will be made available. Hard copies will not be dispatched.

Once again, thanks for your interest in our online courses and certification. Happy learning.

- NPTEL team

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