Advances in Proteomics Technologies

(APT -2024)

Workshops and International Conference

February 17-20, 2024
IIT Bombay, Mumbai

Prof. Sanjeeva Srivastava
IIT Bombay

Convener’s Message

The field of proteomics aims to explore proteins, delving into their structure, function, and interactions within biological systems. Comprehending the proteome stands as a crucial factor in grasping cellular function, disease pathology, and the development of targeted therapies. Proteomics offers valuable insights into the molecular mechanisms that underlie various physiological and pathological processes, aiding in the identification of potential drug targets. Recent strides in Mass Spectrometry have enabled the identification of key proteins governing cellular processes, their signaling pathways, and abnormalities leading to disease development.

The rapid evolution of instrumentation technology has significantly propelled the field of proteomics. Approaches in proteomics have seen improvements across various levels, including sample preparation, MS data acquisition, and data analysis. Emerging fields such as cell surface proteomics, spatial proteomics, and single-cell proteomics, though in their early stages, show considerable promise and are poised to play a pivotal role in advancing our understanding of biology in the years to come.

In addition to mass spectrometry-based approaches, alternative methods like protein sequencing and array-based approaches are yielding promising results. Techniques such as surface plasmon resonance and Bio-layer interferometry are increasingly utilized in Biopharma, where they play a pivotal role in identifying and characterizing biosimilars.

Two-day workshops (7 parallel tracks, Feb 17-18) and two-day conference (Feb 19-20) aim to provide participants with insights into the recent advances in the field of proteomics, promising and exciting decade ahead.

Recent News & Updates

APT-2024 ROADMAP

EVENT FLYERS

DISTINGUISHED SPEAKERS

Alexander Makarov
Thermo Fisher Scientific,
Germany

Albert Heck
Utrecht University, Netherlands (Online)

Arun Wiita
UCSF, USA

Bernd Wollscheid
ETH Zurich, Switzerland

Bernhard Kuster
Technical University Munich

Brendan MacLean
University of Washington, USA

Christina Ludwig
TUM, Germany

Fuchu He
Beijing Proteome Research Center, Chin
a
(Online)

Graham Roy Ball
Anglia Ruskin University, UK

Hanno Steen
Harvard Medical School, USA

Jim Palmeri
ProtiFi

Jim Wells
UCSF, USA (Online)

Jochen Schwenk
Scilife Lab,

Sweden (Online)

John Wilson
ProtiFi, USA

Jonathan Blackburn
University of Cape Town, SA (Online)

Judith Steen
Harvard Medical School, USA

Mahesh Bhalgat
Veeda Clinical Research

Matthias Mann
Max Planck Institute of Biochemistry, Germany

Neil Kelleher
Northwestern University, USA (Online)

Nikolai Slavov
Northeastern University, USA (Online)

Parag Mallick
Stanford University,

USA (Online)

Prashant Kumar
Karkinos Healthcare Pvt. Ltd

Rajiv Sarin
ACTREC,
India

Ravi Kannan
CCHRC, India

Robert Moritz
Institute for Systems Biology, USA

Rosa Viner
Thermo Fisher Scientific,
USA (Online)

Ruth Huttenhain Stanford University, USA (Online)

Shourjo Ghose
Bruker Daltonics

Tiannan Guo
Westlake University, China (Online)

Thierry Nordmann
Max Planck Institute of Biochemistry, Germany (Online)

PROTEOMICS FOR BIOPHARMA

Ashutosh Kumar
IIT Bombay

Bhupesh Dewan
Zuventus Healthcare Ltd.

Dinesh Palanivelu
ThermoFisher Scientific

Kamal Mandal
Gujarat Biotechnology University

Narendra Chirmule
SymphonyTech Biologics

Ratnesh Jain
Institute of Chemical Technology

Ravi Shankara
Sun Pharma

Ravi Trivedi
Zydus

Saravanan Kumar
ThermoFisher
Scientific

Ravi Krovidi
Ingenuity Biosciences Pvt. Ltd.

PROTEOMICS IN INDIA

Amol Suryavanshi
Institute of Life Sciences
Bhubaneshwar

Geetanjali Sachdeva
NIRRH Mumbai

Mahesh Kulkarni
NCL Pune

Niranjan Chakraborty
NIPGR
New Delhi

Prasanna Venkatraman
ACTREC Mumbai

Ramesh Ummanni
CSIR IIST Hyderabad

Ravi Sirdeshmukh
Institute of Bioinformatics Bangalore

Shantanu Sengupta
IGIB Delhi

Srikanth Rapole
NCCS Pune

Subhra Chakraborty
NIPGR
New Delhi

Suman Thakur
CSIR CCMB Hyderabad

Surekha Zingde
IWSA

T S Keshava Prasad
Yenepoya University Mangalore

EARLY CAREER RESEARCHERS (ECR)

Ankit Jain
NCBS

Arup Acharjee
University of Allahabad

Jubilee Purkayastha
DRDO

Kartiki Desai
NIBMG

Mukunda Goswami
Central Institute of Fisheries Education

Pratibha Sharma
IHBAS Delhi


Rashmi Rana
Sir Ganga Ram Hospital


Sandipan Ray
IIT Hyderabad

Sumit K. Singh
IIT BHU

Surya Pratap Singh
IIT Dharwad

Syed K. Hasan
ACTREC Mumbai


WORKSHOP SPEAKERS

Aditi Jain
ACS

Balaji Sitharaman
Millennial Scientific, USA

Harsharan Singh Bhatia
Helmholtz Munich, Germany

Mayuri Gandhi
IIT Bombay

Moumita Basu
Thermo Fisher Scientific

Shrivalli R Kamath
Thermo Fisher Scientific


WORKSHOPS

Quantitative Mass Spectrometry based proteomics approaches have been undergoing huge improvements over the last decade owing to advances in instrumentation and sample preparation methods. These have been largely driven by shotgun approaches and targeted approaches. The shotgun approaches are also known as data dependent discovery proteomics approaches, and they have been used to quantify proteomes from various sample types. The targeted approaches such as Selected Reaction Monitoring (SRM) and Parallel Reaction Monitoring (PRM) are the method of choice for quantifying proteins of low abundance with a high degree of accuracy in clinical isolates as well as other complex sample types. These approaches have also overcome the limited scalability and reproducibility of shotgun approaches but suffer from identification of only a limited number of proteins per run making them more suitable for Hypothesis-based research or validation studies. The last few years have seen the emergence of a new approach called the Data Independent Acquisition (DIA). In this approach, the fragment ion spectra are systematically acquired using deterministic peptide ion isolation windows spanning the entire mass range expected to house most digested peptides. Latest developments in ion-mobility, new acquisition schemes, data analysis workflows and software tools have propelled the use of DIA towards consistent quantification of thousands of proteins from complex sample cohorts. The targeted proteomics workshop aims to introduce to the participants the quantitative approaches currently driving proteomics-based research and data analysis using Skyline. Participants are expected to have a basic to moderate understanding of Skyline. The workshop will also briefly touch upon the use of plug-ins for Skyline and statistical analysis using MS Stats.  The instructors will also speak about the aspects involved in method development and troubleshooting. Lastly, the participants will be encouraged to plan their own experiments and discuss them with the experts.

Brendan MacLean

Mr. Brendan MacLean is a Senior Software Engineer in the laboratory of Mike MacCoss at the University of Washington, Department of Genome Sciences. He has been responsible for all aspects of design, development and support in creating the Skyline Targeted Mass Spec Environment with an ever-increasing user base around the world.

Christina Ludwig

Dr. Christina Ludwig is the Head of the Proteomics Unit at the Bavarian Center for Biomolecular Mass Spectrometry (BayBioMS), Technical University Munich. Prior to joining BayBioMS she worked as a senior scientist at the lab of Prof. Ruedi Aebersold at ETH Zurich. Here she was instrumental in developing advanced proteomics approaches like Multiple reaction monitoring and SWATH-MS. She also played a key role in designing the targeted proteomics course originally started at ETH-Zurich and is among the few instructors who have continued to play a key role in training researchers in targeted proteomics for over a decade now.

Complex biological interactions are a result of the dynamic interplay between different cell types found inside the body. The differences in functional and morphological features of the different cell types are also dependent on the complex interplay between the genome, transcriptome, proteome, and other regulatory molecules that make up the cell. Single cell genomics and transcriptomics have long been at the forefront of single cell omics research allowing researchers to study the mutations at the cellular level. However, the effects of these mutations can only be understood if there is information about the proteome level changes. Single cell proteomics is the latest branch of omics approaches aimed at understanding alterations at the single cell resolution. Despite initial challenges of analysing only small number of proteins, with advanced mass spectrometry technologies, community is now aiming to achieve ~ 5000 proteins from a single cell, a number which is comparable to global proteomics data.  Since the approaches do not employ an amplification step unlike the other approaches, efforts are on to develop more effective and efficient extraction protocols to minimize protein loss during sample processing. Additionally, these approaches suffer from lack of consensus for experimental design, data analysis, and interpretation. However, despite these challenges, single cell proteomics approaches hold immense potential and are already helping researchers understand cellular heterogeneity in complex tissues and tumors. The single cell proteomics workshop aims at introducing participants to the important sample preparation approaches and data analysis pipelines commonly used by researchers around the world. The instructors will provide an insight into the application of single cell proteomics for understanding spatial and subcellular heterogeneity in complex tissue types. Due to the highly specialized nature of the field, participants with moderate to advanced knowledge in proteomics will be given preference for participation in the workshop.

Hanno Steen

Dr. Hanno Steen is an Associate Professor of Pathology at Harvard Medical School and Principal Investigator at Boston Children’s Hospital. His lab works on novel methods for identifying and quantifying various protein modifications that are involved in pediatric diseases in order to provide new insights into the underlying biological processes.

Judith Steen

Dr. Judith Steen is an Associate Professor of Neurobiology at Harvard Medical School, a member of the Harvard Stem Cell Institute and the Director of the Neuroproteomics Laboratory in the F. M. Kirby Neuroscience Center at Boston Children’s Hospital. Her laboratory works on understanding neuroregeneration and neurodegenerative diseases using systems biology approaches.

Shourjo Ghose

Shourjo Ghose received his Ph.D from Montana State University in Biochemistry. He proceeded to do his post doctoral studies at the Scripps research institute . Shourjo joined Bruker Daltonics in 2017 as an appalications scientist specializing in performing proteomics measurements on the timsTOF line of systems. In 2020, Shourjo was promoted to be a an account manager , responsible for the New England region in North America. As of 2022, Shourjo is the Proteomics Business Unit manager responsible for the North American business.

Proteins are dynamic biomolecules involved in a wide variety of functions in biological systems ranging from catalytic reactions, overall development and maintenance of cells, cell to cell communication, etc. to name a few. However, despite their wide-spread occurrence in the body, only 30% of the total proteins can be found on the cell surface and at levels much lower than the proteins found inside the cell. Incidentally, the proteins found on the cell surface make up to approximately 65% of the FDA-approved therapeutic targets, highlighting the need to better understand and characterise these proteins.  The study of the alterations found in the cell surface proteins commonly referred to as ‘Surfaceome’ has widespread implication in the field of immunobiology. Studies aimed at providing a holistic understanding of the alterations of these proteins typically deal with investigating biological signatures driven by protein post-translational modifications, protein-protein interactions, and altered sub-cellular localization. These have provided a fresh outlook towards complex diseases like blood cancers resulting in development of new-age therapeutic approaches. The knowledge from these studies if coupled with synthetic immunology tools to make targeted therapeutics, can pave way for precise and targeted treatments in patients. However, such proteomics approaches are challenging due to the relatively low abundance of the cell surface proteins and often require specialised sample preparation strategies and novel data analysis pipelines. The Cell surface proteomics workshop has been specifically designed to address the rapidly growing demand for better understanding of immune cells in complex diseases like cancers and other neurodegenerative disorders. The workshop will introduce participants to this new field by combining concepts of chemical biology with mass spectrometry-based proteomics. It will also familiarise participants the pipeline, going all the way from target discovery to therapeutic development to clinical trials. Due to the interdisciplinary nature of the field, participants are expected to have a basic understanding of proteomics, bioinformatics, chemical biology, and mechanistic biology.

Arun Wiita

Dr. Arun Wiita is a Clinical Pathologist and physician-scientist at the Department of Laboratory Medicine, University of California San Francisco.  His lab is majorly involved in the use of targeted and quantitative proteomics approaches to answer important biological questions in myeloma and B-cell leukemia.

Bernd Wollscheid

Dr. Bernd Wollscheid is a Professor at Department of Health Sciences and Technology, ETH Zurich. The goal of his laboratory is to functionally understand the cellular surfaceome and its signaling islands as a complex information gateway connecting the intracellular to the extracellular interactome.

Rosa Viner (Online)

Dr. Rosa Viner holds a Ph.D. in Biochemistry and Biophysics from the Moscow State University, Russia and is currently the Senior Vertical Manager for Proteomics at Thermo Fisher Scientific in San Jose, CA. She joined Thermo Fisher Scientific in 2004 and is involved in all areas of proteomics research with specific focus on relative quantification, PTM characterization and integrated structural biology workflows. She serves as liaison between Life Science mass spectrometry and Pierce Protein research business units to provide complete solutions/workflows to customers.

Sample preparation is among the most crucial steps for the success of an omics experiment and accounts for the largest source of data variability across experiments. Various sample processing strategies revolve around the same basic steps starting with the careful lysis of the cells to recover the biomolecules of interest, followed by enrichment of the specific biomolecules and their downstream processing. For proteomics sample preparation, the steps include physical or chemical lysis of the cells in a lysis buffer, successful recovery of proteins either by separating the cell debris or by precipitation, followed by reduction, alkylation and digestion of proteins, and clean-up or desalting of the digested peptides prior to LC-MS/MS analysis. Sample preparation methods differ in the composition of lysis buffers, the strategies used for cell disruption and lysis, denaturing conditions used during digestion and methods used for sample clean up. While it is assumed that the methods used for cell disruption and lysis are universal, sample processing approaches for proteomics experiments require the use of buffers and reagents that are compatible with the LC-MS/MS analysis. Hence, it is essential to optimize and choose the right sample preparation method depending on the sample of interest, availability of reagents, cost-effectiveness, and difficulty of the protocol. The last few years have seen a rise in specialized sample preparation approaches which are aimed at reducing the steps involved in the workflow and are highly reproducible in their output. One such approach is the S-trap sample processing technology that allows the use of SDS in the lysis buffer thereby resulting in the recovery of even poorly soluble proteins like membrane proteins. Another approach that has been gaining popularity for its relative ease of usage and short processing time is the preomics improved sample technology (iST). Using proprietary reagents, this method allows sample preparation within two hours through a manual, semi or fully automated approach. This method also allows processing of multiple samples at once and requires very low amounts of starting material which is a major advantage while working with clinical samples. The sample preparation workshop has been designed specifically for researchers in the early stages of their proteomics journey with emphasis on choosing the most effective sample preparation strategy for maximal identification of proteins. The participants of this workshop will also be introduced to the most observed problems during sample preparation and possible ways to troubleshoot the problems. Additionally, the participants will be educated about the commercially available sample preparation kits for faster and more efficient sample preparation.

John Wilson

Dr. John Wilson is a CEO, an entrepreneur, a PhD scientist, and an expert in the fields of protein and biomolecule analysis, biomarkers and mass spectrometry. He is founder of Protifi, a spinout from the Cold Spring Harbor Laboratory, which makes robust and reliable sample preparation systems for a wide range of sample types. His company also helps take R&D from the bench to the clinic, helps determine states of health or disease, or predict drug responses. Besides Protifi, Dr. Wilson has also founded NYC Bio and can be seen wearing many hats! In addition to all this, he takes pride in passing the knowledge he has acquired during his time at premier institutes like Rockefeller university, Stanford university, Universität Tübingen and the Cold Spring Harbor Laboratory to young students and researchers.

The last two decades have seen an unprecedented growth in the use of mass spectrometry (MS)- based methods for exhaustive identification and quantification of proteins in biological samples. The rapid advancements in instrumentation, coupled with improvements in sample preparation strategies have led to increased coverage of proteins. This has in-turn made data analysis workflows more complex necessitating the use of greater computational power for handling the resulting datasets. The proteomics community has been blessed with the availability of numerous softwares that can handle large and complex datasets. While most of the softwares are good in handling data from shotgun experiments acquired using data dependant acquisition (DDA) approaches, only a handful of softwares are efficient in handling complex data arising from use of data independent approaches (DIA). To make matters worse, most of these software capable of handling DIA data are not freely available and require a license. Data analysis from proteomics experiments also requires pre-processing prior to statistical testing, network analysis and data visualization. As such there is no one method for these steps and the researchers are expected to have a basic understanding of the various approaches most suited for proteomics data analysis. The emergence of Machine Learning (ML) and Artificial Intelligence (AI) has also accelerated development of proteomics data analysis softwares and tools commonly used to data analysis. The workshop on Omics data analysis will provide participants with a basic understanding on the problems commonly encountered with proteomics datasets and the strategies one must employ while analysing complex datasets. The workshop will also briefly touch upon the role of ML and AI in data processing providing participants an idea of the potential of these approaches in handling large datasets. Lastly, the participants will be introduced to a few commonly used databases, including BrainProt, and tools for network analysis and data visualization.

Graham Roy Ball

Dr. Graham Ball is a Professor at Anglia Ruskin University and  a visiting Professor at the Indian Institute of Technology Bombay. His current research interests are focused on the development and application of machine learning algorithms using Artificial Neural Networks (ANNs) to medical diagnostics, systems biology, and drug target discovery.

Tiannan Guo (Online)

Dr. Tiannan Guo is a Professor at the School of Life Sciences at Westlake University where he leads a multi-disciplinary team to develop reproducible, fast, deep, and low-cost proteomics technologies. His lab focuses on developing computational resources to democratize the data analysis of proteomic big data sets by using a combination of pressure-cycling technology and data-independent acquisition. The lab also develops cutting edge proteomics technologies to precisely quantify maximum number of proteins from the minimum amount of biological or clinical samples with the maximum sample throughput, enabling the generation of proteomic big data research to tackle complex biomedical questions.

Since the last COVID-19 pandemic India have seen an increasing demand for biopharmaceuticals and biosimilar due to an increasing prevalence of chronic and febrile diseases, aging population with multiple comorbidities and ultimately shifting of paradigm into better healthcare, point of care and focused quality of life. Both Academia and Industry led research collaboration have led to development of novel biopharmaceutical products, which made India key player in global biosimilars market in field of therapeutics such as oncology, rheumatology, and diabetes. The current workshop and conference at APT-2024 will help you in understanding the latest cutting-edge applications biosimilars and revolutionize in-depth insights into the characterization, formulation and manufacturing Pipeline for Biopharma market in India. In the workshop you will be trained in Mass Spectrometry based identification of metabolites and small molecules, their targeted validation, dilution linearity, and other quantification aspect with Ligand binding Assay using SPR/ BLI which are widely used in Pharma and Biopharma Industry. In the conference you will provided insights to mAbS Engineering, Biosimilar characterization, Cell and gene therapy,  and Big data, AI and ML based application in Drug discovery and Biotherapeutics. This will be a great opportunity for (Researchers and Scientists, Academia and Students, Pharmaceutical Industry Enthusiasts and Regulatory Affairs Professionals) to be connected with like-minded professionals, researchers and industry experts, which will further result in valuable collaborations, exchange ideas, and expand your professional network within the vibrant biosimilars community. Join us at the Biosimilars Workshop APT 2024, where unison of innovation and knowledge leads to the future of biopharmaceuticals

Arghya Banerjee

Dr. Arghya’s research focuses on studying the pathobiology of Pituitary Adenomas using the Proteo-Metabolomics approach. He has also worked in SARS-CoV-2 severity prediction using various spectrometry approaches

More speaker details are coming soon…

The last decade has seen an increase in the interest towards specialized proteomics applications. Sample preparation plays an important role in the success of a proteomics experiment. The basic proteomics workshop will familiarize participants with the recent advancements in sample preparation with emphasis on the nuances and steps requiring attention, introduce the recent advancements in method development and data acquisition approaches, and finally acquaint with data pre-processing and analysis approaches. The strategies and approaches for preparing a clean sample evolve at a rapid pace owing to advancements in the field. Quantitative proteomics approaches have seen a rapid growth in recent times, thanks to the developments in MS instrumentation. The developments in sample preparation strategies, liquid chromatography and mass spectrometry instrumentation have together contributed to increased reliability, coverage, and reproducibility of proteomics approaches. Following data acquisition, a typical mass spectrometry experiment involves analysis of the acquired datasets. While most commercial softwares for MS data analysis are expensive, there are many freely available softwares for use. A thorough understanding of the data complexity and the commonly associated problems with mass spectrometry data is necessary for effective data analysis. The workshop has also been designed to cater to the ever-growing need for development of skillset and knowledgebase in proteomics approaches, with emphasis on hands-on training from field-leading experts. The workshops will provide participants the opportunity to interact with experts during the course besides visiting our state-of-the-art proteomics facility.

The last decade has seen an increase in the interest towards specialized proteomics applications. Sample preparation plays an important role in the success of a proteomics experiment. The basic proteomics workshop will familiarize participants with the recent advancements in sample preparation with emphasis on the nuances and steps requiring attention, introduce the recent advancements in method development and data acquisition approaches, and finally acquaint with data pre-processing and analysis approaches. The strategies and approaches for preparing a clean sample evolve at a rapid pace owing to advancements in the field. Quantitative proteomics approaches have seen a rapid growth in recent times, thanks to the developments in MS instrumentation. The developments in sample preparation strategies, liquid chromatography and mass spectrometry instrumentation have together contributed to increased reliability, coverage, and reproducibility of proteomics approaches. Following data acquisition, a typical mass spectrometry experiment involves analysis of the acquired datasets. While most commercial softwares for MS data analysis are expensive, there are many freely available softwares for use. A thorough understanding of the data complexity and the commonly associated problems with mass spectrometry data is necessary for effective data analysis. The workshop has also been designed to cater to the ever-growing need for development of skillset and knowledgebase in proteomics approaches, with emphasis on hands-on training from field-leading experts. The workshops will provide participants the opportunity to interact with experts during the course besides visiting our state-of-the-art proteomics facility.

John Wilson

Dr. John Wilson is a CEO, an entrepreneur, a PhD scientist, and an expert in the fields of protein and biomolecule analysis, biomarkers and mass spectrometry. He is founder of Protifi, a spinout from the Cold Spring Harbor Laboratory, which makes robust and reliable sample preparation systems for a wide range of sample types. His company also helps take R&D from the bench to the clinic, helps determine states of health or disease, or predict drug responses. Besides Protifi, Dr. Wilson has also founded NYC Bio and can be seen wearing many hats! In addition to all this, he takes pride in passing the knowledge he has acquired during his time at premier institutes like Rockefeller university, Stanford university, Universität Tübingen and the Cold Spring Harbor Laboratory to young students and researchers.

Sanjeeva Srivastava

Dr. Sanjeeva Srivastava, Ph.D., is the head of the proteomics facility and a professor at the Indian Institute of Technology Bombay. Currently, he is appointed as a full-time visiting professor at the Department of Laboratory Medicine, School of Medicine at the University of California, San Francisco. His research on protein biomarkers of infectious diseases and brain tumors has resulted in 150+ publications & over 20 patents filed, including Nature and Cell press publications.

Unlocking the nuances of antibody-based validation strategies, mastering Immunohistochemistry (IHC), and Western Blot techniques is paramount for researchers endeavoring to translate targets from proteomics experiments. These methods not only present a visual portrayal of protein expression in tissues (IHC) but also furnish a means for quantitative analysis of protein levels (Western Blot). Proficiency in these techniques ensures the precision and dependability of protein data, thereby fortifying the validity of research findings. Our workshop empowers participants with indispensable skills to navigate the intricacies of protein validation, elevating the robustness and credibility of their research outcomes in the pursuit of translational excellence.

Moumita Basu

Moumita Basu is a R&D Scientist in Protein Biology at Thermo Fisher Scientific. After obtaining her BS-MS degree in Biological Sciences from the Indian Institute of Science Education and Research, Bhopal, she received her Ph.D. in Molecular Biology from Jawaharlal Nehru Centre for Advanced Scientific Research, Bangalore in 2022. Her research focused on understanding the crosstalk between transcription and epigenetic machinery and implication of their dysregulation in manifesting various pathophysiological conditions such as stress, carcinogenesis, etc. in cellular and animal models as well as patient samples. Since joining Thermo Fisher Scientific in 2022, she has focused on immuno-application work to support the development and marketing of new technologies.

Shrivalli R Kamath

Shrivalli R Kamath is a R&D Scientist in Protein Biology at Thermo Fisher Scientific. She completed her bachelors degree in Engineering in Biotechnology from NMAMIT, Nitte, Karnataka and her post-graduate diploma in Cellular and Molecular Diagnostics from School of Life Sciences, Manipal, Karnataka. Since joining Thermo Fisher Scientific in 2015, she has focused on the functional validation of primary and secondary antibodies in western blotting, immunocytochemistry and immunohistochemistry applications.

CONFERENCE

The rapid advancements in instrumentation technology have provided a major boost to the field of proteomics. Proteomics approaches have also undergone changes and improvements at levels ranging from sample preparation, MS data acquisition and data analysis. Emerging fields like cell surface proteomics and single cell proteomics, though in their nascent stages, have already shown a lot of promise and will play a key role in advancing our understanding of biology in the years to come. In addition to mass spectrometry-based approaches, alternative approaches such as protein sequencing have also been gaining speed and hold promise for application in other associated fields. Approaches like surface plasmon resonance and Bio-layer interferometry are increasingly finding use in Biopharma where their role has been pivotal in identification and characterization of biosimilars. This 2-day conference (Feb 19-20, 2024) having two simultaneous tracks – “Proteomics for Biologists” and “Proteomics tools for Biopharma” intends to provide participants knowledge of the recent advances in field of proteomics with a promise of an exciting decade ahead.

Conference Schedule (Feb 19-20, 2024)
(Nearly final — updated Jan 31, 2024)

Day 1-19th February, 2024

8:20 AMProf. Sanjeeva SrivastavaIndian Institute of Technology BombayWelcome
8:25 AMProf. Fuchu HeBeijing Proteome Research Center, ChinaPlenary (Online)
8:50 AMProf. Jim WellsUniversity of California San Francisco, USAPlenary (Online)
9:15 AMProf. Arun WiitaUniversity of California San Francisco, USAPlenary
9:43 AMProf. Bernd WollscheidETH Zurich, SwitzerlandPlenary
10:11 AMProf. Judith SteenHarvard Medical School, USAPlenary
10:39 AMDr. Christina LudwigTechnical University of Munich, GermanyPlenary
TEA
11:25 AMDr. Prasanna VenkatramanAdvanced Centre for Treatment, Research and Education in Cancer (ACTREC), MumbaiInvited
11:40 AMProf. Ramesh UmmanniIndian Institute of Chemical Technology (CSIR-IICT) HyderabadInvited
11:55 AMDr. Amol SuryavanshiInstitute of Life Sciences BhuvaneshwarInvited
12:10 PMProf. Shantanu SenguptaInstitute of Genomics and Integrative Biology, DelhiInvited
12:25 PMProf. Srikant RapoleNational Centre For Cell Science, PuneInvited
12:40 PMProf. Subhra ChakrabortyNational Institute of Plant Genome Research (NIPGR), New DelhiInvited
12:55 PMDr. Suman ThakurCentre for Cellular and Molecular Biology (CCMB), HyderabadInvited
1:10 PMDr. Rashmi RanaSir Ganga Ram Hospital DelhiECR
LUNCH
2:05 PMProf. Ravi SirdeshmukhInstitute of Bioinformatics BangaloreInvited
2:20 PMDr. T S Keshava PrasadYenepoya University MangaloreInvited
2:35 PMProf. Niranjan ChakrabortyNational Institute of Plant Genome Research (NIPGR), New DelhiInvited
2:50 PMDr. Narendra ChirmuleSymphonyTech BiologicsWorkshop
3:20 PMDr. Dinesh PalaniveluThermoFisher ScientificInvited
3:35 PMDr. Ravi TrivediZydus LifesciencesInvited
3:50 PMProf. Albert HeckUtrecht University, NetherlandsPlenary (Online)
4:15 PMProf. Surya Pratap SinghIndian Institute of Technology DharwadECR
4:40 PMProf. Syed K. HasanAdvanced Centre for Treatment, Research and Education in Cancer (ACTREC), MumbaiECR
4:50 PMProf. Jonathan Blackburn University of Cape Town, South AfricaPlenary (Online)
5:15 PMProf. Bernhard KusterTechnical University of Munich, GermanyPlenary (Online)
5:40 PMProf. Nikolai SlavovNortheastern University, USAPlenary (Online)
8:00 PMQuiz-Online (for the participants)

Day 2-20th February, 2024

8:25 AMProf. Sanjeeva Srivastava Indian Institute of Technology Bombay Welcome
8:30 AMProf. Ruth HuttenhainStanford University, USAKeynote (Online)
8:50 AMProf. Neil KelleherNorthwestern University, USAPlenary (Online)
9:15 AMProf. Parag MallickStanford University, USAPlenary (Online)
9:40 AMProf. Matthias MannMax Planck Institute of Biochemistry, GermanyPlenary
10:08 AMDr. Alexander MakarovThermo Fisher Scientific, GermanyPlenary
10:36 AMDr. John WilsonProtiFi, USAKeynote
10:56 AMShourjo GhoseBrukerKeynote
TEA
11:30 AMProf. Arup AcharjeeUniversity of AllahabadECR
11:40 AMProf. Jochen SchwenkScilife Lab, SwedenKeynote (Online)
12:00 NoonProf. Hanno SteenHarvard Medical School, USAPlenary
12:28 PMDr. Prashant KumarKarkinos Healthcare Pvt. LtdPlenary
LUNCH
2:00 PMProf. Mukunda GoswamiCentral Institute of Fisheries EducationECR
2:10 PMProf. Sumit K. SinghIndian Institute of Technology (BHU) VaranasiECR
2:20 PMProf. Kartiki DesaiNational Institute of Biomedical GenomicsECR
2:30 PMProf. Graham BallAnglia Ruskin University, UKPlenary
2:58 PMMr. Brendan MacLeanUniversity of Washington, USAPlenary
3:28 PMProf. Robert MoritzInstitute for Systems Biology, USAPlenary
4:10 PMProf. Ashutosh KumarIndian Institute of Technology BombayInvited
4:25 PMDr. Ravi ShankaraSun Pharmaceutical Industries Ltd.Invited
4:40 PMDr. Bhupesh DewanZuventus Healthcare Ltd.Invited
4:55 PMProf. Ratnesh JainInstitute of Chemical Technology, MumbaiInvited
5:10 PMDr. Harsharan Singh Bhatia Helmholtz Munich, GermanyInvited
5:25 PMDr. Jubilee PurkayasthaDefence Research and Development Organisation (DRDO), Delhi Plenary (Online)
5:35 PMProf. Sandipan RayIndian Institute of Technology HyderabadECR
5:45 PMDr. Ankit JainNational Centre for Biological Sciences (NCBS)ECR
5:55 PMStudent presentations (3 X 5)Student
6:10 PMProf. Sanjeeva SrivastavaIndian Institute of Technology BombayClosing Ceremony

SPONSORS

Exhibits

Exhibits on first floor are now filling fast…

STUDENT’S CORNER

  • Oral and Poster presentations at conference (19th and 20th Feb, 2023)
  • Poster presentations during workshop (17th and 18th Feb, 2023)
  • Accommodation in IIT Bombay hostels (Limited availability, first come, first serve)
  • Meet academia and industry experts. Networking and job opportunities.
  • 1 on 1 mentorship from the keynote speakers
  • Get a chance to understand the process of scientific publication from editors of reputed journals.
  • Visit the Department of Biosciences and Bioengineering, Proteomics Lab and Mass Facility, IIT Bombay. Opportunities for informal interaction if you are staying on campus.
  • In addition to the intense scientific sessions, there are also additional opportunities for social and cultural activities.

ABOUT

India

India, the largest democracy of the world, is a country located in southern part of Asia. The seventh-largest country by area, it is the second-most populous country of the world. It is a multi-ethnic and multilingual nation, with 14 official regional languages recognized by the constitution. On its south it is bounded by the Indian Ocean, with Arabian Sea and the Bay of Bengal covering its south-west and south-east boundaries, respectively.The country is home to the ancient Indus Valley civilization and is revered as the nation of historic trade routes and vast empires, and was thus identified with its commercial and cultural wealth decades ago. It is a secular state and treats all religions with equality and proud unites its diverse culture. It is one of the fastest-growing economies of the world and is refereed as a newly industrialised nation. Its economy is world’s seventh-largest by nominal GDP and third-largest by purchasing power parity. The country has a rich cultural heritage and boasts of many renowned monuments, including the Taj Mahal, India Gate, Gateway of India, Red Fort etc. The country is divided into 29 states and 7 union territories, with many of them having their own language and culture. But all the states are well connected, which allows good exchange of ideas and helps in binding all of them together. In India, it is said that our dialect changes every 5 kilometers and our food every 50 kms, and our architecture style every 500 kms every 50 years. Indian history dates back five thousand years ago to the third millennium BC. Hardwired for hospitality, people of India go out of their way to help visitors. We invite you to partake of this cultural extravaganza called India. We invite you to partake of this cultural extravaganza called India.

Maharashtra

Maharashtra, India’s second most populous and economically vital state, is a kaleidoscope of landscapes and cultures spanning the western and central regions of the country. From the picturesque Konkan Coast with its lush greens to the arid heartlands pulsating with India’s intense heat, Maharashtra encapsulates a diverse array of experiences. The state boasts a rich tapestry of vibrant cultures, adorned with numerous forts, temples, mist-covered mountains, and a tranquil coastline, offering a sensory feast for those eager to explore India’s sights, sounds, and flavors. Much of Maharashtra rests on the elevated Deccan plateau, separated from the Konkan coastline by the formidable Ghats—steep hills crowned with medieval forts. These Ghats, or the Sahyadri Range, house inviting hill stations like Khandala, Lonavala, and Matheran, providing respite at altitudes around 1000 meters. The historic significance of the region is profound, as the Deccan once served as the heart of the Maratha Empire under the rule of Shivaji, marking a chapter in Indian history defined by guerrilla warfare and Maratha dominance over the Mughals. Along the narrow Konkan coastal lowland, beaches like Ganapatipule, Juhu, and Tarkarli offer not only water sports but also a chance to bask in the sun and explore historical monuments. Further east, the Satpura hills and the Bhamragad-Chiroli-Gaikhuri ranges form natural boundaries, with Chikhaldara standing as the sole hill resort, boasting an altitude of 1118 meters and the unique distinction of being Maharashtra’s only coffee-growing region, enriched with abundant wildlife, including tigers, panthers, sloth bears, sambar, wild boars, and the elusive wild dogs.

Mumbai

The capital of Maharashtra, Mumbai, colloquially known as Bombay, rests on the west coast of India, embodying a dynamic fusion of commerce and culture, fashion and films, glamour and glitz. This bustling metropolis, a beacon for millions aspiring to a better life, serves as the economic nucleus of the country. As the financial capital, Mumbai oversees the production of everything from textiles to petrochemicals, managing half of India’s foreign trade through its docks and churning out over 300 films annually from its prolific film industry. Mumbai’s historical narrative unfolds from fishing colonies in the seven islands to Portuguese control, eventually passing into the hands of the British East India Company. The city’s growth burgeoned through initiatives like the Hornby Vellard project, transforming it into a major seaport. The 19th century witnessed the rise of Bombay as a trading and manufacturing hub, fueled by migrants from the Deccan and Konkan regions, particularly the influential Gujarati community. Mumbai’s significance in the birth of modern India is underscored by its tramways, chamber of commerce, stock exchange, and land reclamation projects. The city’s efficient civic structure and transport network paved the way for its emergence as India’s commercial capital. Beyond commerce, Mumbai is adorned with architectural landmarks like the Gateway of India and the TajMahal hotel, while Marine Drive, reclaimed in 1920, serves as a breathtaking promenade at dusk. The city’s diverse offerings range from glitzy nightclubs and exclusive restaurants to street-side seafood joints and Irani cafes. Excursions to UNESCO World Heritage Sites, such as Chhatrapati Shivaji Terminus and the Elephanta Island rock carvings, showcase Mumbai’s historical depth. The Sanjay Gandhi National Park, with the Kanheri Caves, and entertainment on Gorai Island’s Essel World provide additional facets to this vibrant city, where diverse communities, religions, and a thriving art culture contribute to a continually evolving architectural landscape, museums, and libraries, ensuring that Mumbai caters to the varied tastes of all who visit.

Proteomics Society of India (PSI)

The Proteomics Society, India PSI is a council of all established proteomics researchers in India. Founded under the guidance of Dr. Ravi Sirdeshmukh in 2009, the PSI has been instrumental in forming a closed knit proteomics community who are constantly deliberating on the over-all directing in which proteomics research in the country must lead so as to find sustainable solutions in mainly health and agricultural sectors which are the two most pressing problems in India and is therefore the research focus of several scientists. The PSI organizes annual meetings so as to enhance the interface of communications and discussions at the international level to build new collaborations and elevate the standards of research. The PSI also provides extensive lead to young emerging scientists with the benefit of their council when required and provides a forum for interaction.

IIT Bombay

Established in 1958, the second of its kind, IIT Bombay was the first to be set up with foreign assistance. The funds from UNESCO came as Roubles from the then Soviet Union. In 1961 Parliament decreed the IITs as ‘Institutes of National Importance’. Since then, IITB has grown from strength to strength to emerge as one of the top technical universities in the world. The institute is recognised worldwide as a leader in the field of engineering education and research. Reputed for the outstanding calibre of students graduating from its undergraduate and postgraduate programmes, the institute attracts the best students from the country for its bachelor’s, master’s and doctoral programmes. The alumni have distinguished themselves through their achievements in and contributions to industry, academics, research, business, government, and social domains. Research and academic programmes at IIT Bombay are driven by an outstanding faculty, many of whom are reputed for their research contributions internationally. Members of the faculty of the institute have won many prestigious awards and recognitions, including the Shanti Swaroop Bhatnagar and Padma awards. IIT Bombay also builds links with peer universities and institutes, both at the national and the international levels, to enhance research and enrich its educational programmes. Located in Powai, one of the northern suburbs of Mumbai, the residents of the institute reap the advantage of being in the busy financial capital of India, while at the same time enjoying the serenity of a campus known for its natural beauty. A fully residential institute, all its students are accommodated in its 15 hostels with in-house dining; the campus also provides excellent amenities for sports and other recreational facilities.

MASSFIITB

High Resolution Mass Spectrometry based Proteomics Research and Training Facility at Indian Institute of Technology Bombay (MASSFIITB) aims to provide advanced, state-of the-art, Mass Spectrometry instrumentation and support to expand OMICS research, education and training in India. The facility can analyze challenging low-abundance, high-complexity samples to identify more compounds faster, quantify more accurately and elucidate structures more thoroughly using Orbitrap Fusion Tribrid Mass Spectrometer. The facility is open to researchers in academia, national R&D Labs, as well as corporate customers. A dedicated team of scientists will be available to help researchers in achieving their scientific goals of proteomics and metabolomics research. The facility also aims to facilitate proteomics training by conducting dedicated courses and workshops.

CONTACT

Prof. Sanjeeva Srivastava
Professor and Convener (APT-2024)

Phone: +(91-22) 2576 7779
E-mail: sanjeeva@iitb.ac.in
Location: Lab No. 304, BSBE Building

Conference email ID: apt2024.iitb@gmail.com

Q: How to get to IIT Bombay?

A: IIT Bombay is located at Powai, which is a Eastern Suburb in the north-eastern part of Mumbai. International flights land at Terminal 2, Chatrapati Shivaji International Airport (Sahar Airport), which is about 10 kms from IIT Bombay. The Domestic Airport is at Terminal 1 in SantaCruz, which is about 15 kms. Call taxis and Pre-paid taxis and autorickshaws are available at the airports.


If you are travelling by trains, buses or other public transport, more instructions to reach IIT Bombay can be found here: https://www.iitb.ac.in/en/about-iit-bombay/getting-to-iit-bombay 

The website has been developed and managed by Deeptarup Biswas, Chaitanya K. Tuckley and Debarghya P. Gupta.