Pratik Shah Ph.D.

PRATIK P SHAH Ph.D.

Research Scientist / Principal Investigator

Artificial Intelligence

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Biological Processes

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Disease Diagnostics

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Entrepreneurship

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Medical Technology

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Nanotechnology

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Massachusetts Institute of Technology, Media Lab

E14-374A

75 Amherst Street

Cambridge, MA, 02139

USA

MIT Media Lab Icon

Dr. Pratik Shah develops unorthodox artificial intelligence and machine learning solutions for drug discovery, clinical trials and biomarker imaging (“BioImageMarkers”). Dr. Shah’s research projects include; 1) detection of biomarkers for cancer and other diseases from standard photographs vs. expensive medical images; 2) artificial intelligence toolboxes which use small datasets to discover drug candidates and predict their efficacy as well as for designing successful clinical trials; 3) medical imaging systems which use non-ionizing radiations to image patients instead of X-rays and CT-scan. Clinical trials with these technologies have demonstrated impact and benefit to patients by identifying “Missing sick” individuals who otherwise remain undiagnosed in conventional healthcare settings.

Pratik mentors and advises several Boston area and MIT Medical technology startups. His graduate and postdoctoral research led to the discovery of a new vaccine component to protect against bacterial pneumonia, identification of several novel pathways and metabolites associated with gastrointestinal infections, and a low-cost water quality test for the developing world. Pratik is the recipient of a national award from the American Society for Microbiology and an independent fellowship award from Massachusetts General Hospital. Dr. Shah holds a BS, MS and a PhD in Microbiology and completed fellowship training at The Broad Institute of MIT and Harvard, Massachusetts General Hospital and Harvard Medical School.

Work and Training

MIT Media Lab Massachusetts Institute of Technology

Current

Research Scientist and Principal Investigator

Massachusetts Institute of Technology

  • New artificial intelligence architectures - for antibiotic discovery, faster clinical trials and personalized medicine

  • Biomarker discovery, non-invasive imaging of human body, microfluidics for low cost diagnostics. Rapid prototyping of biomedical devices and next-generation of clinical trials

  • Computer vision, machine learning and deep neural net based platforms for primary care screenings

  • Non-profit leadership, entrepreneurship, startup ventures, health-tech innovations, collaborations with academia, industry and government

Broad Institute Harvard Medical School Massachusetts General Hospital

Training

Fellow Infectious Disease and Microbiology

Broad Institute, Harvard Medical School and Massachusetts General Hospital

  • Antimicrobial therapeutic targets using nanotechnology and chemical biology

  • Characterization of biological pathways that regulate toxin production in enteric pathogens

  • Novel technologies to elucidate host-pathogen interactions by identification of compounds, lipids and bacterial genes responsible for infectious disease

  • Development of diagnostics, therapeutics and vaccines against infectious diseases

University of Alabama at Birmingham

Education

Ph.D. Microbiology

University of Alabama at Birmingham and University of MS. Medical Center

  • Bacterial ABC transporters as vaccines that elicit significant protective immunity against Streptococcus pneumoniae colonization and infections

  • Polyamine biosynthesis and transport mechanisms as targets for prophylactic and therapeutic interventions against S. pneumoniae infections

  • High-throughput approaches (eg. genome arrays/proteomics) to elucidate host-pathogen interactions

  • Identification of novel role for iron in increasing risk for bacterial infections

Honors and Awards

TED Fellows Program

2017

TED Fellow - The TED Fellows program provides transformational support to an international community of 400 visionaries who collaborate across disciplines to create positive change around the world

Gordon Research Seminar

2016

Conference Award - "Image science" Gordon Research conference

INK Fellows Program

2016

INK Fellow - International award recognizing global and cross-disciplinary community of path-breakers

Gordon Research Seminar

2014

Conference Award - Discussion leader international “Microbial Stress Response” Gordon conference in South Hadley, MA

American Society For Microbiology

2014

Conference Travel Award - Triennial bacterial cell-to-cell communication conference in San Antonio, TX

National Postdoctoral Association

2010

Fellowship Award - Annual National Postdoctoral Association meeting, Philadelphia, PA

Massachusetts General Hospital

2010

ECOR Fund for Medical Discovery Independent Fellowship Award - Fellowship training at Broad Institute, Massachusetts General Hospital and Harvard Medical School, Boston MA

American Society For Microbiology

2009

Charles C Randall Award - Ph.D. dissertation research award

American Society For Microbiology

2009

Conference Award - American Society for Microbiology annual national meeting, Philadelphia, PA

American Society For Microbiology

2009

Raymond W. Sarber National Award. Philadelphia, PA. - Recognizes graduate fellows at predoctoral levels for research excellence and potential. Awarded to one outstanding graduate student annually after a nationwide nomination and search.

American Society For Microbiology

2008

Conference Award - American Society for Microbiology’s national meeting Boston, MA - Discovery of a new vaccine candidate against bacterial pneumonia

American Society For Microbiology

2008

American Society for Microbiology Kadner Institute Award for Excellence in Grant Writing, Boulder, CO - Grant writing and mentorship panel

National Institutes of Health

2008

NIH National Graduate Student Research Conference Award, Bethesda, MD

American Society For Microbiology

2006

Conference Award - American Society for Microbiology’s national meeting Orlando, FL

Manuscripts Under Review

ACS Synthetic Biology

2017

Development of stabilized paper-based Immunoassays for detection of matrix mettaloproteinase 9 biomarker in human saliva samples

Emma Yee, Shefali Lathwal, Pratik Shah, Hadley Sikes

MICCAI 2017

2017

Deep neural network architecture for classification of periodontal diseases

Gregory Yauney, Keith Angelino, David A. Edlund, Pratik Shah*

*Senior author

Journal of Dental Research

2017

Increased caries detection with near-infrared high dynamic range imaging instead of tomography

Keith Angelino, David A. Edlund, Pratik Shah*

*Senior author

BMC Oral

2017

Clinical validation and assessment of a modular fluorescent imaging system and algorithm for rapid detection and quantification of dental plaque

Pratik Shah*, Keith Angelino, David A. Edlund, Mrinal Mohit, Gregory Yauney

*Senior author

New England Journal of Medicine

2017

Technology-enabled non-invasive examinations augment primary care

Pratik Shah*, Gregory Yauney, Otkrist Gupta et al.

*Senior author

Journal Publications

Journal of Translational Engineering in Health and Medicine

2017

Near-infrared imaging for detecting caries and structural deformities in teeth

Keith Angelino, David A. Edlund, Pratik Shah*

*Senior author

38th Annual International Conference of the IEEE Engineering in Medicine and Biology Society

2016

Design and preliminary evaluation of a wearable device for mass screening of sleep apnea

Rohan Puri et al. , Pratik Shah*

*Senior author

The American Journal of the Medical Sciences

2011

Misidentification of Candida parapsilosis as C. famata in a clinical case of vertebral osteomyelitis.

Mary Jane Burton, Shah P, Swiatlo E

Microbiology

2011

Polyamine biosynthesis and transport mechanisms are crucial for fitness and pathogenesis of Streptococcus pneumoniae

Pratik Shah, Nanduri B, Swiatlo E, Ma Y, Pendarvis K

BMC Genomics

2010

Identification of novel non-coding small RNAs from Streptococcus pneumoniae TIGR4 using high-resolution genome tiling arrays

Pratik Shah, Kumar R, Swiatlo E, Burgess SC, Lawrence ML, Nanduri B

Microbial Pathogenesis

2009

Role of polyamine transport in Streptococcus pneumoniae response to physiological stress and murine septicemia

Pratik Shah, Romero DG, Swiatlo E

Experimental Biology and Medicine

2009

Mucosal immunization with polyamine transport protein D (PotD) protects mice against nasopharyngeal colonization with Streptococcus pneumoniae

Pratik Shah, Briles DE, King J, Hale Y, Swiatlo E

Microbial Pathogenesis

2009

Differential gene expression in Streptococcus pneumoniae in response to various iron sources

Radha Gupta, Shah P, Swiatlo E

Molecular Microbiology

2008

A multifaceted role for polyamines in bacterial pathogens

Pratik Shah, Edwin Swiatlo

The American Journal of the Medical Sciences

2008

Community-acquired methicillin-resistant Staphylococcus aureus as a cause of Fournier’s gangrene

Mary Jane Burton, Shah P, Swiatlo E

Proteomics

2008

Quantitative analysis of Streptococcus pneumoniae TIGR4 response to in vitro iron restriction by 2-D LC ESI MS/MS

Bindu Nanduri, Shah P, Ramkumar M, Allen EB, Swiatlo E, Burgess SC, Lawrence ML

FEMS Microbiology Letters

2006

Cellular location of polyamine transport protein PotD in Streptococcus pneumoniae

Pratik Shah, Marquart M, Quin LR, Swiatlo E

Infection and Immunity

2006

Immunization with polyamine transport protein PotD protects mice against systemic infection with Streptococcus pneumoniae

Pratik Shah, Swiatlo E

Conference Publications

Siggraph 2016

2016

Capturing the human body: from VR, consumer, to health applications

Siggraph 2016

Anaheim, CA

Computer Vision Pattern Recognition 2016

2016

Clinical imaging of the human body: for health, visualization and predictive analytics

Computer Vision Pattern Recognition 2016

Las Vegas, NV

2nd DARPA Biology is Technology Conference

2015

Modalities for biological tagging and tracking of infected humans

2nd DARPA Biology is Technology Conference

New York, NY

Molecular Genetics of Bacteria and Phage Conference

2014

New signals, pathways and mechanisms for two component systems and host-pathogen interactions for enteric infections

Molecular Genetics of Bacteria and Phage Conference

Madison, WI

114th American Society for Microbiology General Meeting

2014

Tyrosine phosphorylation of bacterial response regulator and cholera disease

114th American Society for Microbiology General Meeting

Boston, MA

5th Triennial ASM Conference on Cell-Cell Communication in Bacteria

2014

New signaling pathways and metabolites for host: pathogen communication during gastrointestinal infections

5th Triennial ASM Conference on Cell-Cell Communication in Bacteria

San Antonio, TX

Gordon Research Seminar

2012

Discovery of novel phosphorylation based molecular rheostat regulating virulence in Vibrio cholerae

Gordon Research Seminar

Waterville, NH

7th New England Regional Center for Excellence Annual Retreat

2011

Regulation of Vibrio cholerae virulence gene expression and pathogenesis in response to novel host signals

7th New England Regional Center for Excellence Annual Retreat

New port, RI

Cold Spring Harbor Conferences

2010

Regulation of Vibrio cholerae virulence gene expression and pathogenesis in microaerophilic growth conditions

Cold Spring Harbor Conferences

Cold Spring Harbor, NY

109th American Society for Microbiology General Meeting

2009

Polyamine biosynthesis and transport mechanisms are crucial for fitness and pathogenesis of Streptococcus pneumoniae

109th American Society for Microbiology General Meeting

Philadelphia, PA

108th American Society for Microbiology General Meeting

2008

Mucosal immunization with polyamine transport protein d (PotD) protects mice against nasopharyngeal colonization with Streptococcus pneumoniae

108th American Society for Microbiology General Meeting

Boston, MA

3rd National Institutes of Health Annual Retreat

2008

Polyamines and pneumococcus: partners in crime

3rd National Institutes of Health Annual Retreat

Bethesda, MA

107th American Society for Microbiology General Meeting

2007

Role of polyamine transport in Streptococcus pneumoniae response to physiological stress and murine septicemia

107th American Society for Microbiology General Meeting

Toronto, ON

106th American Society for Microbiology General Meeting

2006

Immunization with polyamine transport protein PotD protects mice against systemic infection with Streptococcus pneumoniae

106th American Society for Microbiology General Meeting

Orlando, FL

Select Public Presentations

Bugs, drugs and guts

2014

Bugs, drugs and guts

TEDx

Boston, MA

Select Invited Presentations

Medical Informatics World Conference

2017

Innovating for billions with computational sensors

Medical Informatics World Conference

Boston, MA

Rice University

2016

Next generation of health technology solutions

Rice University

Houston, TX

Centro de Investigaciones en Optica, MX

2016

Next generation of biomedical technologies

Centro de Investigaciones en Optica, MX

Guanajuato, Mexico

Pontifical Catholic University of Peru

2016

Machine learning + adaptive optics for medical imaging

Pontifical Catholic University of Peru

Lima, Peru

Centro de Investigación en Matemática, MX

2016

Next generation of healthcare technologies

Centro de Investigación en Matemática, MX

Leon, Mexico

Rethinking Diagnostics Conference, MIT Media Lab

2014

Novel technologies for infectious disease diagnostics

Rethinking Diagnostics Conference, MIT Media Lab

Cambridge, MA

MIT Media Lab

2014

Omics, nano and high throughput technologies and new health tech innovations

MIT Media Lab

Cambridge, MA

Frontiers in Mucosal Immunology Conference

2010

Oxygen availability and cholera: new link for an old disease

Frontiers in Mucosal Immunology Conference

Boston, MA

18th Annual Pneumococcal Research Symposium

2009

Polyamines and the pneumococcus: partners in crime

18th Annual Pneumococcal Research Symposium

Birmingham, AL

Laboratory of Zoonotic Pathogens at Rocky Mountain Laboratories, National Institutes of Health

2009

Polyamines and the pneumococcus: partners in crime

Laboratory of Zoonotic Pathogens at Rocky Mountain Laboratories, National Institutes of Health

Hamilton, MT

Expert Reviewer

http://cio.mx/irmmw-thz2017/biomed.php

42 International conference on infrared, millimeter and terahertz waves

Organizer and technical reviewer

https://venturewell.org

Reviewer, judge and mentor for the National Collegiate Inventors and Innovators Alliance Health Tech Accelerator

Curation of teams focused on infectious diseases and public health on scientific and market considerations

http://www.mit100k.org

Reviewer, judge and mentor for the life sciences track in MIT $100K

Review proposals for startups working on medical devices for cardiovascular, infectious diseases, health management software and CNS pressure measurement

http://www.nature.com/ncomms/

Nature Communications, Infection and Immunity, Molecular Microbiology, Amino Acids, PLOSone, Virulence and FEMS

Reviewer

http://www.tedmed.com/

TEDMED Inc

Curate and nominate speakers and topics related to synthetic genomics, infectious diseases, nanotechnology and global health

Research

MIT Media Lab Massachusetts Institute of Technology

Massachusetts Institute of Technology Media Lab, Cambridge, MA

New artificial intelligence architectures​​​​​​​​​​​​​​​​​​​​-for antibiotic discovery, faster clinical trials and personalized medicine

Clinical trials with next generation of medical systems to replace X-rays and tomography for oral imaging

Medical technologies to identify and treat patients with healthy vital signs but biomarker linked abnormalities

Broad Institute Havard Medical School Massachusetts General Hospital

MGH, Harvard Medical School, Broad Institute, Boston, MA

Antimicrobial therapeutic targets using nanotechnology and chemical biology

Novel biological pathways for cholera toxin activation in response to metabolic changes due to diarrheal infections

Discovery of new technologies to identify compounds, lipids and bacterial genes responsible for infectious diseases of humans

University of Alabama at Birmingham

University of MS Medical Center, Jackson, MS and University of Alabama, Birmingham, AL

Bacterial protein physiology, pathogenesis and vaccine design

Ph.D. Microbiology

Discovery of novel protein vaccine antigens to prevent Streptococcus pneumoniae colonization and infections. Protein antigen-PotD used by government of Brazil and China in vaccine development

Elucidate the role of host and microbial polyamine metabolism in pneumococcal disease. Polyamine biosynthesis and transport mechanisms are targets for prophylactic and therapeutic interventions

Development and implementation of high-throughput approaches (e.g. genome arrays/proteomics) to elucidate host-pathogen interactions. Identification of new role for iron in increasing risk for bacterial infections

Research Support

Oral Imaging Special Interest Group at MIT Media Lab

2016

Oral Imaging Special Interest Group at MIT Media Lab

Imaging solutions for oral health

IDEXX

2014

IDEXX

ICT and drinking water testing with low-cost bacterial growth detection media

ECOR Fund for Medical Discovery Fellowship

2010

ECOR Fund for Medical Discovery Fellowship

Regulation of Vibrio cholerae virulence gene expression and pathogenesis in response to novel host signals

Entrepreneurship and Impact

AQUA-BRIDGE

Harvard Innovation Labs, Allston, MA

Global health initiative using point-of-use testing of drinking water for bacterial counts using a low-cost microbiology indicator media

Co-founder

Global health initiative using point-of-use testing of drinking water for bacterial counts using a low-cost microbiology indicator media
Emerging Worlds

MIT Media Lab

MIT Media Lab special interest group to invent digital technologies at MIT for solving health, transportation, finance, housing and other UN sustainable development goals for 2030

MIT Media Lab special interest group to invent digital technologies at MIT for solving health, transportation, finance, housing and other UN sustainable development goals for 2030
REDX

Welingkar Institute, Mumbai, India

Novel imaging technologies, digital health, mobile platforms, computational methods and machine learning to develop medical solutions

Leadership team in Camera Culture Group and REDX

Novel imaging technologies, digital health, mobile platforms, computational methods and machine learning to develop medical solutions