# Eliseo Papa
## Biomedical Engineer, Computational Biologist, Data Scientist

>[Download PDF](resume.pdf)  
>[LinkedIn](http://uk.linkedin.com/in/eliseopapa)  
>[elipapa@alum.mit.edu](mailto:elipapa@alum.mit.edu)  
>[eliseopapa.org](http://eliseopapa.org)  
> +44 7503 858936  
> + 1 347 635 4736  
> skype: eliseo.papa  
>
>Born: September 16, 1982 — Belleville, Canada  
>Nationality: Italian & Canadian citizen


### Current position

- MBBS Candidate, Graduate Entry Medicine, Imperial College London
- Researcher, Alm lab, MIT

#### Areas of specialization

Medical Engineering, Analysis of large data sets, Microbiome, Machine learning, Immunology, Optics, Nano/microfabrication, Phylogenetics.

#### Research interests

Host-pathogen interactions at the level of microbiome and single cells. Human Microbiome Project. Electronic health records. Emerging properties of networks in a biological and social context. Self-organized systems.

### Languages

- Italian: Mother tongue
- English: Perfect oral written fluency; Canadian inflection
- French: Working knowledge

### Education

Imperial College London
: MBBS Graduate Entry Medicine Programme
  __2009-present__

Harvard Medical School & Massachusets Institute of Technology
: PhD, [Harvard/MIT Health Science & Technology institute](hst.mit.edu)
  __2006 - 2012__  
  Biomedical Engineering  
  Thesis: [High-throughput experimental and computational tools for exploring immunity and the microbiome](https://speakerdeck.com/u/elipapa/p/phd-defense-talk-1)
  
  Courses:
  * Harvard Medical School: pathology, renal pathophysiology, respiratory pathophysiology, cardiac pathophysiology
  * MIT: biomechanics,statistical learning, systems microbiology forces fields and flows in biological systems, fluid mechanics, heat transfer, numerical modeling.

Massachusets Institute of Technology
: SM in Mechanical Engineering
  __2006-2008__

University of Toronto
: BASc (Honors)
  __2001-2005__
  Engineering Science (Biomedical Option)


### Fellowships

__2010-2011__ NSERC Postgraduate D Scholarship, National Science Engineering Research Council, Canada

__2008-2009__ Poitras pre-doctoral fellowship 
  
__2007__ Martino Scholar, Harvard/MIT Health Science Tech. Inst.
  
__2005-2008__ NSERC Postgraduate M Scholarship, National Science Engineering Research Council, Canada

__2005__ OGS Postgraduate Scholarship (declined), Ontario Government, Canada2005

__2004__ NSERC Summer Research Award, National Science Engineering Research Council, Canada

__2003__ #2 Canadian Army University Course Undergrad Scholarship,University of Toronto

### Honors & awards

__2012__ Bursary recipient, *Exploring Human Host-Microbiome Interactions in Health and Disease*, Wellcome Trust Scientific Conferences

__2008__ Martha Gray Prizes for Excellence in Research, Annual Forum, Harvard/MIT Health Science Tech. Inst.

__2008__ Competition Semifinalist, MIT 100k Business Plan

__2004__ University of Toronto Life Sciences Award, University of Toronto

__2002-2004__ Silver T – academic athletic excellence, University of Toronto

__2003__ OUA Academic Achievement Award, Ontario, Canada

__2001__ Ontario Scholar, Government of Ontario, Canada

### Publications

>A list is also available [online](http://scholar.google.co.uk/citations?user=LTOTl0YAAAAJ)

#### Journal articles

*Eliseo Papa*, Michael Docktor, Christopher Smillie, Sarah Weber, Sarah Pacocha Preheim,Dirk Gevers,Georgia Giannoukos, Dawn Ciulla, Diana Tabbaa, Jay Ingram, David B Schauer, Doyle V Ward, Joshua R Korzenik, Ramnik J Xavier, Athos Bousvaros, Eric J Alm.
Non-invasive mapping of the gastrointestinal microbiota identifies children with inflammatory bowel disease. 
**PLoS One**. 2012;7(6):e39242.

Rhiannon White, Sachiko Miyata, *Eliseo Papa*, Eric Spooner, Kleoniki Gounaris, Murray Selkirk, Katerina Artavanis-Tsakonas.
Characterisation of the Trichinella spiralis deubiquitinating enzyme, TsUCH37, an evolutionarily conserved proteasome interaction partner. 
**PLoS Negl Trop Dis.** 2011 Oct;5(10):e1340.

Katerina Artavanis-Tsakonas, Pia V Kasperkovitz, *Eliseo Papa*, Michael L Cardenas, Nida S Khan, Annemarthe G Van der Veen, Hidde L Ploegh and Jatin M Vyas. 
The Tetraspanin CD82 is Specifically Recruited to Fungal and Bacterial Phagosomes Prior to Acidification. 
**Infection and Immunity** 2011 79(3):1098-106\

Adebola Ogunniyi, Craig Story, *Eliseo Papa*, Eduardo Guillen, J.
Christopher Love. Screening Individual Hybridomas by Microengraving to Discover Monoclonal Antibodies. 
**Nature Protocols** 2009 4(5):767-82

Jehnna L. Ronan, Craig Story, *Eliseo Papa*, J. Christopher Love.
Optimization of the surfaces used to capture antibodies from single hybridomas reduces the time required for microengraving.
**Journal of Immunological Methods** 2009, 340(2):164-9\

Craig Story\*, *Eliseo Papa\* (co-author)*, Chih-Chi Andrew Hu,
Jehnna L Ronan, Hidde L Ploegh, J.Christopher Love. 
Profiling Antibody Responses by Multiparametric Analysis of Single B Cells. 
**PNAS** 2008 105(46):17902-7

Hans Fischer, *Eli Papa*, Lichuan Liu, K. Sandy Pang, Warren C. W.
Chan. 
Preliminary Results: Exploring the Interactions of Quantum Dots with Whole Blood Components. 
**SPIE Proceedings** 2005 5969,54

Wen Jiang, *Eli Papa*, Hans Fischer, Sawitri Mardyani, Warren C.W.
Chan. 
Semiconductor quantum dots as contrast agents for whole animal imaging. 
**Trends in Biotechnology** 2004 22:12


#### Posters

White RR, Morrow M, Miyata S, Papa E, Spooner E, Selkirk M, Gounaris K, Das C, Artavanis-Tsakonas K  
Characterisation of the Trichinella Spiralis Deubiquitinating Enzyme, TsUCH37  
: Molecular and Cellular Biology of Helminth Parasites VII __2012__ 

Eliseo Papa, Michael Docktor, Christopher Smillie, Sarah Weber, Sarah P. Preheim, Dirk Gevers, Georgia Giannoukos, Dawn Ciulla, Diana Tabbaa, Jay Ingram, David B Schauer, Doyle V Ward, Joshua R Korzenik, Ramnik J Xavier, Athos Bousvaros, Eric J Alm.  
[Diagnosing IBD from the fecal microbiome](http://eliseopapa.org/downloads/documents/ibdML-poster.pdf)  
: *Exploring Human Host-Microbiome Interactions in Health and Disease*, Wellcome Trust Scientific Conferences __2012__ 

High-Throughput and High-Content Screening of Antibody Responses from Single Cells  
: AIChE annual meeting, Nanoscale Science Engineering Forum __2008__

Applying Ligands to B Cell Receptors by Microfluidics  
: AIChE annual meeting, Engineering Fundamentals in Life Sciences __2008__

Microengraving for high-throughput affinity mapping of humoral responses  
: Harvard/MIT HST Forum __2008__

Multi-variate profiling of B cell immune responses  
: Novartis Vaccine Symposium __2008__

#### Patent applications

Composition of an Array of Microwells with an Integrated Microfluidic System, USA Serial No. 12/390279 __2009__


### Research experience {#experience}

Researcher
: Alm Laboratory for Microbiology
  Prof. Eric J. Alm  
  MIT  
  __2009 - present__  
  - Human Microbiome Project 
  - Bioinformatic analysis of large datasets
  - Microbial evolution, phylogenetics

Researcher
: Laboratory of Hidde L. Ploegh  
  Whitehead Institute  
  MIT  
  __2006-2009__  
  - Affinity and isotype mapping of antibody secretion in individual primary
B cells.
  - Development of computational and statistical tools to monitor and
predict evolution of immune responses
  - Murine antibody cloning and expression; fluorescence tagging
  - Real time fluorescence microcopy; advanced image analysis

Researcher, Biomedical Nanotechnology Group, Prof. W C. Chan, University
of Toronto2004-2005

Nanoparticles cytotoxicity

Quantum Dots synthesis and characterization (TEM, Absorption, PL, X-IRD)

Real time fluorescence microscopy, single molecule spectroscopy and
biophysics.\

Researcher, Biomaterials Group, Prof. M.C.Tanzi, Politecnico di Milano,
Italy2003

Synthesis of biocompatible polymeric scaffolds for tissue engineering
applications.

Morphological, mechanical and functional characterization of
polyurethane scaffolds.\


### Other employment experience

ESL Teacher, Inlingua Language School, Brescia, Italy
__2006__

- Teaching approx. 12hrs/week on individual basis and to large groups
- Provided on site focussed training for companies\


Residence Don, St.Michael’s College Residence, University of
Toronto
__2004-2005__

- Mediate conflicts and provide academic or personal consulting.
- Trained in cultural competence and conflict resolution
- Responsible to enforce rules and to foster an accepting community


IT Consultant System Admin, Ital Engineering s.a.s., Brescia,
Italy
__2000-2002__

- Interviewed the customer and performed an organizational analysis
- Regularly performed formal presentations to the management


Graphic Designer, Photo Image Studio, Brescia, Italy 
__2000__

- Assisted photographers in the preparation of gallery
exhibitions and openings


### Extracurricular activities

Collegiate Cycling. MIT Cycling Team

- National Collegiate Road Champions __2008__
- Eastern Collegiate Cycling Conference Road Champions __2008__
- *Captain*, Cyclocross, $2^{nd}$ US National Championship __2007__
- Eastern Collegiate Cycling Conference Road Champions __2007__
- Cyclocross, US National Champions __2006__


Competitive Triathlon. Atletica Desenzano

- 9th cat. at ITU Bardolino’s International Triathlon __2006__


Competitive Sailing. Italian sailing federation (FIV).

- 12th at European IMS Sailing Championship __2003__
- 6th at Canadian J105 Championship __2004__


Engineers Without Borders. 

- University of Toronto Conference delegate __2004__


University of Toronto Varsity Waterpolo.

- OUA Conference Champions __2002__


Competitive Swimming. Nuoto Club Brescia Swimming Club
__1998-2001__

### Volunteering Experiences {#volunteering}

Field Operative, AISPO, San Raffaele del Monte Tabor Foundation,
Milan, Italy
__2005__

- ID Laboratory Operative, Kampala’s Hospital Gulu’s outpost, Uganda
- Assessed the infrastructure and human resources of Kampala’s hospital


### Interests {#interests}

Listening avidly to Jazz music. International relations. Semiotics and
its implications on mass psychology. Buddhism, Zen and oriental
philosophies. Reading classics of Italian and English literature.
Travelled by kayak along the major European rivers. Rock Climbing.

### Footer {#footer}

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