Chief Technology Officer at Isomorphic Labs

Lausanne Metropolitan Area

Isomorphic Labs

Chief Technology Officer

SOPHiA GENETICS

Researcher in the Pan Cancer Analysis of Whole Genomes Germline Analysis Working Group. Focusing on the analysis of a large scale data set of normal tissue DNA from over 2800 cancer patients in order to assess relationship between germline genetic variation and various molecular phenotypes observed in cancer.

Author of the Butler framework – a highly successful suite of tools for the analysis of large-scale scientific data sets in cloud computing environments. Used on over 10 different clouds to analyze multiple petabytes of genomic data. Manuscript in press at Nature Biotechnology.

Author of the Rheos framework - a suite of bioinformatics algorithms for analysis of large-scale genomic data sets in cloud computing environments, including Amazon Web Services and OpenStack. The framework utilizes a previously unexplored stream-based approach for processing genomic read data in a manner that is optimized for application runtime and scalability on commodity hardware.

Leader of the Life Sciences Demonstrator of the European Open Science Cloud Pilot project, bringing together distributed cloud infrastructures to deliver large-scale genomics analyses to improve personalized medicine in Europe.

EMBL

Senior Technical Officer

Led the Technical Working Group of the Pan Cancer Analysis of Whole Genomes Project - world's largest cancer data analysis initiative. Liaised with stakeholders from over 20 research organizations to deliver the management and analysis of a 750 TB data set consisting of whole genome sequences of over 2700 cancer patients across 12 tumour types.

Managed technical teams at 7 cloud and high performance computing environments throughout the globe through various stages of project delivery. Managed the development of the technical architecture for high performance large scale genomic data processing in computing environments such as the Amazon Web Services, Google Compute Engine, Openstack, and Sun Grid Engine.

Oversaw the operational management of a globally distributed computing cluster with over 6000 cores, 14 TB RAM, and 5 PB of storage.

Contributed to the development of pipelines for infrastructure management, data ingestion, quality control, genomic alignment, and germline and somatic variant calling.

Ontario Institute for Cancer Research

Senior Technical Program Manager

Managed the building and operation of an Amazon Software Development Center in Mississauga, Ontario. Led the development of several large scale cloud-based distributed systems within the Amazon Fulfillment Technologies organization including a Lean Manufacturing platform, Labour Flow software, Stowing software, integration with Kiva Systems' Warehouse Management System, and Picking Optimization software.

Amazon.com

Software Development Manager

Led the Product Development team through several releases of the BPS Enterprise Risk Management platform.
Led the Professional Services team through several high profile engagements with world leading organizations (Canadian Pacific Railway, DTCC, Dominion Resources, Morgan Stanley)

BPS Resolver Inc.

Director of Software Engineering

Team Lead / Dev Manager

Led the design of a Rich Internet Application Framework and developer toolkit for exposing the company's location-intelligence products (Web Services, J2EE webapp, .NET app) using  JSF, <a href="http://ASP.NET">ASP.NET</a>, Adobe Flex/Flash, AJAX.

MapInfo

Sr. Software Engineer

Played a central role in the design and development of an in-house content management system
for <a href="http://cibc.com">cibc.com</a> and CIBC World Markets. Gathered requirements and generated UML design documents
through several phases of system development. Generated technical documentation and user manuals
for the entire system. Was responsible for the majority of feature implementation. Oversaw several
iterations of system deployment and defect resolution.

CIBC

Sr. Developer, Tech Lead

As part of a team, I installed and tested a company-wide workflow queuing and distributing system AWD, and document processing system iFast Desktop. Looked after document migration of over ten million mutual fund transaction documents (electronic versions) from the older work distribution system to AWD to ensure data integrity.

Manulife Financial

System Integrator

Performed development on a number of websites including: <a href="http://cars4u.com">cars4u.com</a>, <a href="http://bmo.com">bmo.com</a>, sprint.ca, liberal.ca, travelcanada.ca as well as a company intranet.

Vickers & Benson

Server-side Engineer, Developer

Performed various technical support tasks on a network of approximately 100 PCs and 70 Macintoshes.

Sergei Yakneen

Sergei Yakneen