Leonid Chindelevitch

Research

Bioinformatics

Latest papers

Author Correction: Integrating standardized whole genome sequence analysis with a global Mycobacterium tuberculosis antibiotic resistance knowledgebase.
Scientific reports · 2020
Computing the distribution of the Robinson-Foulds distance.
Computational biology and chemistry · 2020 · senior author
A new resolution function to evaluate tree shape statistics.
PloS one · 2019 · senior author

All 14 publications

Latest funding

Harnessing cross-reactive T cell receptors to eliminate latent HIV reservoirs
CIHR · 2018 · Co-investigator
$708,580
Mathematical models and computational methods for molecular epidemiology
NSERC · 2016 · Principal investigator
$154,965
PathOGiST: Calibrated multi-criterion genomic analysis for public health microbiology.
CIHR · 2016 · Nominated PI
$133,332

All 5 grants and awards

14 publications.

01

Author Correction: Integrating standardized whole genome sequence analysis with a global Mycobacterium tuberculosis antibiotic resistance knowledgebase.

Ezewudo M, Borens A, Chiner-Oms Á, Miotto P, Chindelevitch L, Starks AM, Hanna D, Liwski R, Zignol M, Gilpin C, Niemann S, Kohl TA, Warren RM, Crook D, Gagneux S, Hoffner S, Rodrigues C, Comas I, Engelthaler DM, Alland D, Rigouts L, Lange C, Dheda K, Hasan R, McNerney R, Cirillo DM, Schito M, Rodwell TC, Posey J

Scientific reports2020

DOI: 10.1038/s41598-020-58955-y PMID: 32081980

02

Computing the distribution of the Robinson-Foulds distance.

Hayati M, Chindelevitch L

Computational biology and chemistry2020Senior author

DOI: 10.1016/j.compbiolchem.2020.107284 PMID: 32599459

03

A new resolution function to evaluate tree shape statistics.

Hayati M, Shadgar B, Chindelevitch L

PloS one2019Senior author

DOI: 10.1371/journal.pone.0224197 PMID: 31751352

04

Towards better prediction of Mycobacterium tuberculosis lineages from MIRU-VNTR data.

Thain N, Le C, Crossa A, Ahuja SD, Meissner JS, Mathema B, Kreiswirth B, Kurepina N, Cohen T, Chindelevitch L

Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases2019Senior author

DOI: 10.1016/j.meegid.2018.06.029 PMID: 29960078

05

A cubic algorithm for the generalized rank median of three genomes.

Chindelevitch L, La S, Meidanis J

Algorithms for molecular biology : AMB2019First author

DOI: 10.1186/s13015-019-0150-y PMID: 31832081

06

MCS2: minimal coordinated supports for fast enumeration of minimal cut sets in metabolic networks.

Miraskarshahi R, Zabeti H, Stephen T, Chindelevitch L

Bioinformatics (Oxford, England)2019Senior author

DOI: 10.1093/bioinformatics/btz393 PMID: 31510702

07

Collaborative intra-tumor heterogeneity detection.

Khakabimamaghani S, Malikic S, Tang J, Ding D, Morin R, Chindelevitch L, Ester M

Bioinformatics (Oxford, England)2019

DOI: 10.1093/bioinformatics/btz355 PMID: 31510674

08

Deconvoluting the diversity of within-host pathogen strains in a multi-locus sequence typing framework.

Gan GL, Willie E, Chauve C, Chindelevitch L

BMC bioinformatics2019Senior author

DOI: 10.1186/s12859-019-3204-8 PMID: 31842753

09

Integrating standardized whole genome sequence analysis with a global Mycobacterium tuberculosis antibiotic resistance knowledgebase.

Ezewudo M, Borens A, Chiner-Oms Á, Miotto P, Chindelevitch L, Starks AM, Hanna D, Liwski R, Zignol M, Gilpin C, Niemann S, Kohl TA, Warren RM, Crook D, Gagneux S, Hoffner S, Rodrigues C, Comas I, Engelthaler DM, Alland D, Rigouts L, Lange C, Dheda K, Hasan R, McNerney R, Cirillo DM, Schito M, Rodwell TC, Posey J

Scientific reports2018

DOI: 10.1038/s41598-018-33731-1 PMID: 30337678

10

On the rank-distance median of 3 permutations.

Chindelevitch L, Pereira Zanetti JP, Meidanis J

BMC bioinformatics2018First author

DOI: 10.1186/s12859-018-2131-4 PMID: 29745865

Harnessing cross-reactive T cell receptors to eliminate latent HIV reservoirs

Co-investigatorCIHR2018Project Grant

Principal investigators: Brockman, Mark A

Keywords: Antigen Cross-Reactivity; Antigen Sensitivity; Hiv/Aids; Immune Escape, Immune Evasion; Immunotherapy; T Cell Receptor; Vaccine; Viral Latency, Persistence

$708,580

Mathematical models and computational methods for molecular epidemiology

Principal investigatorNSERC2016Discovery Grants Program - Individual

Principal investigators: Chindelevitch, Leonid

$154,965

PathOGiST: Calibrated multi-criterion genomic analysis for public health microbiology.

Nominated PICIHR2016Operating Grant: Bioinformatics and Computational Biology

Principal investigators: Chindelevitch, Leonid

Keywords: Bioinformatics

$133,332

Create Program for Computational Methods for the Analysis of the Diversity and Dynamics of Genomes (Create - CMADDG Training Program)

Co-investigatorNSERC2013Collaborative Research and Training Experience

Principal investigators: Sahinalp, Cenk

$750,000

The cancer genome collaboratory

Co-investigatorNSERC2013Discovery Frontiers - Advancing Big Data Science in Genomics Research

Principal investigators: Stein, Lincoln

$3,099,861

From CIHR, NSERC and SSHRC funding decisions: CIHR since 2008, NSERC since 1991 and SSHRC since 1998, including their latest published competition results.

Frequent collaborators

Epidemiology Division
Philosophy
Mathematics and Statistics
Epidemiology
School of Population and Public Health
Biology
Genome Sciences Centre
Other

Co-authors at Simon Fraser University, colored by department. Thicker lines mean more shared papers; select anyone to open their profile and their own map.

Jennifer Gardy

School of Population and Public Health

1 shared papers, latest 2018

Ashleigh Tuite

Epidemiology Division

1 shared papers, latest 2018

Claudia Isabel Emerson

Philosophy

1 shared papers, latest 2017

Jonathan Dushoff

Biology

1 shared papers, latest 2018

David Champredon

Mathematics and Statistics

1 shared papers, latest 2018

Ryan Morin

Genome Sciences Centre

1 shared papers, latest 2019

David Fisman

Epidemiology

1 shared papers, latest 2018

William Hsiao

Pathology and Laboratory Medicine

1 shared papers, latest 2018

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Subject: Prospective PhD student: Bioinformatics Dear Professor Chindelevitch, My name is [your name], and I am a [your current degree or role] at [your institution]. I am applying for a PhD position starting in [term and year]. I read your paper "Author Correction: Integrating standardized whole genome sequence analysis with a global Mycobacterium tuberculosis antibiotic resistance knowledgebase." (2020), and it connects closely to my own work on [your research topic]. [One or two sentences on what you did and what you learned.] Are you accepting new PhD students for [term and year]? I have attached my CV and transcripts, and I would be glad to talk at a time that suits you. Thank you for your time. Kind regards, [your name]