Faculty profile

Andrew Emili

ResearcherBanting and Best Department of Medical ResearchUniversity of Toronto

This profile is built from public research funding records (CIHR, NSERC and SSHRC) and PubMed. We have not imported them from a University of Toronto directory, so their courses may be missing. Find their university profile.

Andrew Emili

Researcher

Banting and Best Department of Medical Research

Health Sciences

University of Toronto

Toronto, Ontario, Canada

Supervision signals

Has led research grants, which requires an independent research appointment. Ask their department whether they supervise graduate students.
5 publications in the last five years, latest in 2025.
Senior (last) author on 1 recent paper, a sign of leading a research group.
Principal investigator on 9 research grants (7 CIHR, 2 NSERC), most recently in 2015.
Supervised 1 trainee who won CIHR awards, most recently in 2008.

These signals come from public records, including CIHR, NSERC and SSHRC funding decisions. Ask the professor or the graduate program whether they are taking new students.

Academic metrics

158

Publications

168

Citations

h-index

Collaborators

Grants

Publications by year

Counts cover the works listed on the university profile; citation counts come from Dimensions.

Profiles and links

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Signals and details

Research

Mass Spectrometry Proteomics Computation Conservation Data Mining Functional Genomics Network Protein Complexes

Latest papers

Ligand interaction landscape of transcription factors and essential enzymes in E. coli.
Cell · 2025 · senior author
ToxoNet: A high confidence map of protein-protein interactions in Toxoplasma gondii.
PLoS computational biology · 2024
ZFC3H1 and U1-70K promote the nuclear retention of mRNAs with 5' splice site motifs within nuclear speckles.
RNA (New York, N.Y.) · 2022

All 158 publications

Latest funding

Protein Synthesis and Characterization
NSERC · 2017 · Co-investigator
$150,000
Identifying new therapeutic opportunities by elucidating the physical protein complexes and pathways driving invasion in malaria parasites
CIHR · 2016 · Co-investigator
$948,600
Mapping Macromolecular 'Interactomes' in Human Health and Disease
CIHR · 2015 · Nominated PI
$3,496,235

All 16 grants and awards

From the 150 most recent of 158 publications.

Ligand interaction landscape of transcription factors and essential enzymes in E. coli.

Peng H, Kotelnikov S, Egbert ME, Ofaim S, Stevens GC, Phanse S, Saccon T, Ignatov M, Dutta S, Istace Z, Moutaoufik MT, Aoki H, Kewalramani N, Sun J, Gong Y, Padhorny D, Poda G, Alekseenko A, Porter KA, Jones G, Rodionova I, Guo H, Pogoutse O, Datta S, Saier M, Crovella M, Vajda S, Moreno-Hagelsieb G, Parkinson J, Segre D, Babu M, Kozakov D, Emili A

Cell2025Senior author

DOI: 10.1016/j.cell.2025.01.003 PMID: 39862855

ToxoNet: A high confidence map of protein-protein interactions in Toxoplasma gondii.

Swapna LS, Stevens GC, Sardinha-Silva A, Hu LZ, Brand V, Fusca DD, Wan C, Xiong X, Boyle JP, Grigg ME, Emili A, Parkinson J

PLoS computational biology2024

DOI: 10.1371/journal.pcbi.1012208 PMID: 38900844

ZFC3H1 and U1-70K promote the nuclear retention of mRNAs with 5' splice site motifs within nuclear speckles.

Lee ES, Smith HW, Wolf EJ, Guvenek A, Wang YE, Emili A, Tian B, Palazzo AF

RNA (New York, N.Y.)2022

DOI: 10.1261/rna.079104.122 PMID: 35351812

Integrated multi-omics analysis of adverse cardiac remodeling and metabolic inflexibility upon ErbB2 and ERRα deficiency.

Dufour CR, Xia H, B'chir W, Perry MC, Kuzmanov U, Gainullina A, Dejgaard K, Scholtes C, Ouellet C, Zuo D, Sanguin-Gendreau V, Guluzian C, Smith HW, Muller WJ, Audet-Walsh E, Sergushichev AA, Emili A, Giguère V

Communications biology2022

DOI: 10.1038/s42003-022-03942-4 PMID: 36097051

Global Landscape of Native Protein Complexes in Synechocystis sp. PCC 6803.

Xu C, Wang B, Yang L, Zhongming Hu L, Yi L, Wang Y, Chen S, Emili A, Wan C

Genomics, proteomics & bioinformatics2022

DOI: 10.1016/j.gpb.2020.06.020 PMID: 33636367

TPR is required for the efficient nuclear export of mRNAs and lncRNAs from short and intron-poor genes.

Lee ES, Wolf EJ, Ihn SSJ, Smith HW, Emili A, Palazzo AF

Nucleic acids research2020

DOI: 10.1093/nar/gkaa919 PMID: 33091126

MKRN2 Physically Interacts with GLE1 to Regulate mRNA Export and Zebrafish Retinal Development.

Wolf EJ, Miles A, Lee ES, Nabeel-Shah S, Greenblatt JF, Palazzo AF, Tropepe V, Emili A

Cell reports2020Senior author

DOI: 10.1016/j.celrep.2020.107693 PMID: 32460013

BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain.

Pourhaghighi R, Ash PEA, Phanse S, Goebels F, Hu LZM, Chen S, Zhang Y, Wierbowski SD, Boudeau S, Moutaoufik MT, Malty RH, Malolepsza E, Tsafou K, Nathan A, Cromar G, Guo H, Abdullatif AA, Apicco DJ, Becker LA, Gitler AD, Pulst SM, Youssef A, Hekman R, Havugimana PC, White CA, Blum BC, Ratti A, Bryant CD, Parkinson J, Lage K, Babu M, Yu H, Bader GD, Wolozin B, Emili A

Cell systems2020Senior author

DOI: 10.1016/j.cels.2020.03.003 PMID: 32325033

Global proteomic analyses define an environmentally contingent Hsp90 interactome and reveal chaperone-dependent regulation of stress granule proteins and the R2TP complex in a fungal pathogen.

O'Meara TR, O'Meara MJ, Polvi EJ, Pourhaghighi MR, Liston SD, Lin ZY, Veri AO, Emili A, Gingras AC, Cowen LE

PLoS biology2019

DOI: 10.1371/journal.pbio.3000358 PMID: 31283755

EPIC: software toolkit for elution profile-based inference of protein complexes.

Hu LZ, Goebels F, Tan JH, Wolf E, Kuzmanov U, Wan C, Phanse S, Xu C, Schertzberg M, Fraser AG, Bader GD, Emili A

Nature methods2019Senior author

DOI: 10.1038/s41592-019-0461-4 PMID: 31308550

Protein Synthesis and Characterization

Co-investigatorNSERC2017Research Tools and Instruments

Principal investigators: Shoichet, Molly

$150,000

Identifying new therapeutic opportunities by elucidating the physical protein complexes and pathways driving invasion in malaria parasites

Co-investigatorCIHR2016Project Grant

Principal investigators: Parkinson, John

Keywords: Bioinformatics; Host Invasion; Host-Parasite Interactions; Malaria; Network Biology; Parasite Virulence; Protein Complexes; Protein-Protein Interactions; Proteomics; Systems Biology

$948,600

Mapping Macromolecular 'Interactomes' in Human Health and Disease

Nominated PICIHR2015Foundation Grant

Principal investigators: Emili, Andrew N

Keywords: Cardiovascular Disease; Human Biology; Macromolecules; Mass Spectrometry; Molecular Biology; Network Biology; Protein Complex; Protein Interaction; Proteomics; Systems Biology

$3,496,235

Comparative systems biology of the Apicomplexa

Principal investigatorCIHR2014Operating Grant - PA: Existing and Emerging Threats & Chronic Disease

Principal investigators: Parkinson, John; Emili, Andrew N

Keywords: Apicomplexa; Inner Membrane Complex; Parasites; Protein-Protein Interactions; System Biology

$100,000

NSERC CREATE Training Program in Mass Spectrometry-Enabled Science and Engineering (MS-ESE)

Co-investigatorNSERC2014Collaborative Research and Training Experience

Principal investigators: Bohme, Diethard

$1,347,000

WormMap: Mapping High-Quality Protein Complex 'Interactomes' in C. elegans

Nominated PICIHR2013Operating Grant

Principal investigators: Emili, Andrew N

Keywords: Animal Tissue; Computation; Conservation; Data Mining; Functional Genomics; Mass Spectrometry; Network; Protein Complexes; Proteomics; Worm

$1,267,460

WormMap: Mapping a High-Quality Protein Complex 'Interactome' in C. elegans

Nominated PICIHR2013Operating Grant - PA: Cancer Research (bridge funding)

Principal investigators: Emili, Andrew N

Keywords: Animals; Computation; Conservation; Data Mining; Functional Genomics; Mass Spectrometry; Network; Protein Complexes; Proteomics; Worm

$100,000

Chemical proteomics platform for drug target discovery and validation

Principal investigatorNSERC2012Discovery Grants Program - Individual

Principal investigators: Emili, Andrew

$200,000

Elucidation of protein interaction networks for the human transcription factors

Co-investigatorCIHR2012Operating Grant

Principal investigators: Greenblatt, Jack F

Keywords: Bioinformatics; Chip-Sequencing; Chromatin Immunoprecipitation; Mass Spectrometry; Protein-Protein Interactions; Proteomics; Rna Interference; Transcription; Transcription Factors

$1,544,245

Roles of human RNA polymerase II CTD-interacting proteins in the regulation of gene expression

Co-investigatorCIHR2011Operating Grant

Principal investigators: Greenblatt, Jack F

Keywords: Chip-Sequencing; Chromatin Immunoprecipitation; Ctd; Human Tissue Culture Cells; Mass Spectrometry; Phosphorylation; Rna Polymerase Ii; Rprd Proteins; Transcription

$763,865

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

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Andrew Emili

Research

Latest papers

Latest funding

Ligand interaction landscape of transcription factors and essential enzymes in E.&#xa0;coli.

ToxoNet: A high confidence map of protein-protein interactions in Toxoplasma gondii.

ZFC3H1 and U1-70K promote the nuclear retention of mRNAs with 5' splice site motifs within nuclear speckles.

Integrated multi-omics analysis of adverse cardiac remodeling and metabolic inflexibility upon ErbB2 and ERR&#x3b1; deficiency.

Global Landscape of Native Protein Complexes in Synechocystis sp. PCC 6803.

TPR is required for the efficient nuclear export of mRNAs and lncRNAs from short and intron-poor genes.

MKRN2 Physically Interacts with GLE1 to Regulate mRNA Export and Zebrafish Retinal Development.

BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain.

Global proteomic analyses define an environmentally contingent Hsp90 interactome and reveal chaperone-dependent regulation of stress granule proteins and the R2TP complex in a fungal pathogen.

EPIC: software toolkit for elution profile-based inference of protein complexes.

Protein Synthesis and Characterization

Identifying new therapeutic opportunities by elucidating the physical protein complexes and pathways driving invasion in malaria parasites

Mapping Macromolecular 'Interactomes' in Human Health and Disease

Comparative systems biology of the Apicomplexa

NSERC CREATE Training Program in Mass Spectrometry-Enabled Science and Engineering (MS-ESE)

WormMap: Mapping High-Quality Protein Complex 'Interactomes' in C. elegans

WormMap: Mapping a High-Quality Protein Complex 'Interactome' in C. elegans

Chemical proteomics platform for drug target discovery and validation

Elucidation of protein interaction networks for the human transcription factors

Roles of human RNA polymerase II CTD-interacting proteins in the regulation of gene expression

Frequent collaborators

Jack Greenblatt

John Parkinson

Mohan Babu

Thomas Kislinger

Zhaolei Zhang

Peter Wong

Pingzhao Hu

Brian Cox

Charles Boone

Anne-Claude Gingras

Gary Bader

Peter Liu

Jason Moffat

Hui Peng

Igor Stagljar

Anthony Gramolini

Igor Jurisica

Vincent Tropepe

Janet Rossant

Quaid Morris

Eric Brown

Karim Mekhail

Lili-Naz Hazrati

Philip Wong

Andrew Wilde

Yves De Koninck

Helen McNeill

Anton Neschadim

Emanuel Rosonina

Joanne McLaurin

Alexei Savchenko

Liliana Attisano

Lori Frappier

Mathieu Lupien

Derrick Gibbings

Daniel Durocher

Alan Cochrane

Brenda Andrews

Philip Kim

Robert Rottapel

Ligand interaction landscape of transcription factors and essential enzymes in E. coli.

Integrated multi-omics analysis of adverse cardiac remodeling and metabolic inflexibility upon ErbB2 and ERRα deficiency.