CV

Feel free to consult a PDF version of my CV.

Publications

Peer-reviewed journals (12)

[J12] A. Shukri, A. C. Carroll, R. Collins, F. Charih, A. Wong, K. K. Biggar. Systematic in vitro optimization of antimicrobial peptides against Escherichia coli (2024). JAC-Antimicrobial Resistance 6(4).

[J11] A. H. Shukri, V. Lukinović, F. Charih, K. K. Biggar. Unraveling the Battle for Lysine: A Review of the Competition among Post-Translational Modifications (2023). Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms 1866(4), pp. 194990.

[J10] F. Charih and J.R. Green. Audiogram Digitization Tool for Audiological Reports (2022). IEEE Access 10, pp. 110761-110769.

[J9] K. Dick, J. B. Tanner, F. Charih, J.R. Green. GasBotty: Multi-Metric Extraction in the Wild (2022). IEEE Access 10, pp. 28487-28498.

[J8] F. Charih, K. Biggar, J.R. Green. Assessing sequence-based protein-protein interaction predictors for use in therapeutic peptide engineering (2022). Scientific Reports 12(9610), pp. 1-13.

[J7] G.M. Rurak, S. Simard, M. Freitas-Andrade, B. Lacoste, F. Charih, A. Van Geel, J. Stead, B. Woodside, J.R. Green, G. Coppola, N. Salmaso. Translatomic database of cortical astroglia across male and female mouse development reveals two distinct developmental phenotypes (2022). Cell Reports 38(5).

[J6] F. Charih, J. R. Green, K. K. Biggar. Machine Learning-Driven Identification of Novel Lysine Methylation Sites with MethylSight (2020). Star Protocols.

[J5] K. K. Biggar*, F. Charih*, H. Liu, Y. B. Ruiz-Blanco, L. Stalker, A. Chopra, J. Connolly, K. Frensemier, M. Galka, Q. Fang, C. Wynder, W. L. Standford, J. R. Green, and S. S-C. Li. Proteome-wide Prediction of Lysine Methylation Reveals Novel Histone Marks and Outlines the Methyllysine Proteome (2020). Cell Reports 32(107896).

[J4] F. Charih, M. Bromwich, A. E. Mark, R. Lefrançois, and J. R. Green. Data-Driven Audiogram Classification for Mobile Audiometry (2020). Scientific Reports 10(3962).

[J3] S. Sarvan, A. Yeung, F. Charih, A. Stintzi, and J.-F. Couture. Purification and characterization of Campylobacter jejuni ferric uptake regulator (2018). BioMetals 32(3), pp. 491-500.

[J2] S. Sarvan, F. Charih, J. Butcher, J. S. Brunzelle, A. Stintzi, and J.-F. Couture. Crystal structure of Campylobacter jejuni peroxide regulator (2018). FEBS Letters 592(13), pp. 2351-2360.

[J1] S. Sarvan, F. Charih, M. Askoura, J. Butcher, J. S. Brunzelle, A. Stintzi, and J.-F. Couture. Functional insights into the interplay between DNA interaction and metal coordination in ferric uptake regulators (2018). Scientific Reports 8(1), pp. 1-14.

Conference proceedings (5)

[C5] K. Dick, F. Charih, J. Woo, J. R. Green. Gas Prices of America: The Machine-Augmented Crowd-Sourcing Era. 17th Conference on Computer and Robot Vision, Ottawa, Canada, May 2020.

[C4] R. Selzler, A. Smith, F. Charih, A. Boyle, J. Holly, C. Bridgewater, M. Besemann, D. Curran, A. D. C. Chan, and J. R. Green. Exploratory Analysis of Ultra-Short-Term Heart Rate Variability Features in Virtual Rehabilitation Sessions. 2020 IEEE International Symposium on Medical Measurements and Applications (MeMeA), Bari, Italy, June 2020.

[C3] F. Charih, A. Steeves, M. Bromwich, A. E. Mark, R. Lefrançois, and J. R. Green. Applications of Machine Learning Methods in Retrospective Studies on Hearing. Proceedings of the 2018 IEEE Life Sciences Conference, Montréal, Canada, October 2018.

[C2] F. Charih, M. Bromwich, R. Lefrançois, A. E. Mark, and J. R. Green. Mining Audiograms to Improve the Interpretability of Automated Audiometry Measurements. Proceedings of the 2018 IEEE International Symposium on Medical Measurements and Applications (MeMeA), Rome, Italy, June 2018.

[C1] K. Dick, F. Charih, Y. Souley Dosso, L. Russell, and J. R. Green. Systematic Street View Sampling: High Quality Annotation of Power Infrastructure in Rural Ontario. Proceedings of the 2018 15th Conference on Computer and Robot Vision (CRV), Toronto, Canada, May 2018.

Pre-prints (1)

[PP1] K. K. Biggar, N. Ridgeway, A. Chopra, V. Lukinović, F. Charih, D. Levy, J. R. Green. Machine learning-based exploration of enzyme-substrate networks: SET8-mediated methyllysine and its changing impact within cancer proteomes (2024). Research Square.

Workshops and presentations

[W9] Machine learning in Biomedical Informatics and Bioinformatics (Guest lecture)

ECOR1055

Ottawa, ON

November 6th, 2024

[W8] Machine learning in Biomedical Informatics and Bioinformatics

ECOR1055

Ottawa, ON

November 1st, 2022

[W7] Evolution-Inspired Peptide Drug Design

GRADflix Challenge

Ottawa, ON

April 2022

[Link]

[W6] AI in biology and biomedical engineering (guest lecture)

ECOR1055

Ottawa, ON

December 2nd, 2019

[W5] X-ray crystallography and computational biochemistry (guest lecture)

BIOC3202

Ottawa, ON

November 22nd, 2019

[Link]

[W4] Introductory Data Analysis with Pandas

Lecture Series (IEEE EMBS Carleton)

Ottawa, ON

October 16th, 2019

[Link]

[W3] Building interactive visualizations in the browser with D3.js

Lecture Series (IEEE EMBS Carleton)

Ottawa, ON

February 6th, 2019

[Link]

[W2] Machine learning in Audiology (guest lecture)

HLTH2001 and HLTH4102 (Carleton University)

Ottawa, ON

November 2018, 2019

[Link]

[W1] MethylSight: A Computational Approach to the Elucidation of the Methyllysine Proteome

21st Chemistry and Biochemistry Graduate Research Conference

Montreal, QC

November 9th, 2018

[Link]

Posters

[P6] In silico design of a novel SMYD3 inhibitor with Darwin

Life Science Day 6.0, Carleton University

Ottawa, ON

May 2023

[P5] Darwin: an evolution-inspired algorithm for target-specific peptide inhibitor engineering

American Peptide Society Symposium

Whistler, BC

June 2022

[P4] Machine Learning in Audiology: Applications and Implications

Ottawa-AI Alliance Workshop

Ottawa, ON

October 2018

[P3] Systematic Street View Sampling for Accurate Urban Population Estimation

Data Day 5.0

Ottawa, ON

May 2018

[P2] Extending the SHOEBOX Audiometry mobile audiometer with an automated audiogram classification system

Life Science Day 2.0, Carleton University

Ottawa, ON

May 2018

[P1] Structural insights into the DNA Binding Activity of the Ferric Uptake Regulator in Campylobacter jejuni

Honours Project Poster Day

Ottawa, ON

April, 2015

Web tools

[WT3] MethylSight (undergoing maintenance)

A web server that makes the MethylSight lysine methylation predictor available to biologists.

[WT2] cuBIC website

The website of the Carleton University Biomedical Informatics Collaboratory.

[WT1] StarDB

A database of translatomic data from astroglia (in collaboration with the Salmaso lab).