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Shawn Gomez
Bronze Contributor
7,375 Points

Contributions by role

Author 135
Preprint Author 35
Editor 7,205

Contributions by subject area

Bioengineering
Bioinformatics
Cell Biology
Computational Biology
Computational Science
Molecular Biology
Immunology
Infectious Diseases
Marine Biology
Science Policy
Synthetic Biology
Genomics
Science and Medical Education
Human-Computer Interaction
Genetics
Health Policy
Statistics
Graphics
Software Engineering
Ecology
Microbiology
Mathematical Biology
Translational Medicine
Anesthesiology and Pain Management
Oncology
Drugs and Devices
Global Health
Public Health
Natural Language and Speech
Gastroenterology and Hepatology
Epidemiology
Data Mining and Machine Learning
Mycology
Neuroscience
Pharmacology
Metabolic Sciences
Data Science
Virology
COVID-19
Veterinary Medicine
Cardiology
Gynecology and Obstetrics
Hematology
Pediatrics
Databases
Multimedia
Surgery and Surgical Specialties
Biotechnology
Dentistry
Psychiatry and Psychology
Diabetes and Endocrinology
Emergency and Critical Care
Animal Behavior
Algorithms and Analysis of Algorithms
Nephrology
Urology
Cognitive Disorders
Anatomy and Physiology
Kinesiology
Respiratory Medicine
Nutrition
Radiology and Medical Imaging
Women's Health
Artificial Intelligence
Computer Vision
Autonomous Systems
Robotics
Ophthalmology
Environmental Sciences
Environmental Contamination and Remediation
Plant Science
Bronze Contributor

Shawn M Gomez

PeerJ Editor & Author

Summary

Professor, Joint Department of Biomedical Engineering at UNC-CH and NCSU and Department of Pharmacology at UNC-CH. Previous Florence Gould Scholar and Pasteur Foundation Fellow. Current research interests in systems and synthetic biology, bioimage informatics, and network science applied to biology. Broader interests in translational medicine and the fostering of innovative solutions to problems in healthcare.

Adaptive & Self-Organizing Systems Artificial Intelligence Bioengineering Bioinformatics Computational Biology Data Mining & Machine Learning Data Science Drugs & Devices Genomics Network Science & Online Social Networks Oncology Pharmacology Synthetic Biology Translational Medicine

Editing Journals

PeerJ - the Journal of Life & Environmental Sciences
PeerJ Computer Science

Past or current institution affiliations

University of North Carolina at Chapel Hill

Work details

Professor

University of North Carolina at Chapel Hill
Joint Dept. of Biomedical Engineering at UNC and NC State University

Identities

@shawnmgomez

Websites

  • LinkedIn
  • Gomez Lab

PeerJ Contributions

  • Articles 1
  • Preprints 1
  • Edited 56
July 1, 2014
Automated analysis of invadopodia dynamics in live cells
Matthew E. Berginski, Sarah J. Creed, Shelly Cochran, David W. Roadcap, James E. Bear, Shawn M. Gomez
https://doi.org/10.7717/peerj.462 PubMed 25071988
March 28, 2014 - Version: 1
Automated analysis of invadopodia dynamics in live cells
Matthew E Berginski, Sarah J Creed, Shelly Cochran, David W Roadcap, James E Bear, Shawn M Gomez
https://doi.org/10.7287/peerj.preprints.320v1

Academic Editor on

June 15, 2022
Are all thermometers equal? A study of three infrared thermometers to detect fever in an African outpatient clinic
Nirmal Ravi, Mathura Vithyananthan, Aisha Saidu
https://doi.org/10.7717/peerj.13283 PubMed 35726256
June 10, 2022
The DNA methylation landscape of five pediatric-tumor types
Alyssa C. Parker, Badí I. Quinteros, Stephen R. Piccolo
https://doi.org/10.7717/peerj.13516 PubMed 35707123
May 3, 2022
Network subgraph-based approach for analyzing and comparing molecular networks
Chien-Hung Huang, Efendi Zaenudin, Jeffrey J.P. Tsai, Nilubon Kurubanjerdjit, Ka-Lok Ng
https://doi.org/10.7717/peerj.13137 PubMed 35529499
March 14, 2022
PhosVarDeep: deep-learning based prediction of phospho-variants using sequence information
Xia Liu, Minghui Wang, Ao Li
https://doi.org/10.7717/peerj.12847 PubMed 35310161
March 4, 2022
Machine-learning-based automated quantification machine for virus plaque assay counting
Gridsada Phanomchoeng, Chayatorn Kukiattikoon, Suphanut Plengkham, Siwaporn Boonyasuppayakorn, Saran Salakij, Suvit Poomrittigul, Lunchakorn Wuttisittikulkij
https://doi.org/10.7717/peerj-cs.878
September 15, 2021
Novel ACE2 protein interactions relevant to COVID-19 predicted by evolutionary rate correlations
Austin A. Varela, Sammy Cheng, John H. Werren
https://doi.org/10.7717/peerj.12159 PubMed 34616619
July 1, 2021
A synthetic defective interfering SARS-CoV-2
Shun Yao, Anoop Narayanan, Sydney A. Majowicz, Joyce Jose, Marco Archetti
https://doi.org/10.7717/peerj.11686 PubMed 34249513
May 25, 2021
Cuffless blood pressure estimation based on haemodynamic principles: progress towards mobile healthcare
Takehiro Yamakoshi, Peter Rolfe, Ken-ichi Yamakoshi
https://doi.org/10.7717/peerj.11479 PubMed 34141472
May 18, 2021
High glucose treatment promotes extracellular matrix proteome remodeling in Müller glial cells
Sandra Sagmeister, Juliane Merl-Pham, Agnese Petrera, Cornelia A. Deeg, Stefanie M. Hauck
https://doi.org/10.7717/peerj.11316 PubMed 34046254
April 5, 2021
Multi-schema computational prediction of the comprehensive SARS-CoV-2 vs. human interactome
Kevin Dick, Anand Chopra, Kyle K. Biggar, James R. Green
https://doi.org/10.7717/peerj.11117 PubMed 33868814
December 7, 2020
Developing a machine learning model to identify protein–protein interaction hotspots to facilitate drug discovery
Rohit Nandakumar, Valentin Dinu
https://doi.org/10.7717/peerj.10381 PubMed 33354416
November 27, 2020
A diverse global fungal library for drug discovery
Guodong Niu, Thirunavukkarasu Annamalai, Xiaohong Wang, Sheng Li, Stephen Munga, Guomin Niu, Yuk-Ching Tse-Dinh, Jun Li
https://doi.org/10.7717/peerj.10392 PubMed 33312768
November 9, 2020
MutRank: an R shiny web-application for exploratory targeted mutual rank-based coexpression analyses integrated with user-provided supporting information
Elly Poretsky, Alisa Huffaker
https://doi.org/10.7717/peerj.10264 PubMed 33240618
October 1, 2020
Differential effects of cisplatin on cybrid cells with varying mitochondrial DNA haplogroups
Sina Abedi, Gregory Yung, Shari R. Atilano, Kunal Thaker, Steven Chang, Marilyn Chwa, Kevin Schneider, Nitin Udar, Daniela Bota, M. Cristina Kenney
https://doi.org/10.7717/peerj.9908 PubMed 33062421
September 24, 2020
Characterization of a high-resolution breath acetone meter for ketosis monitoring
Donald J. Suntrup III, Timothy V. Ratto, Matt Ratto, James P. McCarter
https://doi.org/10.7717/peerj.9969 PubMed 33024634
July 10, 2020
Cellular heterogeneity map of diverse immune and stromal phenotypes within breast tumor microenvironment
Yuan Li, Zuhua Chen, Long Wu, Junjie Ye, Weiping Tao
https://doi.org/10.7717/peerj.9478 PubMed 32728493
July 7, 2020
Small molecule therapeutics for COVID-19: repurposing of inhaled furosemide
Zhiyu Wang, Yanfei Wang, Prachi Vilekar, Seung-Pil Yang, Mayuri Gupta, Myong In Oh, Autumn Meek, Lisa Doyle, Laura Villar, Anja Brennecke, Imindu Liyanage, Mark Reed, Christopher Barden, Donald F. Weaver
https://doi.org/10.7717/peerj.9533 PubMed 32704455
May 4, 2020
Mucoactive agent use in adult UK Critical Care Units: a survey of health care professionals’ perception, pharmacists’ description of practice, and point prevalence of mucoactive use in invasively mechanically ventilated patients
Mark Borthwick, Danny McAuley, John Warburton, Rohan Anand, Judy Bradley, Bronwen Connolly, Bronagh Blackwood, Brenda O’Neill, Marc Chikhani, Paul Dark, Murali Shyamsundar
https://doi.org/10.7717/peerj.8828 PubMed 32411506
March 17, 2020
Detection and visualization of abnormality in chest radiographs using modality-specific convolutional neural network ensembles
Sivaramakrishnan Rajaraman, Incheol Kim, Sameer K. Antani
https://doi.org/10.7717/peerj.8693 PubMed 32211231
February 28, 2020
Correcting nuisance variation using Wasserstein distance
Gil Tabak, Minjie Fan, Samuel Yang, Stephan Hoyer, Geoffrey Davis
https://doi.org/10.7717/peerj.8594 PubMed 32161688
February 17, 2020
DISNET: a framework for extracting phenotypic disease information from public sources
Gerardo Lagunes-García, Alejandro Rodríguez-González, Lucía Prieto-Santamaría, Eduardo P. García del Valle, Massimiliano Zanin, Ernestina Menasalvas-Ruiz
https://doi.org/10.7717/peerj.8580 PubMed 32110491
January 8, 2020
Validity and reliability evidence of a point of care assessment of salivary cortisol and α-amylase: a pre-registered study
Kagan J. Ducker, Robin L.J. Lines, Michael T. Chapman, Peter Peeling, Alannah K.A. McKay, Daniel F. Gucciardi
https://doi.org/10.7717/peerj.8366 PubMed 31938581
January 8, 2020
Quantification of the influence of drugs on zebrafish larvae swimming kinematics and energetics
Zhenkai Zhao, Gen Li, Qing Xiao, Hui-Rong Jiang, Gabriel Mbuta Tchivelekete, Xinhua Shu, Hao Liu
https://doi.org/10.7717/peerj.8374 PubMed 31938582
January 6, 2020
The Rametrix™ PRO Toolbox v1.0 for MATLAB®
Ryan S. Senger, John L. Robertson
https://doi.org/10.7717/peerj.8179 PubMed 31934499
January 6, 2020
Blood lactate dynamics in awake and anaesthetized mice after intraperitoneal and subcutaneous injections of lactate—sex matters
Øyvind P. Haugen, Evan M. Vallenari, Imen Belhaj, Milada Cvancarova Småstuen, Jon Storm-Mathisen, Linda H. Bergersen, Ingrid Åmellem
https://doi.org/10.7717/peerj.8328 PubMed 31934509
November 11, 2019
Blind normalization of public high-throughput databases
Sebastian Ohse, Melanie Boerries, Hauke Busch
https://doi.org/10.7717/peerj-cs.231
October 7, 2019
NIPS4Bplus: a richly annotated birdsong audio dataset
Veronica Morfi, Yves Bas, Hanna Pamuła, Hervé Glotin, Dan Stowell
https://doi.org/10.7717/peerj-cs.223
September 24, 2019
ViralPlaque: a Fiji macro for automated assessment of viral plaque statistics
Marco Cacciabue, Anabella Currá, Maria I. Gismondi
https://doi.org/10.7717/peerj.7729 PubMed 31579606
August 26, 2019
Bridging the TB data gap: in silico extraction of rifampicin-resistant tuberculosis diagnostic test results from whole genome sequence data
Kamela C. S. Ng, Jean Claude S. Ngabonziza, Pauline Lempens, Bouke C. de Jong, Frank van Leth, Conor J. Meehan
https://doi.org/10.7717/peerj.7564 PubMed 31523514
June 17, 2019
An integration of deep learning with feature embedding for protein–protein interaction prediction
Yu Yao, Xiuquan Du, Yanyu Diao, Huaixu Zhu
https://doi.org/10.7717/peerj.7126 PubMed 31245182
March 28, 2019
Factors that influence response classifications in chemotherapy treated patient-derived xenografts (PDX)
Joan E. Malcolm, Timothy M. Stearns, Susan D. Airhart, Joel H. Graber, Carol J. Bult
https://doi.org/10.7717/peerj.6586 PubMed 30944774
March 1, 2019
An interpretable machine learning model for diagnosis of Alzheimer's disease
Diptesh Das, Junichi Ito, Tadashi Kadowaki, Koji Tsuda
https://doi.org/10.7717/peerj.6543 PubMed 30842909
February 25, 2019
SNARE-CNN: a 2D convolutional neural network architecture to identify SNARE proteins from high-throughput sequencing data
Nguyen Quoc Khanh Le, Van-Nui Nguyen
https://doi.org/10.7717/peerj-cs.177
January 25, 2019
Increased tooth brushing frequency is associated with reduced gingival pocket bacterial diversity in patients with intracranial aneurysms
Mikko J. Pyysalo, Pashupati P. Mishra, Kati Sundström, Terho Lehtimäki, Pekka J. Karhunen, Tanja Pessi
https://doi.org/10.7717/peerj.6316 PubMed 30701137
December 6, 2018
JacLy: a Jacobian-based method for the inference of metabolic interactions from the covariance of steady-state metabolome data
Mohammad Jafar Khatibipour, Furkan Kurtoğlu, Tunahan Çakır
https://doi.org/10.7717/peerj.6034 PubMed 30564518
July 20, 2018
Combined accelerometer and genetic analysis to differentiate essential tremor from Parkinson’s disease
Bhuvan Molparia, Brian N. Schrader, Eli Cohen, Jennifer L. Wagner, Sandeep R. Gupta, Sherrie Gould, Nelson Hwynn, Emily G. Spencer, Ali Torkamani
https://doi.org/10.7717/peerj.5308 PubMed 30042899
June 5, 2018
An inexpensive, customizable microscopy system for the automated quantification and characterization of multiple adherent cell types
Vishwaratn Asthana, Yuqi Tang, Adam Ferguson, Pallavi Bugga, Anantratn Asthana, Emily R. Evans, Allen L. Chen, Brett S. Stern, Rebekah A. Drezek
https://doi.org/10.7717/peerj.4937 PubMed 29888136
May 30, 2018
Characterization of tumor heterogeneity by latent haplotypes: a sequential Monte Carlo approach
Oyetunji E. Ogundijo, Xiaodong Wang
https://doi.org/10.7717/peerj.4838 PubMed 29868266
May 23, 2018
Sample entropy analysis for the estimating depth of anaesthesia through human EEG signal at different levels of unconsciousness during surgeries
Quan Liu, Li Ma, Shou-Zen Fan, Maysam F. Abbod, Jiann-Shing Shieh
https://doi.org/10.7717/peerj.4817 PubMed 29844970
May 7, 2018
A survey of the views and capabilities of community pharmacists in Western Australia regarding the rescheduling of selected oral antibiotics in a framework of pharmacist prescribing
Fatima Sinkala, Richard Parsons, Bruce Sunderland, Kreshnik Hoti, Petra Czarniak
https://doi.org/10.7717/peerj.4726 PubMed 29761047
May 4, 2018
Repurposing drugs to fast-track therapeutic agents for the treatment of cryptococcosis
Megan Truong, Leigh G. Monahan, Dee A. Carter, Ian G. Charles
https://doi.org/10.7717/peerj.4761 PubMed 29740519
January 31, 2018
Evidence for widespread dysregulation of circadian clock progression in human cancer
Jarrod Shilts, Guanhua Chen, Jacob J. Hughey
https://doi.org/10.7717/peerj.4327 PubMed 29404219
December 20, 2017
ksrMKL: a novel method for identification of kinase–substrate relationships using multiple kernel learning
Minghui Wang, Tao Wang, Ao Li
https://doi.org/10.7717/peerj.4182 PubMed 29340231
September 7, 2017
MetaCRAST: reference-guided extraction of CRISPR spacers from unassembled metagenomes
Abraham G. Moller, Chun Liang
https://doi.org/10.7717/peerj.3788 PubMed 28894651
August 28, 2017
PrePhyloPro: phylogenetic profile-based prediction of whole proteome linkages
Yulong Niu, Chengcheng Liu, Shayan Moghimyfiroozabad, Yi Yang, Kambiz N. Alavian
https://doi.org/10.7717/peerj.3712 PubMed 28875072
June 12, 2017
AliTV—interactive visualization of whole genome comparisons
Markus J. Ankenbrand, Sonja Hohlfeld, Thomas Hackl, Frank Förster
https://doi.org/10.7717/peerj-cs.116
December 14, 2016
Probabilistic adaptation in changing microbial environments
Yarden Katz, Michael Springer
https://doi.org/10.7717/peerj.2716 PubMed 27994963
September 12, 2016
GRNsight: a web application and service for visualizing models of small- to medium-scale gene regulatory networks
Kam D. Dahlquist, John David N. Dionisio, Ben G. Fitzpatrick, Nicole A. Anguiano, Anindita Varshneya, Britain J. Southwick, Mihir Samdarshi
https://doi.org/10.7717/peerj-cs.85
July 7, 2016
Open source approaches to establishing Roseobacter clade bacteria as synthetic biology chassis for biogeoengineering
Yanika Borg, Aurelija Marija Grigonyte, Philipp Boeing, Bethan Wolfenden, Patrick Smith, William Beaufoy, Simon Rose, Tonderai Ratisai, Alexey Zaikin, Darren N. Nesbeth
https://doi.org/10.7717/peerj.2031 PubMed 27441104
January 21, 2016
Cross-platform normalization of microarray and RNA-seq data for machine learning applications
Jeffrey A. Thompson, Jie Tan, Casey S. Greene
https://doi.org/10.7717/peerj.1621 PubMed 26844019
December 22, 2015
Identifying communities from multiplex biological networks
Gilles Didier, Christine Brun, Anaïs Baudot
https://doi.org/10.7717/peerj.1525 PubMed 26713261
November 10, 2015
Metabolic and genomic analysis elucidates strain-level variation in Microbacterium spp. isolated from chromate contaminated sediment
Michael W. Henson, Jorge W. Santo Domingo, Peter S. Kourtev, Roderick V. Jensen, James A. Dunn, Deric R. Learman
https://doi.org/10.7717/peerj.1395 PubMed 26587353
May 19, 2015
PANDA: pathway and annotation explorer for visualizing and interpreting gene-centric data
Steven N. Hart, Raymond M. Moore, Michael T. Zimmermann, Gavin R. Oliver, Jan B. Egan, Alan H. Bryce, Jean-Pierre A. Kocher
https://doi.org/10.7717/peerj.970 PubMed 26038725
June 24, 2014
Single cell transcriptional analysis reveals novel innate immune cell types
Linda E. Kippner, Jinhee Kim, Greg Gibson, Melissa L. Kemp
https://doi.org/10.7717/peerj.452 PubMed 25024920
June 19, 2014
scikit-image: image processing in Python
Stéfan van der Walt, Johannes L. Schönberger, Juan Nunez-Iglesias, François Boulogne, Joshua D. Warner, Neil Yager, Emmanuelle Gouillart, Tony Yu
https://doi.org/10.7717/peerj.453 PubMed 25024921
December 19, 2013
Pathway-GPS and SIGORA: identifying relevant pathways based on the over-representation of their gene-pair signatures
Amir B.K. Foroushani, Fiona S.L. Brinkman, David J. Lynn
https://doi.org/10.7717/peerj.229 PubMed 24432194