Publications

Selected peer-reviewed work

26 indexed articles, 1992–2026, chosen for their place in the career genome. Every entry links to its journal record; identifiers are shown as the sources give them.

2026
Whole-transcriptome sequencing and machine learning detect molecular signatures of endometrial cancer in non-invasive vaginal swabs
Jason D. Wright, Daniel G. Pankratz, Guoying Liu, Shuyang Wu, Devon S. Payne, Patrick M. Pattee, Mei G. Wong, Manqiu Cao, Aubrianne K. Milton, Federico A. Monzon, Mark R. Hopkins, Giulia C. Kennedy, Pedro T. Ramirez, Andrea Mariani
Machine learning for clinical diagnostics Gynecologic cancer detection
International Journal of Gynecological Cancervol. 36 · no. 4 · pp. 104546DOI 10.1016/j.ijgc.2026.104546PMID 41945089↗ Journal record
2024
A Nasal Swab Classifier to Evaluate the Probability of Lung Cancer in Patients With Pulmonary Nodules
Lamb CR, Rieger-Christ KM, Reddy C, Huang J, Ding J, Johnson M, Walsh PS, Bulman WA, Lofaro LR, Wahidi MM, Feller-Kopman DJ, Spira A, Kennedy GC, Mazzone PJ
Machine learning for clinical diagnostics Pulmonary genomic classifiers
Chestvol. 165 · no. 4 · pp. 1009-1019↗ Journal record
2022
Preoperative Identification of Medullary Thyroid Carcinoma (MTC): Clinical Validation of the Afirma MTC RNA-Sequencing Classifier
Gregory W. Randolph, Julie Ann Sosa, Yangyang Hao, Trevor E. Angell, David C. Shonka, Virginia A. LiVolsi, Paul W. Ladenson, Thomas C. Blevins, Quan-Yang Duh, Ronald Ghossein, Mack Harrell, Kepal Narendra Patel, Michael H. Shanik, S. Thomas Traweek, P. Sean Walsh, Michael W. Yeh, Amr H. Abdelhamid Ahmed, Allen S. Ho, Richard J. Wong, Joshua P. Klopper, Jing Huang, Giulia C. Kennedy, Richard T. Kloos, Peter M. Sadow
Thyroid nodule genomic classification
Thyroidvol. 32 · no. 9 · pp. 1069-1076DOI 10.1089/thy.2022.0189↗ Journal record
2021
Afirma Genomic Sequencing Classifier and Xpression Atlas Molecular Findings in Consecutive Bethesda III-VI Thyroid Nodules
Hu MI, Waguespack SG, Dosiou C, Ladenson PW, Livhits MJ, Wirth LJ, Sadow PM, Krane JF, Stack BC, Zafereo ME, Ali SZ, Weitzman SP, Hao Y, Babiarz JE, Kennedy GC, Kloos RT
Thyroid nodule genomic classification
The Journal of Clinical Endocrinology & Metabolismvol. 106 · no. 8 · pp. 2198-2207DOI 10.1210/clinem/dgab304PMID 34009369↗ Journal record
2021
Utility of a Molecular Classifier as a Complement to High-Resolution Computed Tomography to Identify Usual Interstitial Pneumonia
Richeldi L, Scholand MB, Lynch DA, et al., Kennedy GC
Pulmonary genomic classifiers
American Journal of Respiratory and Critical Care Medicinevol. 203 · no. 2 · pp. 211-220↗ Journal record
2020
Improving lung cancer risk stratification leveraging whole transcriptome RNA sequencing and machine learning across multiple cohorts
Yoonha Choi, Jianghan Qu, Shuyang Wu, Yangyang Hao, Jiarui Zhang, Jianchang Ning, Xinwu Yang, Lori Lofaro, Daniel G. Pankratz, Joshua Babiarz, P. Sean Walsh, Ehab Billatos, Marc E. Lenburg, Giulia C. Kennedy, Jon McAuliffe, Jing Huang
Machine learning for clinical diagnostics Pulmonary genomic classifiers
BMC Medical Genomicsvol. 13 · no. Suppl 10 · pp. 151DOI 10.1186/s12920-020-00782-1PMID 33087128↗ Journal record
2019
Analytical and Clinical Validation of Expressed Variants and Fusions From the Whole Transcriptome of Thyroid FNA Samples
Trevor E. Angell, Lori J. Wirth, Maria E. Cabanillas, Maisie L. Shindo, Edmund S. Cibas, Joshua E. Babiarz, Yangyang Hao, Su Yeon Kim, P. Sean Walsh, Jing Huang, Richard T. Kloos, Giulia C. Kennedy, Steven G. Waguespack
Thyroid nodule genomic classification
Frontiers in Endocrinologyvol. 10 · pp. 612DOI 10.3389/fendo.2019.00612↗ Journal record
2019
Analytical Verification Performance of Afirma Genomic Sequencing Classifier in the Diagnosis of Cytologically Indeterminate Thyroid Nodules
Yangyang Hao, Yoonha Choi, Joshua E. Babiarz, Richard T. Kloos, Giulia C. Kennedy, Jing Huang, P. Sean Walsh
Thyroid nodule genomic classification
Frontiers in Endocrinologyvol. 10DOI 10.3389/fendo.2019.00438↗ Journal record
2019
Identification of Hürthle cell cancers: solving a clinical challenge with genomic sequencing and a trio of machine learning algorithms
Yangyang Hao, Quan-Yang Duh, Richard T. Kloos, Joshua Babiarz, R. Mack Harrell, S. Thomas Traweek, Su Yeon Kim, Grazyna Fedorowicz, P. Sean Walsh, Peter M. Sadow, Jing Huang, Giulia C. Kennedy
Thyroid nodule genomic classification Machine learning for clinical diagnostics
BMC Systems Biologyvol. 13 · no. Suppl 2 · pp. 27DOI 10.1186/s12918-019-0693-z↗ Journal record
2019
Use of a molecular classifier to identify usual interstitial pneumonia in conventional transbronchial lung biopsy samples: a prospective validation study
Ganesh Raghu, Kevin R Flaherty, David J Lederer, David A Lynch, Thomas V Colby, Jeffrey L Myers, Steve D Groshong, Brandon T Larsen, Jonathan H Chung, Mark P Steele, Sadia Benzaquen, Karel Calero, Amy H Case, Gerard J Criner, Steven D Nathan, Navdeep S Rai, Murali Ramaswamy, Lars Hagmeyer, J Russell Davis, Umair A Gauhar, Daniel G Pankratz, Yoonha Choi, Jing Huang, P Sean Walsh, Hannah Neville, Lori R Lofaro, Neil M Barth, Giulia C Kennedy, Kevin K Brown, Fernando J Martinez
Pulmonary genomic classifiers
The Lancet Respiratory Medicinevol. 7 · no. 6 · pp. 487-496DOI 10.1016/S2213-2600(19)30059-1↗ Journal record
2018
Identification of usual interstitial pneumonia pattern using RNA-Seq and machine learning: challenges and solutions
Yoonha Choi, Tiffany Ting Liu, Daniel G. Pankratz, Thomas V. Colby, Neil M. Barth, David A. Lynch, P. Sean Walsh, Ganesh Raghu, Giulia C. Kennedy, Jing Huang
Machine learning for clinical diagnostics Pulmonary genomic classifiers
BMC Genomicsvol. 19 · no. Suppl 2DOI 10.1186/s12864-018-4467-6↗ Journal record
2018
Performance of a Genomic Sequencing Classifier for the Preoperative Diagnosis of Cytologically Indeterminate Thyroid Nodules
Kepal N. Patel, Trevor E. Angell, Joshua Babiarz, Neil M. Barth, Thomas Blevins, Quan-Yang Duh, Ronald A. Ghossein, R. Mack Harrell, Jing Huang, Giulia C. Kennedy, Su Yeon Kim, Richard T. Kloos, Virginia A. LiVolsi, Gregory W. Randolph, Peter M. Sadow, Michael H. Shanik, Julie A. Sosa, S. Thomas Traweek, P. Sean Walsh, Duncan Whitney, Michael W. Yeh, Paul W. Ladenson
Thyroid nodule genomic classification Machine learning for clinical diagnostics
JAMA Surgeryvol. 153 · no. 9 · pp. 817-824DOI 10.1001/jamasurg.2018.1153↗ Journal record
2017
Usual Interstitial Pneumonia Can Be Detected in Transbronchial Biopsies Using Machine Learning
Daniel G. Pankratz, Yoonha Choi, Urooj Imtiaz, Grażyna M. Fedorowicz, Jessica D. Anderson, Thomas V. Colby, Jeffrey L. Myers, David A. Lynch, Kevin K. Brown, Kevin R. Flaherty, Mark P. Steele, Steve D. Groshong, Ganesh Raghu, Neil M. Barth, P. Sean Walsh, Jing Huang, Giulia C. Kennedy, Fernando J. Martinez
Machine learning for clinical diagnostics Pulmonary genomic classifiers
Annals of the American Thoracic Societyvol. 14 · no. 11 · pp. 1646-1654DOI 10.1513/AnnalsATS.201612-947OC↗ Journal record
2016
Analytical performance of a bronchial genomic classifier
Zhanzhi Hu, Duncan Whitney, Jessica R. Anderson, Manqiu Cao, Christine Ho, Yoonha Choi, Jing Huang, Robert Frink, Kate Porta Smith, Robert Monroe, Giulia C. Kennedy, P. Sean Walsh
Pulmonary genomic classifiers
BMC Cancervol. 16 · pp. 161↗ Journal record
2016
The diagnostic application of RNA sequencing in patients with thyroid cancer: an analysis of 851 variants and 133 fusions in 524 genes
Moraima Pagan, Richard T. Kloos, Chu-Fang Lin, Kevin J. Travers, Hajime Matsuzaki, Ed Y. Tom, Su Yeon Kim, Mei G. Wong, Andrew C. Stewart, Jing Huang, P. Sean Walsh, Robert J. Monroe, Giulia C. Kennedy
Thyroid nodule genomic classification
BMC Bioinformaticsvol. 17 · no. Suppl 1DOI 10.1186/s12859-015-0849-9↗ Journal record
2015
Classification of usual interstitial pneumonia in patients with interstitial lung disease: assessment of a machine learning approach using high-dimensional transcriptional data
Kim SY, Diggans J, Pankratz D, Huang J, et al., Kennedy GC
Machine learning for clinical diagnostics Pulmonary genomic classifiers
The Lancet Respiratory Medicinevol. 3 · no. 6 · pp. 473-482↗ Journal record
2012
Analytical Performance Verification of a Molecular Diagnostic for Cytology-Indeterminate Thyroid Nodules
P. Sean Walsh, Jonathan I. Wilde, Edward Y. Tom, Jessica D. Reynolds, Daphne C. Chen, Darya I. Chudova, Moraima Pagan, Daniel G. Pankratz, Mei Wong, James Veitch, Lyssa Friedman, Robert Monroe, David L. Steward, Mark A. Lupo, Richard B. Lanman, Giulia C. Kennedy
Thyroid nodule genomic classification
The Journal of Clinical Endocrinology & Metabolismvol. 97 · no. 12 · pp. E2297-E2306DOI 10.1210/jc.2012-1923↗ Journal record
2012
Preoperative Diagnosis of Benign Thyroid Nodules with Indeterminate Cytology
Erik K. Alexander, Giulia C. Kennedy, Zubair W. Baloch, Edmund S. Cibas, Darya Chudova, James Diggans, Lyssa Friedman, Richard T. Kloos, Virginia A. LiVolsi, Susan J. Mandel, Stephen S. Raab, Juan Rosai, David L. Steward, P. Sean Walsh, Jonathan I. Wilde, Martha A. Zeiger, Richard B. Lanman, Bryan R. Haugen
Thyroid nodule genomic classification
New England Journal of Medicinevol. 367 · no. 8 · pp. 705-715DOI 10.1056/NEJMoa1203208PMID 22731672↗ Journal record
2010
Molecular Classification of Thyroid Nodules Using High-Dimensionality Genomic Data
Darya Chudova, Jonathan I. Wilde, Eric T. Wang, Hui Wang, Nusrat Rabbee, Camila M. Egidio, Jessica Reynolds, Ed Tom, Moraima Pagan, C. Ted Rigl, Lyssa Friedman, C. Charles Wang, Richard B. Lanman, Martha Zeiger, Electron Kebebew, Juan Rosai, Giovanni Fellegara, Virginia A. LiVolsi, Giulia C. Kennedy
Thyroid nodule genomic classification Machine learning for clinical diagnostics
The Journal of Clinical Endocrinology & Metabolismvol. 95 · no. 12 · pp. 5296-5304DOI 10.1210/jc.2010-1087↗ Journal record
2005
Dynamic model based algorithms for screening and genotyping over 100K SNPs on oligonucleotide microarrays
Xiaojun Di, Hajime Matsuzaki, Teresa A. Webster, Earl Hubbell, Guoying Liu, Shoulian Dong, Dan Bartell, Jing Huang, Richard Chiles, Geoffrey Yang, Mei-mei Shen, David Kulp, Giulia C. Kennedy, Rui Mei, Keith W. Jones, Simon Cawley
Whole-genome genotyping platforms
Bioinformaticsvol. 21 · no. 9 · pp. 1958-1963↗ Journal record
2004
Parallel Genotyping of Over 10,000 SNPs Using a One-Primer Assay on a High-Density Oligonucleotide Array
Matsuzaki H, Loi H, Dong S, Tsai YY, Fang J, Law J, Di X, Liu WM, Yang G, Liu G, Huang J, Kennedy GC, Ryder TB, Marcus GA, Walsh PS, Shriver MD, Puck JM, Jones KW, Mei R
Whole-genome genotyping platforms
Genome Researchvol. 14 · no. 3 · pp. 414-425↗ Journal record
2003
Algorithms for large-scale genotyping microarrays
Wei-Min Liu, Xiaojun Di, Geoffrey Yang, Hajime Matsuzaki, Jing Huang, Rui Mei, Thomas B. Ryder, Teresa A. Webster, Shoulian Dong, Guoying Liu, Keith W. Jones, Giulia C. Kennedy, David Kulp
Whole-genome genotyping platforms
Bioinformaticsvol. 19 · no. 18 · pp. 2397-2403↗ Journal record
2003
Large-scale genotyping of complex DNA
Kennedy GC, Matsuzaki H, Dong S, et al.
Whole-genome genotyping platforms
Nature Biotechnologyvol. 21 · pp. 1233-1237↗ Journal record
1995
The insulin gene promoter. A simplified nomenclature
M. German, S. Ashcroft, K. Docherty, H. Edlund, T. Edlund, S. Goodison, H. Imura, G. Kennedy, O. Madsen, D. Melloul, L. Moss, K. Olson, M. A. Permutt, J. Philippe, R. P. Robertson, W. J. Rutter, P. Serup, R. Stein, D. Steiner
Gene regulation and gene discovery
Diabetesvol. 44 · no. 8 · pp. 1002-1004↗ Journal record
1995
The minisatellite in the diabetes susceptibility locus IDDM2 regulates insulin transcription
Giulia Catignani Kennedy, Michael S. German, William J. Rutter
Gene regulation and gene discovery
Nature Geneticsvol. 9 · no. 3 · pp. 293-298DOI 10.1038/ng0395-293↗ Journal record
1992
Pur-1, a zinc-finger protein that binds to purine-rich sequences, transactivates an insulin promoter in heterologous cells
G C Kennedy, W J Rutter
Gene regulation and gene discovery
Proceedings of the National Academy of Sciences of the United States of Americavol. 89 · no. 23↗ Journal record

Records pending verification

These publications are attributed to Giulia C. Kennedy by at least one source but have not been verified against a journal record. They are not shown as fact.