Works by Gevaert, Olivier

Results: 73

Non-invasive genotype prediction of chromosome 1p/19q co-deletion by development and validation of an MRI-based radiomics signature in lower-grade gliomas.

Published in:

Journal of Neuro-Oncology, 2018, v. 140, n. 2, p. 297, doi. 10.1007/s11060-018-2953-y

By:

Han, Yuqi;
Xie, Zhen;
Zang, Yali;
Zhang, Shuaitong;
Gu, Dongsheng;
Zhou, Mu;
Gevaert, Olivier;
Wei, Jingwei;
Li, Chao;
Chen, Hongyan;
Du, Jiang;
Liu, Zhenyu;
Dong, Di;
Tian, Jie;
Zhou, Dabiao

Publication type:

Article

Precision of MRI radiomics features in the liver and hepatocellular carcinoma.

Published in:

2022

By:

Carbonell, Guillermo;
Kennedy, Paul;
Bane, Octavia;
Kirmani, Ammar;
El Homsi, Maria;
Stocker, Daniel;
Said, Daniela;
Mukherjee, Pritam;
Gevaert, Olivier;
Lewis, Sara;
Hectors, Stefanie;
Taouli, Bachir

Publication type:

Journal Article

Genomic data imputation with variational auto-encoders.

Published in:

GigaScience, 2020, v. 9, n. 8, p. N.PAG, doi. 10.1093/gigascience/giaa082

By:

Qiu, Yeping Lina;
Zheng, Hong;
Gevaert, Olivier

Publication type:

Article

Benchmark of long non-coding RNA quantification for RNA sequencing of cancer samples.

Published in:

GigaScience, 2019, v. 8, n. 12, p. N.PAG, doi. 10.1093/gigascience/giz145

By:

Zheng, Hong;
Brennan, Kevin;
Hernaez, Mikel;
Gevaert, Olivier

Publication type:

Article

regionalpcs improve discovery of DNA methylation associations with complex traits.

Published in:

Nature Communications, 2025, v. 16, n. 1, p. 1, doi. 10.1038/s41467-024-55698-6

By:

Eulalio, Tiffany;
Sun, Min Woo;
Gevaert, Olivier;
Greicius, Michael D.;
Montine, Thomas J.;
Nachun, Daniel;
Montgomery, Stephen B.

Publication type:

Article

Digital profiling of gene expression from histology images with linearized attention.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-54182-5

By:

Pizurica, Marija;
Zheng, Yuanning;
Carrillo-Perez, Francisco;
Noor, Humaira;
Yao, Wei;
Wohlfart, Christian;
Vladimirova, Antoaneta;
Marchal, Kathleen;
Gevaert, Olivier

Publication type:

Article

Meta-learning reduces the amount of data needed to build AI models in oncology.

Published in:

2021

By:

Gevaert, Olivier

Publication type:

journal article

GeNNius: an ultrafast drug–target interaction inference method based on graph neural networks.

Published in:

Bioinformatics, 2024, v. 40, n. 1, p. 1, doi. 10.1093/bioinformatics/btad774

By:

Veleiro, Uxía;
Fuente, Jesús de la;
Serrano, Guillermo;
Pizurica, Marija;
Casals, Mikel;
Pineda-Lucena, Antonio;
Vicent, Silve;
Ochoa, Idoia;
Gevaert, Olivier;
Hernaez, Mikel

Publication type:

Article

Segmentation and Classification in Digital Pathology for Glioma Research: Challenges and Deep Learning Approaches.

Published in:

Frontiers in Neuroscience, 2020, v. 14, p. 1, doi. 10.3389/fnins.2020.00027

By:

Kurc, Tahsin;
Bakas, Spyridon;
Ren, Xuhua;
Bagari, Aditya;
Momeni, Alexandre;
Huang, Yue;
Zhang, Lichi;
Kumar, Ashish;
Thibault, Marc;
Qi, Qi;
Wang, Qian;
Kori, Avinash;
Gevaert, Olivier;
Zhang, Yunlong;
Shen, Dinggang;
Khened, Mahendra;
Ding, Xinghao;
Krishnamurthi, Ganapathy;
Kalpathy-Cramer, Jayashree;
Davis, James

Publication type:

Article

Ectopic pregnancy: using the hCG ratio to select women for expectant or medical management.

Published in:

2011

By:

KIRK, EMMA;
VAN CALSTER, BEN;
CONDOUS, GEORGE;
PAPAGEORGHIOU, ARIS T.;
GEVAERT, OLIVIER;
VAN HUFFEL, SABINE;
DE MOOR, BART;
TIMMERMAN, DIRK;
BOURNE, TOM

Publication type:

journal article

Revealing cancer driver genes through integrative transcriptomic and epigenomic analyses with Moonlight.

Published in:

PLoS Computational Biology, 2025, v. 21, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012999

By:

Nourbakhsh, Mona;
Zheng, Yuanning;
Noor, Humaira;
Chen, Hongjin;
Akhuli, Subhayan;
Tiberti, Matteo;
Gevaert, Olivier;
Papaleo, Elena

Publication type:

Article

Reliability-enhanced data cleaning in biomedical machine learning using inductive conformal prediction.

Published in:

PLoS Computational Biology, 2025, v. 21, n. 2, p. 1, doi. 10.1371/journal.pcbi.1012803

By:

Zhan, Xianghao;
Xu, Qinmei;
Zheng, Yuanning;
Lu, Guangming;
Gevaert, Olivier

Publication type:

Article

Strategies to Address the Lack of Labeled Data for Supervised Machine Learning Training With Electronic Health Records: Case Study for the Extraction of Symptoms From Clinical Notes.

Published in:

JMIR Medical Informatics, 2022, v. 10, n. 3, p. 1, doi. 10.2196/32903

By:

Humbert-Droz, Marie;
Mukherjee, Pritam;
Gevaert, Olivier

Publication type:

Article

Machine-Learning-Based Late Fusion on Multi-Omics and Multi-Scale Data for Non-Small-Cell Lung Cancer Diagnosis.

Published in:

Journal of Personalized Medicine, 2022, v. 12, n. 4, p. 601, doi. 10.3390/jpm12040601

By:

Carrillo-Perez, Francisco;
Morales, Juan Carlos;
Castillo-Secilla, Daniel;
Gevaert, Olivier;
Rojas, Ignacio;
Herrera, Luis Javier

Publication type:

Article

NSD1 mutations deregulate transcription and DNA methylation of bivalent developmental genes in Sotos syndrome.

Published in:

Human Molecular Genetics, 2022, v. 31, n. 13, p. 2164, doi. 10.1093/hmg/ddac026

By:

Brennan, Kevin;
Zheng, Hong;
Fahrner, Jill A;
Shin, June Ho;
Gentles, Andrew J;
Schaefer, Bradley;
Sunwoo, John B;
Bernstein, Jonathan A;
Gevaert, Olivier

Publication type:

Article

Single Gene Prognostic Biomarkers in Ovarian Cancer: A Meta-Analysis.

Published in:

PLoS ONE, 2016, v. 11, n. 2, p. 1, doi. 10.1371/journal.pone.0149183

By:

Willis, Scooter;
Villalobos, Victor M.;
Gevaert, Olivier;
Abramovitz, Mark;
Williams, Casey;
Sikic, Branimir I.;
Leyland-Jones, Brian

Publication type:

Article

Tumor response as defined by iRECIST in gastrointestinal malignancies treated with PD-1 and PD-L1 inhibitors and correlation with survival.

Published in:

BMC Cancer, 2021, v. 21, n. 1, p. 1, doi. 10.1186/s12885-021-08944-9

By:

Xie, Peiyi;
Zheng, Hong;
Chen, Haiyang;
Wei, Kaikai;
Pan, Ximin;
Xu, Qinmei;
Wang, Yongchen;
Tang, Changguan;
Gevaert, Olivier;
Meng, Xiaochun

Publication type:

Article

Peripheral blood DNA methylation profiles predict future development of B-cell Non-Hodgkin Lymphoma.

Published in:

NPJ Precision Oncology, 2022, v. 6, n. 1, p. 1, doi. 10.1038/s41698-022-00295-3

By:

Espín-Pérez, Almudena;
Brennan, Kevin;
Ediriwickrema, Asiri Saumya;
Gevaert, Olivier;
Lossos, Izidore S.;
Gentles, Andrew J.

Publication type:

Article

Genetic mutation and biological pathway prediction based on whole slide images in breast carcinoma using deep learning.

Published in:

NPJ Precision Oncology, 2021, v. 5, n. 1, p. 1, doi. 10.1038/s41698-021-00225-9

By:

Qu, Hui;
Zhou, Mu;
Yan, Zhennan;
Wang, He;
Rustgi, Vinod K.;
Zhang, Shaoting;
Gevaert, Olivier;
Metaxas, Dimitris N.

Publication type:

Article

Magnetic resonance image features identify glioblastoma phenotypic subtypes with distinct molecular pathway activities.

Published in:

Science Translational Medicine, 2015, v. 7, n. 303, p. 1, doi. 10.1126/scitranslmed.aaa7582

By:

Haruka Itakura;
Achrol, Achal S.;
Mitchell, Lex A.;
Loya, Joshua J.;
Tiffany Liu;
Westbroek, Erick M.;
Feroze, Abdullah H.;
Rodriguez, Scott;
Echegaray, Sebastian;
Azad, Tej D.;
Yeom, Kristen W.;
Napel, Sandy;
Rubin, Daniel L.;
Chang, Steven D.;
Harsh IV, Griffith R.;
Gevaert, Olivier

Publication type:

Article

Loss of p53-DREAM-mediated repression of cell cycle genes as a driver of lymph node metastasis in head and neck cancer.

Published in:

Genome Medicine, 2023, v. 15, n. 1, p. 1, doi. 10.1186/s13073-023-01236-w

By:

Brennan, Kevin;
Espín-Pérez, Almudena;
Chang, Serena;
Bedi, Nikita;
Saumyaa, Saumyaa;
Shin, June Ho;
Plevritis, Sylvia K.;
Gevaert, Olivier;
Sunwoo, John B.;
Gentles, Andrew J.

Publication type:

Article

Loss of p53-DREAM-mediated repression of cell cycle genes as a driver of lymph node metastasis in head and neck cancer.

Published in:

Genome Medicine, 2023, v. 15, n. 1, p. 1, doi. 10.1186/s13073-023-01236-w

By:

Brennan, Kevin;
Espín-Pérez, Almudena;
Chang, Serena;
Bedi, Nikita;
Saumyaa, Saumyaa;
Shin, June Ho;
Plevritis, Sylvia K.;
Gevaert, Olivier;
Sunwoo, John B.;
Gentles, Andrew J.

Publication type:

Article

Methylation of PITX2, HOXD3, RASSF1 and TDRD1 predicts biochemical recurrence in high-risk prostate cancer.

Published in:

Journal of Cancer Research & Clinical Oncology, 2014, v. 140, n. 11, p. 1849, doi. 10.1007/s00432-014-1738-8

By:

Litovkin, Kirill;
Joniau, Steven;
Lerut, Evelyne;
Laenen, Annouschka;
Gevaert, Olivier;
Spahn, Martin;
Kneitz, Burkhard;
Isebaert, Sofie;
Haustermans, Karin;
Beullens, Monique;
Eynde, Aleyde;
Bollen, Mathieu

Publication type:

Article

Comparison of single and module-based methods for modeling gene regulatory networks.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 558, doi. 10.1093/bioinformatics/btz549

By:

Hernaez, Mikel;
Blatti, Charles;
Gevaert, Olivier

Publication type:

Article

Deep learning with multimodal representation for pancancer prognosis prediction.

Published in:

Bioinformatics, 2019, v. 35, n. 14, p. i446, doi. 10.1093/bioinformatics/btz342

By:

Cheerla, Anika;
Gevaert, Olivier

Publication type:

Article

MethylMix 2.0: an R package for identifying DNA methylation genes.

Published in:

Bioinformatics, 2018, v. 34, n. 17, p. 3044, doi. 10.1093/bioinformatics/bty156

By:

Cedoz, Pierre-Louis;
Prunello, Marcos;
Brennan, Kevin;
Gevaert, Olivier

Publication type:

Article

MethylMix: an R package for identifying DNA methylation-driven genes.

Published in:

2015

By:

Gevaert, Olivier

Publication type:

Product Review

Whole slide images reflect DNA methylation patterns of human tumors.

Published in:

NPJ Genomic Medicine, 2020, v. 5, n. 1, p. 1, doi. 10.1038/s41525-020-0120-9

By:

Zheng, Hong;
Momeni, Alexandre;
Cedoz, Pierre-Louis;
Vogel, Hannes;
Gevaert, Olivier

Publication type:

Article

Selective prediction for extracting unstructured clinical data.

Published in:

Journal of the American Medical Informatics Association, 2024, v. 31, n. 1, p. 188, doi. 10.1093/jamia/ocad182

By:

Swaminathan, Akshay;
Lopez, Ivan;
Wang, William;
Srivastava, Ujwal;
Tran, Edward;
Bhargava-Shah, Aarohi;
Wu, Janet Y;
Ren, Alexander L;
Caoili, Kaitlin;
Bui, Brandon;
Alkhani, Layth;
Lee, Susan;
Mohit, Nathan;
Seo, Noel;
Macedo, Nicholas;
Cheng, Winson;
Liu, Charles;
Thomas, Reena;
Chen, Jonathan H;
Gevaert, Olivier

Publication type:

Article

Molecular profiling of platinum resistant ovarian cancer: Use of the model in clinical practice.

Published in:

International Journal of Cancer, 2006, v. 119, n. 6, p. 1511, doi. 10.1002/ijc.21985

By:

Gevaert, Olivier;
Pochet, Nathalie;
De Smet, Frank;
Van Gorp, Toon;
De Moor, Bart;
Timmerman, Dirk;
Amant, Frédéric;
Vergote, Ignace

Publication type:

Article

Spatial cellular architecture predicts prognosis in glioblastoma.

Published in:

Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-39933-0

By:

Zheng, Yuanning;
Carrillo-Perez, Francisco;
Pizurica, Marija;
Heiland, Dieter Henrik;
Gevaert, Olivier

Publication type:

Article

CaMoDi: a new method for cancer module discovery.

Published in:

BMC Genomics, 2014, v. 15, p. 1, doi. 10.1186/1471-2164-15-S10-S8

By:

Manolakos, Alexandros;
Ochoa, Idoia;
Venkat, Kartik;
Goldsmith, Andrea J.;
Gevaert, Olivier

Publication type:

Article

MicroRNA based Pan-Cancer Diagnosis and Treatment Recommendation.

Published in:

BMC Bioinformatics, 2017, v. 18, p. 1, doi. 10.1186/s12859-016-1421-y

By:

Cheerla, Nikhil;
Gevaert, Olivier

Publication type:

Article

Recurrent copy number alterations in BRCA1-mutated ovarian tumors alter biological pathways.

Published in:

Human Mutation, 2009, v. 30, n. 12, p. 1693, doi. 10.1002/humu.21135

By:

Leunen, Karin;
Gevaert, Olivier;
Daemen, Anneleen;
Vanspauwen, Vanessa;
Michils, Geneviève;
De Moor, Bart;
Moerman, Philippe;
Vergote, Ignace;
Legius, Eric

Publication type:

Article

ImaGene: a web-based software platform for tumor radiogenomic evaluation and reporting.

Published in:

Bioinformatics Advances, 2022, v. 2, n. 1, p. 1, doi. 10.1093/bioadv/vbac079

By:

Sukhadia, Shrey S;
Tyagi, Aayush;
Venkataraman, Vivek;
Mukherjee, Pritam;
Prasad, Pratosh;
Gevaert, Olivier;
Nagaraj, Shivashankar H

Publication type:

Article

Machine Learning Enabled Prediction of Biologically Relevant Gene Expression Using CT‐Based Radiomic Features in Non‐Small Cell Lung Cancer.

Published in:

Cancer Medicine, 2024, v. 13, n. 24, p. 1, doi. 10.1002/cam4.70509

By:

Sukhadia, Shrey S.;
Sadee, Christopher;
Gevaert, Olivier;
Nagaraj, Shivashankar H.

Publication type:

Article

A Framework for Elucidating Regulatory Networks Based on Prior Information and Expression Data.

Published in:

Annals of the New York Academy of Sciences, 2007, v. 1115, p. 240, doi. 10.1196/annals.1407.002

By:

GEVAERT, OLIVIER;
VAN VOOREN, STEVEN;
DE MOOR, BART

Publication type:

Article

SCOPE: predicting future diagnoses in office visits using electronic health records.

Published in:

Scientific Reports, 2023, v. 13, n. 1, p. 1, doi. 10.1038/s41598-023-38257-9

By:

Mukherjee, Pritam;
Humbert-Droz, Marie;
Chen, Jonathan H.;
Gevaert, Olivier

Publication type:

Article

Machine intelligence for radiation science: summary of the Radiation Research Society 67th annual meeting symposium.

Published in:

International Journal of Radiation Biology, 2023, v. 99, n. 8, p. 1291, doi. 10.1080/09553002.2023.2173823

By:

Wilson, Lydia J.;
Kiffer, Frederico C.;
Berrios, Daniel C.;
Bryce-Atkinson, Abigail;
Costes, Sylvain V.;
Gevaert, Olivier;
Matarèse, Bruno F. E.;
Miller, Jack;
Mukherjee, Pritam;
Peach, Kristen;
Schofield, Paul N.;
Slater, Luke T.;
Langen, Britta

Publication type:

Article

Pancancer analysis of DNA methylation-driven genes using MethylMix.

Published in:

Genome Biology, 2015, v. 16, n. 1, p. 194, doi. 10.1186/s13059-014-0579-8

By:

Gevaert, Olivier;
Tibshirani, Robert;
Plevritis, Sylvia K.

Publication type:

Article

CoINcIDE: A framework for discovery of patient subtypes across multiple datasets.

Published in:

Genome Medicine, 2016, v. 8, p. 1, doi. 10.1186/s13073-016-0281-4

By:

Planey, Catherine R.;
Gevaert, Olivier

Publication type:

Article

Oncogenic transformation of diverse gastrointestinal tissues in primary organoid culture.

Published in:

Nature Medicine, 2014, v. 20, n. 7, p. 769, doi. 10.1038/nm.3585

By:

Li, Xingnan;
Nadauld, Lincoln;
Ootani, Akifumi;
Corney, David C;
Pai, Reetesh K;
Gevaert, Olivier;
Cantrell, Michael A;
Rack, Paul G;
Neal, James T;
Chan, Carol W-M;
Yeung, Trevor;
Gong, Xue;
Yuan, Jenny;
Wilhelmy, Julie;
Robine, Sylvie;
Attardi, Laura D;
Plevritis, Sylvia K;
Hung, Kenneth E;
Chen, Chang-Zheng;
Ji, Hanlee P

Publication type:

Article

Expression profiling to predict the clinical behaviour of ovarian cancer fails independent evaluation.

Published in:

2008

By:

Gevaert O;
De Smet F;
Van Gorp T;
Pochet N;
Engelen K;
Amant F;
De Moor B;
Timmerman D;
Vergote I;
Gevaert, Olivier;
De Smet, Frank;
Van Gorp, Toon;
Pochet, Nathalie;
Engelen, Kristof;
Amant, Frederic;
De Moor, Bart;
Timmerman, Dirk;
Vergote, Ignace

Publication type:

journal article

Expression profiling to predict the clinical behaviour of ovarian cancer fails independent evaluation.

Published in:

BMC Cancer, 2008, v. 8, p. 1, doi. 10.1186/1471-2407-8-18

By:

Gevaert, Olivier;
De Smet, Frank;
Van Gorp, Toon;
Pochet, Nathalie;
Engelen, Kristof;
Amant, Frederic;
De Moor, Bart;
Timmerman, Dirk;
Vergote, Ignace

Publication type:

Article

Multimodal Machine Learning in Image-Based and Clinical Biomedicine: Survey and Prospects.

Published in:

International Journal of Computer Vision, 2024, v. 132, n. 9, p. 3753, doi. 10.1007/s11263-024-02032-8

By:

Warner, Elisa;
Lee, Joonsang;
Hsu, William;
Syeda-Mahmood, Tanveer;
Kahn Jr., Charles E.;
Gevaert, Olivier;
Rao, Arvind

Publication type:

Article

Atypical neurofibromas in neurofibromatosis type 1 are premalignant tumors.

Published in:

Genes, Chromosomes & Cancer, 2011, v. 50, n. 12, p. 1021, doi. 10.1002/gcc.20921

By:

Beert, Eline;
Brems, Hilde;
Daniëls, Bruno;
De Wever, Ivo;
Van Calenbergh, Frank;
Schoenaers, Joseph;
Debiec-Rychter, Maria;
Gevaert, Olivier;
De Raedt, Thomas;
Van Den Bruel, Annick;
de Ravel, Thomy;
Cichowski, Karen;
Kluwe, Lan;
Mautner, Victor;
Sciot, Raf;
Legius, Eric

Publication type:

Article

Piecewise Multivariate Linearity Between Kinematic Features and Cumulative Strain Damage Measure (CSDM) Across Different Types of Head Impacts.

Published in:

Annals of Biomedical Engineering, 2022, v. 50, n. 11, p. 1596, doi. 10.1007/s10439-022-03020-0

By:

Zhan, Xianghao;
Li, Yiheng;
Liu, Yuzhe;
Cecchi, Nicholas J.;
Gevaert, Olivier;
Zeineh, Michael M.;
Grant, Gerald A.;
Camarillo, David B.

Publication type:

Article

Predictive Factors of Kinematics in Traumatic Brain Injury from Head Impacts Based on Statistical Interpretation.

Published in:

Annals of Biomedical Engineering, 2021, v. 49, n. 10, p. 2901, doi. 10.1007/s10439-021-02813-z

By:

Zhan, Xianghao;
Li, Yiheng;
Liu, Yuzhe;
Domel, August G.;
Alizadeh, Hossein Vahid;
Zhou, Zhou;
Cecchi, Nicholas J.;
Raymond, Samuel J.;
Tiernan, Stephen;
Ruan, Jesse;
Barbat, Saeed;
Gevaert, Olivier;
Zeineh, Michael M.;
Grant, Gerald A.;
Camarillo, David B.

Publication type:

Article

Multimodal data fusion using sparse canonical correlation analysis and cooperative learning: a COVID-19 cohort study.

Published in:

NPJ Digital Medicine, 2024, v. 7, n. 1, p. 1, doi. 10.1038/s41746-024-01128-2

By:

Er, Ahmet Gorkem;
Ding, Daisy Yi;
Er, Berrin;
Uzun, Mertcan;
Cakmak, Mehmet;
Sadee, Christoph;
Durhan, Gamze;
Ozmen, Mustafa Nasuh;
Tanriover, Mine Durusu;
Topeli, Arzu;
Aydin Son, Yesim;
Tibshirani, Robert;
Unal, Serhat;
Gevaert, Olivier

Publication type:

Article

Foundation metrics for evaluating effectiveness of healthcare conversations powered by generative AI.

Published in:

NPJ Digital Medicine, 2024, v. 7, n. 1, p. 1, doi. 10.1038/s41746-024-01074-z

By:

Abbasian, Mahyar;
Khatibi, Elahe;
Azimi, Iman;
Oniani, David;
Shakeri Hossein Abad, Zahra;
Thieme, Alexander;
Sriram, Ram;
Yang, Zhongqi;
Wang, Yanshan;
Lin, Bryant;
Gevaert, Olivier;
Li, Li-Jia;
Jain, Ramesh;
Rahmani, Amir M.

Publication type:

Article