Predrag Radivojac

Publication Activity (10 Years)

Years Active: 2019-2024
Publications (10 Years): 39

Top Topics

Congenital Heart Disease

Clinical Evaluation

Top Venues

medRxiv : the preprint server for health sciences

Bioinformatics advances

bioRxiv : the preprint server for biology

This page only lists publications with an associated author ORCID identifier.

Publications

Katherine R Chao, Lily Wang, Ruchit Panchal, Calwing Liao, Haneen Abderrazzaq, Robert Ye, Patrick Schultz, John Compitello, Riley H Grant, Jack A Kosmicki, Ben Weisburd, William Phu, Michael W Wilson, Kristen M Laricchia, Julia K Goodrich, Daniel Goldstein, Jacqueline I Goldstein, Christopher Vittal, Timothy Poterba, Samantha Baxter, Nicholas A Watts, Matthew Solomonson, null null, Grace Tiao, Michael J Bamshad, Benjamin M Neale, Michael E Talkowski, Daniel G MacArthur, Anne H O'Donnell-Luria, Konrad J Karczewski, Predrag Radivojac, Mark J Daly, Kaitlin E Samocha
The landscape of regional missense mutational intolerance quantified from 125,748 exomes. bioRxiv : the preprint server for biology (2024)
Damiano Piovesan, Davide Zago, Parnal Joshi, M Clara De Paolis Kaluza, Mahta Mehdiabadi, Rashika Ramola, Alexander Miguel Monzon, Walter Reade, Iddo Friedberg, Predrag Radivojac, Silvio C E Tosatto
CAFA-evaluator: a Python tool for benchmarking ontological classification methods. Bioinformatics advances 4 (1) (2024)
Katherine R Chao, Lily Wang, Ruchit Panchal, Calwing Liao, Haneen Abderrazzaq, Robert Ye, Patrick Schultz, John Compitello, Riley H Grant, Jack A Kosmicki, Ben Weisburd, William Phu, Michael W Wilson, Kristen M Laricchia, Julia K Goodrich, Daniel Goldstein, Jacqueline I Goldstein, Christopher Vittal, Timothy Poterba, Samantha Baxter, Nicholas A Watts, Matthew Solomonson, null null, Grace Tiao, Michael J Bamshad, Benjamin M Neale, Michael E Talkowski, Daniel G MacArthur, Anne H O'Donnell-Luria, Konrad J Karczewski, Predrag Radivojac, Mark J Daly, Kaitlin E Samocha
The landscape of regional missense mutational intolerance quantified from 125,748 exomes. bioRxiv : the preprint server for biology (2024)
Yisu Peng, Shantanu Jain, Predrag Radivojac
An algorithm for decoy-free false discovery rate estimation in XL-MS/MS proteomics. Bioinformatics (Oxford, England) 40 (Supplement_1) (2024)
Katherine R Chao, Lily Wang, Ruchit Panchal, Calwing Liao, Haneen Abderrazzaq, Robert Ye, Patrick Schultz, John Compitello, Riley H Grant, Jack A Kosmicki, Ben Weisburd, William Phu, Michael W Wilson, Kristen M Laricchia, Julia K Goodrich, Daniel Goldstein, Jacqueline I Goldstein, Christopher Vittal, Timothy Poterba, Samantha Baxter, Nicholas A Watts, Matthew Solomonson, null null, Grace Tiao, Michael J Bamshad, Benjamin M Neale, Michael E Talkowski, Daniel G MacArthur, Anne H O'Donnell-Luria, Konrad J Karczewski, Predrag Radivojac, Mark J Daly, Kaitlin E Samocha
The landscape of regional missense mutational intolerance quantified from 125,748 exomes. bioRxiv : the preprint server for biology (2024)
Katherine R Chao, Lily Wang, Ruchit Panchal, Calwing Liao, Haneen Abderrazzaq, Robert Ye, Patrick Schultz, John Compitello, Riley H Grant, Jack A Kosmicki, Ben Weisburd, William Phu, Michael W Wilson, Kristen M Laricchia, Julia K Goodrich, Daniel Goldstein, Jacqueline I Goldstein, Christopher Vittal, Timothy Poterba, Samantha Baxter, Nicholas A Watts, Matthew Solomonson, null null, Grace Tiao, Michael J Bamshad, Benjamin M Neale, Michael E Talkowski, Daniel G MacArthur, Anne H O'Donnell-Luria, Konrad J Karczewski, Predrag Radivojac, Mark J Daly, Kaitlin E Samocha
The landscape of regional missense mutational intolerance quantified from 125,748 exomes. bioRxiv : the preprint server for biology (2024)
Sarah L Stenton, Vikas Pejaver, Timothy Bergquist, Leslie G Biesecker, Alicia B Byrne, Emily A W Nadeau, Marc S Greenblatt, Steven M Harrison, Sean V Tavtigian, Predrag Radivojac, Steven E Brenner, Anne H O'Donnell-Luria
Assessment of the evidence yield for the calibrated PP3/BP4 computational recommendations. medRxiv : the preprint server for health sciences (2024)
Sarah L Stenton, Vikas Pejaver, Timothy Bergquist, Leslie G Biesecker, Alicia B Byrne, Emily A W Nadeau, Marc S Greenblatt, Steven M Harrison, Sean V Tavtigian, Predrag Radivojac, Steven E Brenner, Anne H O'Donnell-Luria
Assessment of the evidence yield for the calibrated PP3/BP4 computational recommendations. medRxiv : the preprint server for health sciences (2024)
Marinka Zitnik, Michelle M Li, Aydin Wells, Kimberly Glass, Deisy Morselli Gysi, Arjun Krishnan, T M Murali, Predrag Radivojac, Sushmita Roy, Anaïs Baudot, Serdar Bozdag, Danny Z Chen, Lenore J Cowen, Kapil Devkota, Anthony Gitter, Sara J C Gosline, Pengfei Gu, Pietro Hiram Guzzi, Heng Huang, Meng Jiang, Ziynet Nesibe Kesimoglu, Mehmet Koyuturk, Jian Ma, Alexander R Pico, Nataša Pržulj, Teresa M Przytycka, Benjamin J Raphael, Tunç Başar Köse, Roded Sharan, Yang Shen, Mona Singh, Donna K Slonim, Hanghang Tong, Xinan Holly Yang, Byung-Jun Yoon, Haiyuan Yu, Tijana Milenković
Current and future directions in network biology. Bioinformatics advances 4 (1) (2024)
Damiano Piovesan, Davide Zago, Parnal Joshi, M Clara De Paolis Kaluza, Mahta Mehdiabadi, Rashika Ramola, Alexander Miguel Monzon, Walter Reade, Iddo Friedberg, Predrag Radivojac, Silvio C E Tosatto
CAFA-evaluator: a Python tool for benchmarking ontological classification methods. Bioinformatics advances 4 (1) (2024)
Katherine R Chao, Lily Wang, Ruchit Panchal, Calwing Liao, Haneen Abderrazzaq, Robert Ye, Patrick Schultz, John Compitello, Riley H Grant, Jack A Kosmicki, Ben Weisburd, William Phu, Michael W Wilson, Kristen M Laricchia, Julia K Goodrich, Daniel Goldstein, Jacqueline I Goldstein, Christopher Vittal, Timothy Poterba, Samantha Baxter, Nicholas A Watts, Matthew Solomonson, null null, Grace Tiao, Michael J Bamshad, Benjamin M Neale, Michael E Talkowski, Daniel G MacArthur, Anne H O'Donnell-Luria, Konrad J Karczewski, Predrag Radivojac, Mark J Daly, Kaitlin E Samocha
The landscape of regional missense mutational intolerance quantified from 125,748 exomes. bioRxiv : the preprint server for biology (2024)
Rachel Karchin, Predrag Radivojac, Anne H O'Donnell-Luria, Marc S Greenblatt, Michael Yevgeniy Tolstorukov, Dmitriy Sonkin
Improving transparency of computational tools for variant effect prediction. Nature genetics 56 (7) (2024)
Yisu Peng, Shantanu Jain, Predrag Radivojac
An algorithm for decoy-free false discovery rate estimation in XL-MS/MS proteomics. Bioinformatics (Oxford, England) 40 (Supplement_1) (2024)
Rachel Karchin, Predrag Radivojac, Anne H O'Donnell-Luria, Marc S Greenblatt, Michael Yevgeniy Tolstorukov, Dmitriy Sonkin
Improving transparency of computational tools for variant effect prediction. Nature genetics 56 (7) (2024)
Katherine R Chao, Lily Wang, Ruchit Panchal, Calwing Liao, Haneen Abderrazzaq, Robert Ye, Patrick Schultz, John Compitello, Riley H Grant, Jack A Kosmicki, Ben Weisburd, William Phu, Michael W Wilson, Kristen M Laricchia, Julia K Goodrich, Daniel Goldstein, Jacqueline I Goldstein, Christopher Vittal, Timothy Poterba, Samantha Baxter, Nicholas A Watts, Matthew Solomonson, null null, Grace Tiao, Michael J Bamshad, Benjamin M Neale, Michael E Talkowski, Daniel G MacArthur, Anne H O'Donnell-Luria, Konrad J Karczewski, Predrag Radivojac, Mark J Daly, Kaitlin E Samocha
The landscape of regional missense mutational intolerance quantified from 125,748 exomes. bioRxiv : the preprint server for biology (2024)
Sarah L Stenton, Vikas Pejaver, Timothy Bergquist, Leslie G Biesecker, Alicia B Byrne, Emily A W Nadeau, Marc S Greenblatt, Steven M Harrison, Sean V Tavtigian, Predrag Radivojac, Steven E Brenner, Anne H O'Donnell-Luria
Assessment of the evidence yield for the calibrated PP3/BP4 computational recommendations. medRxiv : the preprint server for health sciences (2024)
Yisu Peng, Shantanu Jain, Predrag Radivojac
An algorithm for decoy-free false discovery rate estimation in XL-MS/MS proteomics. Bioinformatics (Oxford, England) 40 (Supplement_1) (2024)
Rachel Karchin, Predrag Radivojac, Anne H O'Donnell-Luria, Marc S Greenblatt, Michael Yevgeniy Tolstorukov, Dmitriy Sonkin
Improving transparency of computational tools for variant effect prediction. Nature genetics (2024)
Marinka Zitnik, Michelle M Li, Aydin Wells, Kimberly Glass, Deisy Morselli Gysi, Arjun Krishnan, T M Murali, Predrag Radivojac, Sushmita Roy, Anaïs Baudot, Serdar Bozdag, Danny Z Chen, Lenore J Cowen, Kapil Devkota, Anthony Gitter, Sara J C Gosline, Pengfei Gu, Pietro Hiram Guzzi, Heng Huang, Meng Jiang, Ziynet Nesibe Kesimoglu, Mehmet Koyuturk, Jian Ma, Alexander R Pico, Nataša Pržulj, Teresa M Przytycka, Benjamin J Raphael, Tunç Başar Köse, Roded Sharan, Yang Shen, Mona Singh, Donna K Slonim, Hanghang Tong, Xinan Holly Yang, Byung-Jun Yoon, Haiyuan Yu, Tijana Milenković
Current and future directions in network biology. Bioinformatics advances 4 (1) (2024)
Sarah L Stenton, Vikas Pejaver, Timothy Bergquist, Leslie G Biesecker, Alicia B Byrne, Emily A W Nadeau, Marc S Greenblatt, Steven M Harrison, Sean V Tavtigian, Predrag Radivojac, Steven E Brenner, Anne H O'Donnell-Luria, null null
Assessment of the evidence yield for the calibrated PP3/BP4 computational recommendations. medRxiv : the preprint server for health sciences (2024)
Rachel Karchin, Predrag Radivojac, Anne H O'Donnell-Luria, Marc S Greenblatt, Michael Yevgeniy Tolstorukov, Dmitriy Sonkin
Improving transparency of computational tools for variant effect prediction. Nature genetics 56 (7) (2024)
Qi Yan, Rafael F Guerrero, Raiyan R Khan, Andy A Surujnarine, Ronald J Wapner, Matthew W Hahn, Anita Raja, Ansaf SallebAouissi, William A Grobman, Hyagriv Simhan, Nathan R Blue, Robert Silver, Judith H Chung, Uma M Reddy, Predrag Radivojac, Itsik Pe'er, David M Haas
Searching and visualizing genetic associations of pregnancy traits by using GnuMoM2b. medRxiv : the preprint server for health sciences (2023)
Sarah L Stenton, Melanie O'Leary, Gabrielle T Lemire, Grace E VanNoy, Stephanie DiTroia, Vijay S Ganesh, Emily Groopman, Emily O'Heir, Brian Mangilog, Ikeoluwa Osei-Owusu, Lynn S Pais, Jillian G Serrano, Moriel H Singer-Berk, Ben Weisburd, Michael Wilson, Christina Austin-Tse, Marwa Abdelhakim, Azza Thamer Althagafi, Giulia Babbi, Riccardo Bellazzi, Samuele Bovo, Maria Giulia Carta, Rita Casadio, Pieter-Jan Coenen, Federica De Paoli, Matteo Floris, Manavalan Gajapathy, Hoehndorf Robert, Julius O B Jacobsen, Thomas Joseph, Akash Kamandula, Panagiostis Katsonis, Cyrielle Kint, Olivier Lichtarge, Ivan Limongelli, Yulan Lu, Paolo Magni, Tarun Karthik Kumar Mamidi, Pier Luigi Martelli, Marta Mulargia, Giovanna Nicora, Keith Nykamp, Vikas Pejaver, Yisu Peng, Thi Hong Cam Pham, Maurizio S Podda, Aditya Rao, Ettore Rizzo, Vangala G Saipradeep, Castrense Savojardo, Peter Schols, Yang Shen, Naveen Sivadasan, Damian Smedley, Dorian Soru, Rajgopal Srinivasan, Yuanfei Sun, Uma Sunderam, Wuwei Tan, Naina Tiwari, Xiao Wang, Yaqiong Wang, Amanda Williams, Elizabeth A Worthey, Rujie Yin, Yuning You, Daniel Zeiberg, Susanna Zucca, Constantina Bakolitsa, Steven E Brenner, Stephanie Malia Fullerton, Predrag Radivojac, Michael J Bamshad, Anne H O'Donnell-Luria
Critical assessment of variant prioritization methods for rare disease diagnosis within the Rare Genomes Project. medRxiv : the preprint server for health sciences (2023)
Yannick Mahlich, Chengsheng Zhu, Henri Chung, Pavan K Velaga, M Clara De Paolis Kaluza, Predrag Radivojac, Iddo Friedberg, Yana Bromberg
Learning from the unknown: exploring the range of bacterial functionality. Nucleic acids research (2023)
Rashika Ramola, Iddo Friedberg, Predrag Radivojac
The field of protein function prediction as viewed by different domain scientists. Bioinformatics advances 2 (1) (2022)
Rashika Ramola, Iddo Friedberg, Predrag Radivojac
The field of protein function prediction as viewed by different domain scientists. Bioinformatics advances 2 (1) (2022)
Valérie de Crécy-Lagard, Rocio Amorin de Hegedus, Cecilia Noemi Arighi, Jill Babor, Alex Bateman, Ian K Blaby, Crysten Blaby-Haas, Alan J Bridge, Stephen K Burley, Stacey Cleveland, Lucy J Colwell, Ana Conesa, Christian Dallago, Antoine Danchin, Anita de Waard, Adam Deutschbauer, Raquel Dias, Yousong Ding, Gang Fang, Iddo Friedberg, John Gerlt, Joshua Goldford, Mark Gorelik, Benjamin M Gyori, Christopher Henry, Geoffrey Hutinet, Marshall Jaroch, Peter D Karp, Liudmyla Kondratova, Zhiyong Lu, Aron Marchler-Bauer, Maria-Jesus Martin, Claire McWhite, Gaurav D Moghe, Paul Monaghan, Anne Morgat, Christopher John Mungall, Darren A Natale, William C Nelson, Seán O'Donoghue, Christine Orengo, Katherine H O'Toole, Predrag Radivojac, Colbie Reed, Richard J Roberts, Dmitri Rodionov, Irina A Rodionova, Jeffrey D Rudolf, Lana Saleh, Gloria M Sheynkman, Francoise Thibaud-Nissen, Paul D Thomas, Peter Uetz, David Vallenet, Erica Watson Carter, Peter R Weigele, Valerie Wood, Elisha M Wood-Charlson, Jin Xu
A roadmap for the functional annotation of protein families: a community perspective. Database : the journal of biological databases and curation 2022 (2022)
Jose Lugo-Martinez, Daniel Zeiberg, Thomas Gaudelet, Noël Malod-Dognin, Natasa Przulj, Predrag Radivojac
Classification in biological networks with hypergraphlet kernels. Bioinformatics (Oxford, England) 37 (7) (2021)
Yuxiang Jiang, Jorge Urresti, Kymberleigh A Pagel, Akula Bala Pramod, Lilia M Iakoucheva, Predrag Radivojac
Prioritizing de novo autism risk variants with calibrated gene- and variant-scoring models. Human genetics (2021)
Vikas Pejaver, Jorge Urresti, Jose Lugo-Martinez, Kymberleigh A Pagel, Guan Ning Lin, Hyun-Jun Nam, Matthew Mort, David N Cooper, Jonathan Sebat, Lilia M Iakoucheva, Sean D Mooney, Predrag Radivojac
Inferring the molecular and phenotypic impact of amino acid variants with MutPred2. Nature communications 11 (1) (2020)
Wyatt T Clark, Laura Kasak, Constantina Bakolitsa, Zhiqiang Hu, Gaia Andreoletti, Giulia Babbi, Yana Bromberg, Rita Casadio, Roland L Dunbrack, Lukas Folkman, Colby T Ford, David Jones, Panagiostis Katsonis, Kunal Kundu, Olivier Lichtarge, Pier Luigi Martelli, Sean D Mooney, Conor Nodzak, Lipika R Pal, Predrag Radivojac, Castrense Savojardo, Xinghua Shi, Yaoqi Zhou, Aneeta Uppal, Qifang Xu, Yizhou Yin, Vikas Pejaver, Meng Wang, Liping Wei, John Moult, Guoying Karen Yu, Steven E Brenner, Jonathan H LeBowitz
Assessment of predicted enzymatic activity of α-N-acetylglucosaminidase variants of unknown significance for CAGI 2016. Human mutation 40 (9) (2020)
Melissa S Cline, Giulia Babbi, Sandra Bonache, Yue Cao, Rita Casadio, Xavier de la Cruz, Orland Díez, Sara Gutiérrez-Enríquez, Panagiostis Katsonis, Carmen Lai, Olivier Lichtarge, Pier Luigi Martelli, Gilad Mishne, Alejandro Moles-Fernández, Gemma Montalban, Sean D Mooney, Robert O'Conner, Lars Ootes, Selen Özkan, Natalia Padilla, Kymberleigh A Pagel, Vikas Pejaver, Predrag Radivojac, Casandra Riera, Castrense Savojardo, Yang Shen, Yuanfei Sun, Scott Topper, Michael T Parsons, Amanda B Spurdle, David E Goldgar, null null
Assessment of blind predictions of the clinical significance of BRCA1 and BRCA2 variants. Human mutation 40 (9) (2019)
Vikas Pejaver, Giulia Babbi, Rita Casadio, Lukas Folkman, Panagiostis Katsonis, Kunal Kundu, Olivier Lichtarge, Pier Luigi Martelli, Maximilian Miller, John Moult, Lipika R Pal, Castrense Savojardo, Yizhou Yin, Yaoqi Zhou, Predrag Radivojac, Yana Bromberg
Assessment of methods for predicting the effects of PTEN and TPMT protein variants. Human mutation 40 (9) (2019)
Balint Z Kacsoh, Stephen Barton, Yuxiang Jiang, Naihui Zhou, Sean D Mooney, Iddo Friedberg, Predrag Radivojac, Casey S Greene, Giovanni Bosco
New Drosophila Long-Term Memory Genes Revealed by Assessing Computational Function Prediction Methods. G3 (Bethesda, Md.) 9 (1) (2019)
Alin Voskanian-Kordi, Panagiostis Katsonis, Olivier Lichtarge, Vikas Pejaver, Predrag Radivojac, Sean D Mooney, Emidio Capriotti, Yana Bromberg, Yanran Wang, Maximilian Miller, Pier Luigi Martelli, Castrense Savojardo, Giulia Babbi, Rita Casadio, Yue Cao, Yuanfei Sun, Yang Shen, Aditi Garg, Debnath Pal, Yao Yu, Chad D Huff, Sean V Tavtigian, Erin Young, Susan L Neuhausen, Elad Ziv, Lipika R Pal, Gaia Andreoletti, Steven E Brenner, Maricel G Kann
Assessing the performance of in silico methods for predicting the pathogenicity of variants in the gene CHEK2, among Hispanic females with breast cancer. Human mutation 40 (9) (2019)
Gregory McInnes, Roxana Daneshjou, Panagiostis Katsonis, Olivier Lichtarge, Rajgopal Srinivasan, Sadhna Rana, Predrag Radivojac, Sean D Mooney, Kymberleigh A Pagel, Moses Stamboulian, Yuxiang Jiang, Emidio Capriotti, Yanran Wang, Yana Bromberg, Samuele Bovo, Castrense Savojardo, Pier Luigi Martelli, Rita Casadio, Lipika R Pal, John Moult, Steven E Brenner, Russ Altman
Predicting venous thromboembolism risk from exomes in the Critical Assessment of Genome Interpretation (CAGI) challenges. Human mutation 40 (9) (2019)
Laura Kasak, Constantina Bakolitsa, Zhiqiang Hu, Changhua Yu, Jasper Rine, Dago F Dimster-Denk, Gaurav Pandey, Greet De Baets, Yana Bromberg, Chen Cao, Emidio Capriotti, Rita Casadio, Joost Van Durme, Manuel Giollo, Rachel Karchin, Panagiostis Katsonis, Emanuela Leonardi, Olivier Lichtarge, Pier Luigi Martelli, David Masica, Sean D Mooney, Ayodeji Olatubosun, Predrag Radivojac, Frederic Rousseau, Lipika R Pal, Castrense Savojardo, Joost Schymkowitz, Janita Thusberg, Silvio C E Tosatto, Mauno Vihinen, Jouni Väliaho, Susanna Repo, John Moult, Steven E Brenner, Iddo Friedberg
Assessing computational predictions of the phenotypic effect of cystathionine-beta-synthase variants. Human mutation 40 (9) (2019)
Kymberleigh A Pagel, Danny Antaki, AoJie Lian, Matthew Mort, David N Cooper, Jonathan Sebat, Lilia M Iakoucheva, Sean D Mooney, Predrag Radivojac
Pathogenicity and functional impact of non-frameshifting insertion/deletion variation in the human genome. PLoS computational biology 15 (6) (2019)
Laura Kasak, Jesse M Hunter, Rupa Udani, Constantina Bakolitsa, Zhiqiang Hu, Aashish N Adhikari, Giulia Babbi, Rita Casadio, Julian Gough, Rafael F Guerrero, Yuxiang Jiang, Thomas Joseph, Panagiostis Katsonis, Sujatha Kotte, Kunal Kundu, Olivier Lichtarge, Pier Luigi Martelli, Sean D Mooney, John Moult, Lipika R Pal, Jennifer Poitras, Predrag Radivojac, Aditya Rao, Naveen Sivadasan, Uma Sunderam, V G Saipradeep, Yizhou Yin, Jan Zaucha, Steven E Brenner, M Stephen Meyn
CAGI SickKids challenges: Assessment of phenotype and variant predictions derived from clinical and genomic data of children with undiagnosed diseases. Human mutation 40 (9) (2019)