Yudi Pawitan

33 papers Journal 32Unranked 1
YearRankTypeTitle / Venue / Authors
2024 J jnl
Confidence in the Reasoning of Large Language Models.
CoRR
Yudi Pawitan, Chris Holmes
2022 J jnl
Isoform-level quantification for single-cell RNA sequencing.
Bioinform.
Lu Pan, Huy Q. Dinh, Yudi Pawitan, Trung-Nghia Vu
2021 J jnl
Circall: fast and accurate methodology for discovery of circular RNAs from paired-end RNA-sequencing data.
BMC Bioinform.
Dat Thanh Nguyen, Quang Thinh Trac, Thi-Hau Nguyen, Ha-Nam Nguyen, Nir Ohad, Yudi Pawitan, Trung-Nghia Vu
2020 J jnl
Alternating EM algorithm for a bilinear model in isoform quantification from RNA-seq data.
Bioinform.
Wenjiang Deng, Tian Mou, Krishna R. Kalari, Nifang Niu, Liewei Wang, Yudi Pawitan, Trung-Nghia Vu
2019 J jnl
Cell-level somatic mutation detection from single-cell RNA sequencing.
Bioinform.
Trung-Nghia Vu, Ha-Nam Nguyen, Stefano Calza, Krishna R. Kalari, Liewei Wang, Yudi Pawitan
2018 J jnl
Isoform-level gene expression patterns in single-cell RNA-sequencing data.
Bioinform.
Trung-Nghia Vu, Quin F. Wills, Krishna R. Kalari, Nifang Niu, Liewei Wang, Yudi Pawitan, Mattias Rantalainen
2018 J jnl
Sparse pathway-based prediction models for high-throughput molecular data.
Comput. Stat. Data Anal.
Sangin Lee, Youngjo Lee, Yudi Pawitan
2016 J jnl
Beta-Poisson model for single-cell RNA-seq data analyses.
Bioinform.
Trung-Nghia Vu, Quin F. Wills, Krishna R. Kalari, Nifang Niu, Liewei Wang, Mattias Rantalainen, Yudi Pawitan
2015 J jnl
A random-effect model approach for group variable selection.
Comput. Stat. Data Anal.
Sangin Lee, Yudi Pawitan, Youngjo Lee
2015 J jnl
Integration of somatic mutation, expression and functional data reveals potential driver genes predictive of breast cancer survival.
Bioinform.
Chen Suo, Olga Hrydziuszko, Donghwan Lee, Setia Pramana, Dhany Saputra, Himanshu Joshi, Stefano Calza, Yudi Pawitan
2015 J jnl
Rediscovery rate estimation for assessing the validation of significant findings in high-throughput studies.
Briefings Bioinform.
Andrea Ganna, Donghwan Lee, Erik Ingelsson, Yudi Pawitan
2014 J jnl
Joint estimation of isoform expression and isoform-specific read distribution using multisample RNA-Seq data.
Bioinform.
Chen Suo, Stefano Calza, Agus Salim, Yudi Pawitan
2013 J jnl
Partial least squares and logistic regression random-effects estimates for gene selection in supervised classification of gene expression data.
J. Biomed. Informatics
Arief Gusnanto, Alexander Ploner, Farag Shuweihdi, Yudi Pawitan
2012 J jnl
Correcting for cancer genome size and tumour cell content enables better estimation of copy number alterations from next-generation sequence data.
Bioinform.
Arief Gusnanto, Henry M. Wood, Yudi Pawitan, Pamela Rabbitts, Stefano Berri
2012 J jnl
Network enrichment analysis: extension of gene-set enrichment analysis to gene networks.
BMC Bioinform.
Andrey Alexeyenko, Woojoo Lee, Maria Pernemalm, Justin Guegan, Philippe Dessen, Vladimir Lazar, Janne Lehtiö, Yudi Pawitan
2012 J jnl
Statistical challenges associated with detecting copy number variations with next-generation sequencing.
Bioinform.
Teo Shu Mei, Yudi Pawitan, Ku Chee Seng, Kee Seng Chia, Agus Salim
2011 J jnl
Multi-platform segmentation for joint detection of copy number variants.
Bioinform.
Teo Shu Mei, Yudi Pawitan, Vikrant Kumar, Anbupalam Thalamuthu, Mark Seielstad, Kee Seng Chia, Agus Salim
2010 J jnl
Identification of recurrent regions of copy-number variants across multiple individuals.
BMC Bioinform.
Teo Shu Mei, Agus Salim, Stefano Calza, Ku Chee Seng, Kee Seng Chia, Yudi Pawitan
2010 J jnl
Super-sparse principal component analyses for high-throughput genomic data.
BMC Bioinform.
Donghwan Lee, Woojoo Lee, Youngjo Lee, Yudi Pawitan
2009 J jnl
Correlating gene and protein expression data using Correlated Factor Analysis.
BMC Bioinform.
Chuen Seng Tan, Agus Salim, Alexander Ploner, Janne Lehtiö, Kee Seng Chia, Yudi Pawitan
2008 J jnl
Normalization of oligonucleotide arrays based on the least-variant set of genes.
BMC Bioinform.
Stefano Calza, Davide Valentini, Yudi Pawitan
2008 J jnl
Unequal group variances in microarray data analyses.
Bioinform.
Meaza Demissie, Barbara Mascialino, Stefano Calza, Yudi Pawitan
2007 J jnl
Detecting differential expression in microarray data: comparison of optimal procedures.
BMC Bioinform.
Elena Perelman, Alexander Ploner, Stefano Calza, Yudi Pawitan
2007 J jnl
Robust smooth segmentation approach for array CGH data analysis.
Bioinform.
Jian Huang, Arief Gusnanto, Kathleen O'Sullivan, Johan Staaf, Åke Borg, Yudi Pawitan
2006 J jnl
Estimation of false discovery proportion under general dependence.
Bioinform.
Yudi Pawitan, Stefano Calza, Alexander Ploner
2006 J jnl
Finding regions of significance in SELDI measurements for identifying protein biomarkers.
Bioinform.
Chuen Seng Tan, Alexander Ploner, Andreas Quandt, Janne Lehtiö, Yudi Pawitan
2006 J jnl
Multidimensional local false discovery rate for microarray studies.
Bioinform.
Alexander Ploner, Stefano Calza, Arief Gusnanto, Yudi Pawitan
2005 J jnl
Bias in the estimation of false discovery rate in microarray studies.
Bioinform.
Yudi Pawitan, Karuturi R. Krishna Murthy, Stefan Michiels, Alexander Ploner
2005 J jnl
Correlation test to assess low-level processing of high-density oligonucleotide microarray data.
BMC Bioinform.
Alexander Ploner, Lance D. Miller, Per Hall, Jonas Bergh, Yudi Pawitan
2005 J jnl
False discovery rate, sensitivity and sample size for microarray studies.
Bioinform.
Yudi Pawitan, Stefan Michiels, Serge Koscielny, Arief Gusnanto, Alexander Ploner
2005 J jnl
Non-Gaussian smoothing of low-count transmission scans for PET whole-body studies.
IEEE Trans. Medical Imaging
Yudi Pawitan, Valentino Bettinardi, M. Teras
2005 — conf
ProSpect: An R Package for Analyzing SELDI Measurements Identifying Protein Biomarkers.
CompLife
Andreas Quandt, Alexander Ploner, Chuen Seng Tan, Janne Lehtiö, Yudi Pawitan
1993 J jnl
Data-dependent bandwidth selection for emission computed tomography reconstruction.
IEEE Trans. Medical Imaging
Yudi Pawitan, Finbarr O'Sullivan