Statistical applications in genetics and molecular biology

Keyphrases

Publications

volume 22, number 1, 2023

Yuanyuan Bian, Chong He, Jing Qiu
A Bayesian model to identify multiple expression patterns with simultaneous FDR control for a multi-factor RNA-seq experiment. Statistical applications in genetics and molecular biology 22 (1) (2023)
Nanxing Li, Lili Chen, Yajing Zhou, Qianran Wei
A fast and efficient approach for gene-based association studies of ordinal phenotypes. Statistical applications in genetics and molecular biology 22 (1) (2023)
Nanxing Li, Lili Chen, Yajing Zhou, Qianran Wei
A fast and efficient approach for gene-based association studies of ordinal phenotypes. Statistical applications in genetics and molecular biology 22 (1) (2023)
Yuanyuan Bian, Chong He, Jing Qiu
A Bayesian model to identify multiple expression patterns with simultaneous FDR control for a multi-factor RNA-seq experiment. Statistical applications in genetics and molecular biology 22 (1) (2023)
Bo Zhang, Jianghua He, Jinxiang Hu, Prabhakar Chalise, Devin C Koestler
Improving the accuracy and internal consistency of regression-based clustering of high-dimensional datasets. Statistical applications in genetics and molecular biology 22 (1) (2023)
Yuanyuan Bian, Chong He, Jing Qiu
A Bayesian model to identify multiple expression patterns with simultaneous FDR control for a multi-factor RNA-seq experiment. Statistical applications in genetics and molecular biology 22 (1) (2023)
Yang Shi, Weiping Shi, Mengqiao Wang, Ji-Hyun Lee, Huining Kang, Hui Jiang
Accurate and fast small p -value estimation for permutation tests in high-throughput genomic data analysis with the cross-entropy method. Statistical applications in genetics and molecular biology 22 (1) (2023)
Lavkush Sharma, Akshay Deepak, Ashish Ranjan, Gopalakrishnan Krishnasamy
A novel hybrid CNN and BiGRU-Attention based deep learning model for protein function prediction. Statistical applications in genetics and molecular biology 22 (1) (2023)
Jorge M Arevalillo, Raquel Martin-Arevalillo
Patterns of differential expression by association in omic data using a new measure based on ensemble learning. Statistical applications in genetics and molecular biology 22 (1) (2023)
Qiang Han, Yu Wang, Na Sun, Jiadong Chu, Wei Hu, Yueping Shen
Mediation analysis method review of high throughput data. Statistical applications in genetics and molecular biology 22 (1) (2023)
Nanxing Li, Lili Chen, Yajing Zhou, Qianran Wei
A fast and efficient approach for gene-based association studies of ordinal phenotypes. Statistical applications in genetics and molecular biology 22 (1) (2023)
Keegan Flanagan, Steven Pelech, Yossef Av-Gay, Khanh Dao Duc
CAT PETR: a graphical user interface for differential analysis of phosphorylation and expression data. Statistical applications in genetics and molecular biology 22 (1) (2023)
Yuanyuan Bian, Chong He, Jing Qiu
A Bayesian model to identify multiple expression patterns with simultaneous FDR control for a multi-factor RNA-seq experiment. Statistical applications in genetics and molecular biology 22 (1) (2023)
Nanxing Li, Lili Chen, Yajing Zhou, Qianran Wei
A fast and efficient approach for gene-based association studies of ordinal phenotypes. Statistical applications in genetics and molecular biology 22 (1) (2023)
Tiange Shi, Han Yu, Rachael Hageman Blair
Integrated regulatory and metabolic networks of the tumor microenvironment for therapeutic target prioritization. Statistical applications in genetics and molecular biology 22 (1) (2023)
Yonghui Ni, Jianghua He, Prabhakar Chalise
Randomized singular value decomposition for integrative subtype analysis of 'omics data' using non-negative matrix factorization. Statistical applications in genetics and molecular biology 22 (1) (2023)

2022

Guoyu Wu, Yuchao Li
Distinct characteristics of correlation analysis at the single-cell and the population level. Statistical applications in genetics and molecular biology (2022)

volume 21, number 1, 2022

Jan van Waaij, Zilong Li, Carsten Wiuf
Estimation of the covariance structure from SNP allele frequencies. Statistical applications in genetics and molecular biology 21 (1) (2022)
Janaka S S Liyanage, Jeremie H Estepp, Kumar Srivastava, Yun Li, Motomi Mori, Guolian Kang
GMEPS: a fast and efficient likelihood approach for genome-wide mediation analysis under extreme phenotype sequencing. Statistical applications in genetics and molecular biology 21 (1) (2022)
Shizhi Zhang, Mingjin Zhang
Use of SVM-based ensemble feature selection method for gene expression data analysis. Statistical applications in genetics and molecular biology 21 (1) (2022)
Qing Xia, Jeffrey A Thompson, Devin C Koestler
pwrBRIDGE : a user-friendly web application for power and sample size estimation in batch-confounded microarray studies with dependent samples. Statistical applications in genetics and molecular biology 21 (1) (2022)
Basile Jumentier, Kevin Caye, Barbara Heude, Johanna Lepeule, Olivier François
Sparse latent factor regression models for genome-wide and epigenome-wide association studies. Statistical applications in genetics and molecular biology 21 (1) (2022)
Viplove Arora, Guido Sanguinetti
Challenges for machine learning in RNA-protein interaction prediction. Statistical applications in genetics and molecular biology 21 (1) (2022)
Jen-Yu Lee, Pao-Sheng Shen, Kuang-Fu Cheng
A robust association test with multiple genetic variants and covariates. Statistical applications in genetics and molecular biology 21 (1) (2022)

2021

Min Shuai, Dongmei He, Xin Chen
Optimizing weighted gene co-expression network analysis with a multi-threaded calculation of the topological overlap matrix. Statistical applications in genetics and molecular biology (2021)

volume 20, number 1, 2021

Danilo Gullotto
Fine tuned exploration of evolutionary relationships within the protein universe. Statistical applications in genetics and molecular biology 20 (1) (2021)
Qi Zhang, Zheng Xu, Yutong Lai
An Empirical Bayes approach for the identification of long-range chromosomal interaction from Hi-C data. Statistical applications in genetics and molecular biology 20 (1) (2021)

volume 20, number 2, 2021

Meng Wang, Lihua Jiang, Michael P Snyder
AdaReg: data adaptive robust estimation in linear regression with application in GTEx gene expressions. Statistical applications in genetics and molecular biology 20 (2) (2021)
Elisabeth Roesch, Christopher Rackauckas, Michael P H Stumpf
Collocation based training of neural ordinary differential equations. Statistical applications in genetics and molecular biology 20 (2) (2021)

volume 20, number 3, 2021

Richard Meier, Emily Nissen, Devin C Koestler
Low variability in the underlying cellular landscape adversely affects the performance of interaction-based approaches for conducting cell-specific analyses of DNA methylation in bulk samples. Statistical applications in genetics and molecular biology 20 (3) (2021)
Farhad Hatami, Emma Beamish, Albert Davies, Rachael Rigby, Frank Dondelinger
A hierarchical Bayesian approach for detecting global microbiome associations. Statistical applications in genetics and molecular biology 20 (3) (2021)

volume 20, number 4-6, 2021

Qing Xia, Jeffrey A Thompson, Devin C Koestler
Batch effect reduction of microarray data with dependent samples using an empirical Bayes approach (BRIDGE). Statistical applications in genetics and molecular biology 20 (4-6) (2021)
Chi-Kan Chen
Inference of genetic regulatory networks with regulatory hubs using vector autoregressions and automatic relevance determination with model selections. Statistical applications in genetics and molecular biology 20 (4-6) (2021)

2020

Li-Chu Chien
Combining dependent p-values by gamma distributions. Statistical applications in genetics and molecular biology (2020)
Hesam Montazeri, Susan Little, Mozhgan Mozaffarilegha, Niko Beerenwinkel, Victor DeGruttola
Bayesian reconstruction of transmission trees from genetic sequences and uncertain infection times. Statistical applications in genetics and molecular biology (2020)

volume 19, number 1, 2020

Fan Zhang, Jeffrey C Miecznikowski, David L Tritchler
Identification of supervised and sparse functional genomic pathways. Statistical applications in genetics and molecular biology 19 (1) (2020)
David A Spade
An extended model for phylogenetic maximum likelihood based on discrete morphological characters. Statistical applications in genetics and molecular biology 19 (1) (2020)
Xuan Cao, Lili Ding, Tesfaye B Mersha
Joint variable selection and network modeling for detecting eQTLs. Statistical applications in genetics and molecular biology 19 (1) (2020)

volume 19, number 2, 2020

Samuel E Jackson, Ian Vernon, Junli Liu, Keith Lindsey
Understanding hormonal crosstalk in Arabidopsis root development via emulation and history matching. Statistical applications in genetics and molecular biology 19 (2) (2020)
Mariza de Andrade, Mauricio A Mazo Lopera, Nubia E Duarte
Bivariate traits association analysis using generalized estimating equations in family data. Statistical applications in genetics and molecular biology 19 (2) (2020)
Koji Tsukuda, Shuhei Mano, Toshimichi Yamamoto
Bayesian approach to discriminant problems for count data with application to multilocus short tandem repeat dataset. Statistical applications in genetics and molecular biology 19 (2) (2020)

volume 19, number 3, 2020

Gengxin Li, Lin Hou, Xiaoyu Liu, Cen Wu
A weighted empirical Bayes risk prediction model using multiple traits. Statistical applications in genetics and molecular biology 19 (3) (2020)
Yunlong Nie, Eugene Opoku, Laila Yasmin, Yin Song, Jie Wang, Sidi Wu, Vanessa Scarapicchia, Jodie Gawryluk, Liangliang Wang, Jiguo Cao, Farouk S Nathoo
Spectral dynamic causal modelling of resting-state fMRI: an exploratory study relating effective brain connectivity in the default mode network to genetics. Statistical applications in genetics and molecular biology 19 (3) (2020)
Saheb Foroutaifar
Accuracy and sensitivity of different Bayesian methods for genomic prediction using simulation and real data. Statistical applications in genetics and molecular biology 19 (3) (2020)

volume 18, number 5, 2019

Hailin Huang, Jizi Shangguan, Peifeng Ruan, Hua Liang
Bi-level feature selection in high dimensional AFT models with applications to a genomic study. Statistical applications in genetics and molecular biology 18 (5) (2019)
Hong Zheng
A novel individualized drug repositioning approach for predicting personalized candidate drugs for type 1 diabetes mellitus. Statistical applications in genetics and molecular biology 18 (5) (2019)

volume 18, number 6, 2019

Titin Agustin Nengsih, Frederic Bertrand, Myriam Maumy-Bertrand, Nicolas Meyer
Determining the number of components in PLS regression on incomplete data set. Statistical applications in genetics and molecular biology 18 (6) (2019)
Tobias Madsen, Michał Świtnicki, Malene Juul, Jakob Skou Pedersen
EBADIMEX: an empirical Bayes approach to detect joint differential expression and methylation and to classify samples. Statistical applications in genetics and molecular biology 18 (6) (2019)
Oliver M Crook, Laurent Gatto, Paul D W Kirk
Fast approximate inference for variable selection in Dirichlet process mixtures, with an application to pan-cancer proteomics. Statistical applications in genetics and molecular biology 18 (6) (2019)
Richard Meier, Jeffrey A Thompson, Mei Chung, Naisi Zhao, Karl T Kelsey, Dominique S Michaud, Devin C Koestler
A Bayesian framework for identifying consistent patterns of microbial abundance between body sites. Statistical applications in genetics and molecular biology 18 (6) (2019)