Advances and opportunities in single-cell transcriptomics for plant research

C Seyfferth, J Renema, JR Wendrich… - Annual Review of …, 2021 - annualreviews.org
Single-cell approaches are quickly changing our view on biological systems by increasing
the spatiotemporal resolution of our analyses to the level of the individual cell. The field of …

Statistical analysis of high-dimensional biomedical data: a gentle introduction to analytical goals, common approaches and challenges

J Rahnenführer, R De Bin, A Benner, F Ambrogi… - BMC medicine, 2023 - Springer
Background In high-dimensional data (HDD) settings, the number of variables associated
with each observation is very large. Prominent examples of HDD in biomedical research …

Understanding the adjusted rand index and other partition comparison indices based on counting object pairs

MJ Warrens, H van der Hoef - Journal of Classification, 2022 - Springer
In unsupervised machine learning, agreement between partitions is commonly assessed
with so-called external validity indices. Researchers tend to use and report indices that …

Statistical methods in integrative genomics

S Richardson, GC Tseng, W Sun - Annual review of statistics …, 2016 - annualreviews.org
Statistical methods in integrative genomics aim to answer important biology questions by
jointly analyzing multiple types of genomic data (vertical integration) or aggregating the …

JSNMF enables effective and accurate integrative analysis of single-cell multiomics data

Y Ma, Z Sun, P Zeng, W Zhang… - Briefings in …, 2022 - academic.oup.com
The single-cell multiomics technologies provide an unprecedented opportunity to study the
cellular heterogeneity from different layers of transcriptional regulation. However, the …

Meta-analytic principal component analysis in integrative omics application

SH Kim, D Kang, Z Huo, Y Park, GC Tseng - Bioinformatics, 2018 - academic.oup.com
Motivation With the prevalent usage of microarray and massively parallel sequencing,
numerous high-throughput omics datasets have become available in the public domain …

Bayesian multistudy factor analysis for high-throughput biological data

R De Vito, R Bellio, L Trippa… - The annals of applied …, 2021 - projecteuclid.org
Supplement 1 includes all the codes to generate the simulation and the data analyses
presented in the manuscript. It includes the data files used in the paper, and the simulations …

[HTML][HTML] Integrative sparse K-means with overlapping group lasso in genomic applications for disease subtype discovery

Z Huo, G Tseng - The annals of applied statistics, 2017 - ncbi.nlm.nih.gov
Cancer subtypes discovery is the first step to deliver personalized medicine to cancer
patients. With the accumulation of massive multi-level omics datasets and established …

Kinematic cluster analysis of the crouch gait pattern in children with spastic diplegic cerebral palsy using sparse K-means method

L Abbasi, Z Rojhani-Shirazi, M Razeghi… - Clinical …, 2021 - Elsevier
Background Crouch gait pattern is a common gait pattern in children with diplegic cerebral
palsy with excessive knee flexion throughout stance phase. Few studies have grouped this …

Big data clustering analysis algorithm for internet of things based on K-means

Z Yu - International Journal of Distributed Systems and …, 2019 - igi-global.com
To explore the Internet of things logistics system application, an Internet of things big data
clustering analysis algorithm based on K-mans was discussed. First of all, according to the …