Search Results - multi-omics integration algorithms

Guide to Metabolomics Analysis: A Bioinformatics Workflow by Chen, Yang, Li, En-Min, Xu, Li-Yan

“… Such integration of different omics data requires specialized statistical and bioinformatics software…”
Get full text

Benchmarking multi-omics integration algorithms across single-cell RNA and ATAC data by Xiao, Chuxi, Chen, Yixin, Meng, Qiuchen, Wei, Lei, Zhang, Xuegong

“… Multi-omics integration is gaining attention as an important step in joint analysis, and the number of computational tools in this field is growing rapidly…”
Get full text

Benchmarking algorithms for single-cell multi-omics prediction and integration by Hu, Yinlei, Wan, Siyuan, Luo, Yuanhanyu, Li, Yuanzhe, Wu, Tong, Deng, Wentao, Jiang, Chen, Jiang, Shan, Zhang, Yueping, Liu, Nianping, Yang, Zongcheng, Chen, Falai, Li, Bin, Qu, Kun

“… Here, we present a benchmark study of 14 protein abundance/chromatin accessibility prediction algorithms and 18 single-cell multi-omics integration algorithms using 47 single-cell multi-omics datasets…”
Get full text

Benchmarking ensemble machine learning algorithms for multi-class, multi-omics data integration in clinical outcome prediction by Spooner, Annette, Moridani, Mohammad Karimi, Toplis, Barbra, Behary, Jason, Safarchi, Azadeh, Maher, Salim, Vafaee, Fatemeh, Zekry, Amany, Sowmya, Arcot

“… However, the analysis of multi-modal, multi-omics data presents many challenges. In this work, we compare the performance of a variety of ensemble machine learning (ML…”
Get full text

Applications of multi‐omics analysis in human diseases by Chen, Chongyang, Wang, Jing, Pan, Donghui, Wang, Xinyu, Xu, Yuping, Yan, Junjie, Wang, Lizhen, Yang, Xifei, Yang, Min, Liu, Gong‐Ping

“… Most of the current reviews focus on describing the development of multi‐omics technologies, data integration, and application to a particular disease…”
Get full text

Computational Analysis of Phosphoproteomics Data in Multi‐Omics Cancer Studies by Mantini, Giulia, Pham, Thang V., Piersma, Sander R., Jimenez, Connie R.

“… An increasing number of studies have now been focusing on multi‐omics data integration, yet not many studies have included phosphoproteomics data, an important layer for understanding signaling pathways. Multi…”
Get full text

MOVICS: an R package for multi-omics integration and visualization in cancer subtyping by Lu, Xiaofan, Meng, Jialin, Zhou, Yujie, Jiang, Liyun, Yan, Fangrong

“… Here, we present MOVICS, an R package for multi-omics integration and visualization in cancer subtyping…”
Get full text

Integrative Multi-Omics Approaches in Cancer Research: From Biological Networks to Clinical Subtypes by Heo, Yong Jin, Hwa, Chanwoong, Lee, Gang-Hee, Park, Jae-Min, An, Joon-Yong

“… We also introduce recent advances in the development of multi-omics algorithms and integration methods for multiple-layered datasets from cancer patients…”
Get full text

A denoised multi-omics integration framework for cancer subtype classification and survival prediction by Pang, Jiali, Liang, Bilin, Ding, Ruifeng, Yan, Qiujuan, Chen, Ruiyao, Xu, Jie

“… Here, we propose a denoised multi-omics integration framework, which contains a distribution-based feature denoising algorithm, Feature Selection with Distribution (FSD…”
Get full text

A critical review of machine-learning for “multi-omics” marine metabolite datasets by Manochkumar, Janani, Cherukuri, Aswani Kumar, Kumar, Raju Suresh, Almansour, Abdulrahman I., Ramamoorthy, Siva, Efferth, Thomas

“… This review presents a comprehensive overview of the available “-omics” and “multi-omics” approaches employed for characterizing marine metabolites along with novel data integration tools…”
Get full text

Machine learning algorithms and biomarkers identification for pancreatic cancer diagnosis using multi-omics data integration by Rouzbahani, Arian Karimi, Khalili-Tanha, Ghazaleh, Rajabloo, Yasamin, Khojasteh-Leylakoohi, Fatemeh, Garjan, Hassan Shokri, Nazari, Elham, Avan, Amir

“…Pancreatic cancer is a lethal type of cancer with most of the cases being diagnosed in an advanced stage and poor prognosis. Developing new diagnostic and…”
Get full text

Survival prediction in patients with colon adenocarcinoma via multi-omics data integration using a deep learning algorithm by Lv, Jiudi, Wang, Junjie, Shang, Xiujuan, Liu, Fangfang, Guo, Shixun

“…) based on multi-omics integration. The survival-sensitive model was constructed using an autoencoder for DL implementation based on The Cancer Genome Atlas (TCGA…”
Get more information

Unsupervised topological alignment for single-cell multi-omics integration by Cao, Kai, Bai, Xiangqi, Hong, Yiguang, Wan, Lin

“… Results In this study, we present a novel algorithm, termed UnionCom, for the unsupervised topological alignment of single-cell multi-omics integration…”
Get full text

Deep-Learning Algorithm and Concomitant Biomarker Identification for NSCLC Prediction Using Multi-Omics Data Integration by Park, Min-Koo, Lim, Jin-Muk, Jeong, Jinwoo, Jang, Yeongjae, Lee, Ji-Won, Lee, Jeong-Chan, Kim, Hyungyu, Koh, Euiyul, Hwang, Sung-Joo, Kim, Hong-Gee, Kim, Keun-Cheol

“… We developed a multi-omics data-affinitive artificial intelligence algorithm based on the graph convolutional network that integrates mRNA expression, DNA methylation, and DNA sequencing data…”
Get full text

AVBAE-MODFR: A novel deep learning framework of embedding and feature selection on multi-omics data for pan-cancer classification by Li, Minghe, Guo, Huike, Wang, Keao, Kang, Chuanze, Yin, Yanbin, Zhang, Han

“… Recently, deep learning algorithms become the most promising cancer multi-omic integration analysis methods, due to the powerful capability of capturing nonlinear relationships…”
Get full text

Benchmarking multi-omics integration algorithms across single-cell RNA and ATAC data by Xiao, Chuxi, Chen, Yixin, Wei, Lei, Zhang, Xuegong

“… Multi-omics integration is gaining attention as an important step in joint analysis, and the number of computational tools in this field is growing rapidly…”
Get full text

Multi-omics integration method based on attention deep learning network for biomedical data classification by Gong, Ping, Cheng, Lei, Zhang, Zhiyuan, Meng, Ao, Li, Enshuo, Chen, Jie, Zhang, Longzhen

“…) algorithms have recently become one of the most promising multi-omics data integration analysis methods…”
Get full text

Robust Selection Algorithm (RSA) for Multi-Omic Biomarker Discovery; Integration with Functional Network Analysis to Identify miRNA Regulated Pathways in Multiple Cancers by Sehgal, Vasudha, Seviour, Elena G., Moss, Tyler J., Mills, Gordon B., Azencott, Robert, Ram, Prahlad T.

“… for identification of robust multi-omic molecular markers is critical in order to provide clinical impact…”
Get full text

Cooperative integration of spatially resolved multi-omics data with COSMOS by Zhou, Yuansheng, Xiao, Xue, Dong, Lei, Tang, Chen, Xiao, Guanghua, Xu, Lin

“…Recent advancements in biological technologies have enabled the measurement of spatially resolved multi-omics data, yet computational algorithms for this purpose are scarce…”
Get full text

Multi-dimensional data integration algorithm based on random walk with restart by Wen, Yuqi, Song, Xinyu, Yan, Bowei, Yang, Xiaoxi, Wu, Lianlian, Leng, Dongjin, He, Song, Bo, Xiaochen

“… However, the algorithm development for multi-omics data integration remains a pressing challenge…”
Get full text