Omilayers: a Python package for efficient data management to support multi-omic analysis by Dimitrios Kioroglou

Subjects: “…Multi-omics…”
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Leveraging Single-Cell Multi-Omics to Decode Tumor Microenvironment Diversity and Therapeutic Resistance by Hussein Sabit, Borros Arneth, Timothy M. Pawlik, Shaimaa Abdel-Ghany, Aysha Ghazy, Rawan M. Abdelazeem, Amany Alqosaibi, Ibtesam S. Al-Dhuayan, Jawaher Almulhim, Noof A. Alrabiah, Ahmed Hashash

Subjects: “…single-cell multi-omics…”
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Unveiling the omics tapestry of B-acute lymphoblastic leukemia: bridging genomics, metabolomics, and immunomics by Yin Le, Shicong Zhu, Hongling Peng, Zhihua Wang

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Integration of unpaired single cell omics data by deep transfer graph convolutional network. by Yulong Kan, Yunjing Qi, Zhongxiao Zhang, Xikeng Liang, Weihao Wang, Shuilin Jin

“…Leveraging the datasets and transfering labels from scRNA-seq to scATAC-seq will empower the exploration of single-cell omics data. However, the current label transfer methods have limited performance, largely due to the lower capable of preserving fine-grained cell populations and intrinsic or extrinsic heterogeneity between datasets. …”
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OMIC Technologies and Vaccine Development: From the Identification of Vulnerable Individuals to the Formulation of Invulnerable Vaccines by Nicola Cotugno, Alessandra Ruggiero, Veronica Santilli, Emma Concetta Manno, Salvatore Rocca, Sonia Zicari, Donato Amodio, Manuela Colucci, Paolo Rossi, Ofer Levy, Federico Martinon-Torres, Andrew J. Pollard, Paolo Palma

“…Finally, we will discuss how system biology “OMICs” data can be used to design bioinformatic tools to predict the vaccination outcome providing genetic and molecular “signatures” of protective immune response. …”
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Efficient multi-omics clustering with bipartite graph subspace learning for cancer subtype prediction by Shuwei Zhu, Hao Liu, Meiji Cui

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Characteristics and multi-omics analysis of spontaneous spondyloarthritis in non-human primates: Case report by Lei Cai, Qing Lv, Ronghua Ma, Wei Liu, Yalun Guan, Zhongqiang Huang, Qingyu Liu, Yunfeng Li, Shuhua Liu, Ge Li, Yu Zhang

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Multi-Omics Insights into Regulatory Mechanisms Underlying Differential Deposition of Intramuscular and Abdominal Fat in Chickens by Yuxin Xing, Chenglin Ma, Hongbo Guan, Jianing Shen, Ying Shen, Guoxi Li, Guirong Sun, Yadong Tian, Xiangtao Kang, Xiaojun Liu, Hong Li, Weihua Tian

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Comparative Analysis of Deep Learning Algorithm for Cancer Classification using Multi-omics Feature Selection by Nur Sabrina Azmi, Azurah A Samah, Vivekaanan Sirgunan, Zuraini Ali Shah, Hairudin Abdul Majid, Chan Weng Howe, Nies Hui Wen, Nuraina Syaza Azman

“… Advancement of high-throughput technologies in omics studies had produced large amount of information that enables integrated analysis of complex diseases. …”
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Multi-omics analysis reveals the sensitivity of immunotherapy for unresectable non-small cell lung cancer by Rui Wu, Kunchen Wei, Xingshuai Huang, Yinge Zhou, Xiao Feng, Xin Dong, Hao Tang

“…The AUC of metabolomics prediction model was 0.977 and the AUC of proteomics was 0.875 while the AUC of the integrative-omics prediction model was 0.955.ConclusionsMetabolic and protein biomarkers in peripheral blood both have high efficacy and reliability in the prediction of immunotherapy sensitivity in unresectable stage III and IV non-small cell lung cancer, but validation in larger population-based cohorts is still needed.…”
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A multi-omics spatial framework for host-microbiome dissection within the intestinal tissue microenvironment by Bokai Zhu, Yunhao Bai, Yao Yu Yeo, Xiaowei Lu, Xavier Rovira-Clavé, Han Chen, Jason Yeung, Dingani Nkosi, Jonathan Glickman, Antonio Delgado-Gonzalez, Georg K. Gerber, Mike Angelo, Alex K. Shalek, Garry P. Nolan, Sizun Jiang

“…MicroCart enables a deep investigation of the intricate interplay between the host tissue and its microbiome with spatial multi-omics.…”
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Synthetic augmentation of cancer cell line multi-omic datasets using unsupervised deep learning by Zhaoxiang Cai, Sofia Apolinário, Ana R. Baião, Clare Pacini, Miguel D. Sousa, Susana Vinga, Roger R. Reddel, Phillip J. Robinson, Mathew J. Garnett, Qing Zhong, Emanuel Gonçalves

“…Harnessing orthogonal multi-omic information, this model successfully generates molecular and phenotypic profiles, resulting in an increase of 32.7% in the number of multi-omic profiles and thereby generating a complete DepMap for 1523 cancer cell lines. …”
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Multi-omics dissection of metabolic dysregulation associated with immune recovery in people living with HIV-1 by Lin-Yu Wan, Sin Man Lam, Hui-Huang Huang, Wen-Jing Cao, Xiang-Yi Cao, Xue-Meng Li, Li-Ping Zhang, Jia-Min Gao, Chao Zhang, Xing Fan, Yan-Mei Jiao, Guanghou Shui, Fu-Sheng Wang, Jin-Wen Song

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Multi-omics study on the effect of moderate-intensity exercise on protein lactylation in mouse muscle tissue by Jiahui Chang, Jiahui Chang, Jiahui Chang, Wanyu Wu, Wanyu Wu, Wanyu Wu, Ping Qian, Zhaoxu Lu, Xuejia He, Fang Wang, Ting Zhang, Ting Zhang, Ting Zhang

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Multi‐omics analysis of pyroptosis‐related genes for prognosis and immune landscape in head and neck cancer by Shikang Zheng, Qinghua Liu, Cheng Wang, Rongqi Zhang, Xin Peng, Junda Fan, Haiming Xu, Xiazhi Pan, Nanxiang Chen, Mingbo Liu, Kai Zhao

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Editorial: Vascular- and immuno-metabolism as drivers of cardiovascular disease: insights obtained from omics approaches by Emiel P. C. van der Vorst, Emiel P. C. van der Vorst, Emiel P. C. van der Vorst, Emiel P. C. van der Vorst, Jeffrey Kroon, Jeffrey Kroon, Jeffrey Kroon, Jeffrey Kroon, Raquel Guillamat-Prats, Raquel Guillamat-Prats, Raquel Guillamat-Prats, Yvonne Döring, Yvonne Döring, Yvonne Döring, Yvonne Döring

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Multi-omics architecture of childhood obesity and metabolic dysfunction uncovers biological pathways and prenatal determinants by Nikos Stratakis, Augusto Anguita-Ruiz, Lorenzo Fabbri, Léa Maitre, Juan R. González, Sandra Andrusaityte, Xavier Basagaña, Eva Borràs, Hector C. Keun, Lida Chatzi, David V. Conti, Jesse Goodrich, Regina Grazuleviciene, Line Småstuen Haug, Barbara Heude, Wen Lun Yuan, Rosemary McEachan, Mark Nieuwenhuijsen, Eduard Sabidó, Rémy Slama, Cathrine Thomsen, Jose Urquiza, Theano Roumeliotaki, Marina Vafeiadi, John Wright, Mariona Bustamante, Martine Vrijheid

“…Our integrative analysis uncovers three clusters of children defined by specific multi-omics profiles, one of which characterized not only by higher adiposity but also by a high degree of metabolic complications. …”
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Multi-omics analysis in inclusion body myositis identifies mir-16 responsible for HLA overexpression by Daphne Wijnbergen, Mridul Johari, Ozan Ozisik, Peter A.C. ‘t Hoen, Friederike Ehrhart, Anaïs Baudot, Chris T. Evelo, Bjarne Udd, Marco Roos, Eleni Mina

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Integrative multi-omics analysis reveals the translational landscape of the plant-parasitic nematode Meloidogyne incognita by Zhaolu Zhu, Dexin Bo, Chuanshuai Xie, Dadong Dai, Donghai Peng, Ming Sun, Jinshui Zheng

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Multi-Omics Insights into Rumen Microbiota and Metabolite Interactions Regulating Milk Fat Synthesis in Buffaloes by Ye Yu, Runqi Fu, Chunjia Jin, Lin Han, Huan Gao, Binlong Fu, Min Qi, Qian Li, Jing Leng

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