Literature DB >> 33969380

Review of multi-omics data resources and integrative analysis for human brain disorders.

Xianjun Dong1, Chunyu Liu2, Mikhail Dozmorov3.   

Abstract

In the last decade, massive omics datasets have been generated for human brain research. It is evolving so fast that a timely update is urgently needed. In this review, we summarize the main multi-omics data resources for the human brains of both healthy controls and neuropsychiatric disorders, including schizophrenia, autism, bipolar disorder, Alzheimer's disease, Parkinson's disease, progressive supranuclear palsy, etc. We also review the recent development of single-cell omics in brain research, such as single-nucleus RNA-seq, single-cell ATAC-seq and spatial transcriptomics. We further investigate the integrative multi-omics analysis methods for both tissue and single-cell data. Finally, we discuss the limitations and future directions of the multi-omics study of human brain disorders.
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Entities:  

Keywords:  human brains; integrative analysis; multi-omics; neuropsychiatric diseases; single-cell omics

Mesh:

Year:  2021        PMID: 33969380      PMCID: PMC8287916          DOI: 10.1093/bfgp/elab024

Source DB:  PubMed          Journal:  Brief Funct Genomics        ISSN: 2041-2649            Impact factor:   4.241


  98 in total

1.  Logistic regression for disease classification using microarray data: model selection in a large p and small n case.

Authors:  J G Liao; Khew-Voon Chin
Journal:  Bioinformatics       Date:  2007-05-31       Impact factor: 6.937

Review 2.  The Allen Brain Atlas: 5 years and beyond.

Authors:  Allan R Jones; Caroline C Overly; Susan M Sunkin
Journal:  Nat Rev Neurosci       Date:  2009-10-14       Impact factor: 34.870

Review 3.  Host and microbiome multi-omics integration: applications and methodologies.

Authors:  Qing Wang; Kaicen Wang; Wenrui Wu; Eleni Giannoulatou; Joshua W K Ho; Lanjuan Li
Journal:  Biophys Rev       Date:  2019-01-09

4.  Visualization and analysis of gene expression in tissue sections by spatial transcriptomics.

Authors:  Patrik L Ståhl; Fredrik Salmén; Sanja Vickovic; Anna Lundmark; José Fernández Navarro; Jens Magnusson; Stefania Giacomello; Michaela Asp; Jakub O Westholm; Mikael Huss; Annelie Mollbrink; Sten Linnarsson; Simone Codeluppi; Åke Borg; Fredrik Pontén; Paul Igor Costea; Pelin Sahlén; Jan Mulder; Olaf Bergmann; Joakim Lundeberg; Jonas Frisén
Journal:  Science       Date:  2016-07-01       Impact factor: 47.728

Review 5.  Multilevel omics for the discovery of biomarkers and therapeutic targets for stroke.

Authors:  Joan Montaner; Laura Ramiro; Alba Simats; Steffen Tiedt; Konstantinos Makris; Glen C Jickling; Stephanie Debette; Jean-Charles Sanchez; Alejandro Bustamante
Journal:  Nat Rev Neurol       Date:  2020-04-22       Impact factor: 42.937

6.  Single-cell transcriptomic analysis of Alzheimer's disease.

Authors:  Hansruedi Mathys; Jose Davila-Velderrain; Zhuyu Peng; Fan Gao; Shahin Mohammadi; Jennie Z Young; Madhvi Menon; Liang He; Fatema Abdurrob; Xueqiao Jiang; Anthony J Martorell; Richard M Ransohoff; Brian P Hafler; David A Bennett; Manolis Kellis; Li-Huei Tsai
Journal:  Nature       Date:  2019-05-01       Impact factor: 49.962

7.  Integrative analysis of single-cell genomics data by coupled nonnegative matrix factorizations.

Authors:  Zhana Duren; Xi Chen; Mahdi Zamanighomi; Wanwen Zeng; Ansuman T Satpathy; Howard Y Chang; Yong Wang; Wing Hung Wong
Journal:  Proc Natl Acad Sci U S A       Date:  2018-07-09       Impact factor: 11.205

8.  Identification of spatially associated subpopulations by combining scRNAseq and sequential fluorescence in situ hybridization data.

Authors:  Qian Zhu; Sheel Shah; Ruben Dries; Long Cai; Guo-Cheng Yuan
Journal:  Nat Biotechnol       Date:  2018-10-29       Impact factor: 54.908

9.  SpatialDB: a database for spatially resolved transcriptomes.

Authors:  Zhen Fan; Runsheng Chen; Xiaowei Chen
Journal:  Nucleic Acids Res       Date:  2020-01-08       Impact factor: 16.971

10.  FANTOM enters 20th year: expansion of transcriptomic atlases and functional annotation of non-coding RNAs.

Authors:  Imad Abugessaisa; Jordan A Ramilowski; Marina Lizio; Jesicca Severin; Akira Hasegawa; Jayson Harshbarger; Atsushi Kondo; Shuhei Noguchi; Chi Wai Yip; Jasmine Li Ching Ooi; Michihira Tagami; Fumi Hori; Saumya Agrawal; Chung Chau Hon; Melissa Cardon; Shuya Ikeda; Hiromasa Ono; Hidemasa Bono; Masaki Kato; Kosuke Hashimoto; Alessandro Bonetti; Masaki Kato; Norio Kobayashi; Jay Shin; Michiel de Hoon; Yoshihide Hayashizaki; Piero Carninci; Hideya Kawaji; Takeya Kasukawa
Journal:  Nucleic Acids Res       Date:  2021-01-08       Impact factor: 16.971

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  3 in total

Review 1.  Advancements in Genomic and Behavioral Neuroscience Analysis for the Study of Normal and Pathological Brain Function.

Authors:  Annalisa M Baratta; Adam J Brandner; Sonja L Plasil; Rachel C Rice; Sean P Farris
Journal:  Front Mol Neurosci       Date:  2022-06-23       Impact factor: 6.261

2.  Metabolomic Identification of Serum Exosome-Derived Biomarkers for Bipolar Disorder.

Authors:  Yang Du; Ji-Hui Dong; Lei Chen; Hua Liu; Guang-En Zheng; Guang-Yang Chen; Yong Cheng
Journal:  Oxid Med Cell Longev       Date:  2022-01-10       Impact factor: 6.543

Review 3.  Bringing machine learning to research on intellectual and developmental disabilities: taking inspiration from neurological diseases.

Authors:  Chirag Gupta; Pramod Chandrashekar; Ting Jin; Chenfeng He; Saniya Khullar; Qiang Chang; Daifeng Wang
Journal:  J Neurodev Disord       Date:  2022-05-02       Impact factor: 4.074

  3 in total

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