Multi‐modal mass spectrometry imaging of a single tissue section DOI
Lingpeng Zhan, Yanyi Huang, Guanbo Wang

и другие.

Journal of Mass Spectrometry, Год журнала: 2024, Номер 59(8)

Опубликована: Июль 17, 2024

Mass spectrometry imaging (MSI) was developed to visualize spatial chemical information within tissues, thereby facilitating multi-omic analysis. However, due the limited provided by individual modal MSI, correlating various data tissues remains a significant challenge. In recent years, multimodal MSI has garnered considerable attention its ability distributions of multiple biomolecules tissues. Among strategies employed in this field, on single tissue section circumvents issues introduced integration images consecutive sections. minireview, we provide an overview section, with particular focus use Matrix-Assisted Laser Desorption/Ionization-MSI for investigations that offer comprehensive and in-depth elucidation biological state activities, aiming inspire development new approaches field.

Язык: Английский

Integrative multi-omics and systems bioinformatics in translational neuroscience: A data mining perspective DOI Creative Commons

Lance M. O’Connor,

Blake A. O’Connor,

Su Bin Lim

и другие.

Journal of Pharmaceutical Analysis, Год журнала: 2023, Номер 13(8), С. 836 - 850

Опубликована: Июль 1, 2023

Bioinformatic analysis of large and complex omics datasets has become increasingly useful in modern day biology by providing a great depth information, with its application to neuroscience termed neuroinformatics. Data mining enabled the generation new hypotheses based on differentially regulated biological molecules associated disease mechanisms, which can be tested experimentally for improved diagnostic therapeutic targeting neurodegenerative diseases. Importantly, integrating multi-omics data using systems bioinformatics approach will advance understanding layered interactive network regulation that exchanges systemic knowledge facilitate development comprehensive human brain profile. In this review, we first summarize studies utilizing from individual type analysis, including epigenetics/epigenomics, transcriptomics, proteomics, metabolomics, lipidomics, spatial omics, pertaining Alzheimer's disease, Parkinson's multiple sclerosis. We then discuss integration approaches, independent unsupervised methods, more intuitive informative interpretation obtained across different layers. further assess integrate provide convoluted insights offer proof-of-concept proposition towards reconstruction networks. Finally, recommend combination high dimensional experimental validation achieve translational applications biomarker discovery, development, elucidation mechanisms. conclude future perspectives opportunities applying integrative precision phenotyping diseases personalized medicine.

Язык: Английский

Процитировано

52

Spatiotemporal multi-omics: exploring molecular landscapes in aging and regenerative medicine DOI Creative Commons
Liuxi Chu, Wenjia Wang,

Xin-Pei Gu

и другие.

Military Medical Research, Год журнала: 2024, Номер 11(1)

Опубликована: Май 27, 2024

Abstract Aging and regeneration represent complex biological phenomena that have long captivated the scientific community. To fully comprehend these processes, it is essential to investigate molecular dynamics through a lens encompasses both spatial temporal dimensions. Conventional omics methodologies, such as genomics transcriptomics, been instrumental in identifying critical facets of aging regeneration. However, methods are somewhat limited, constrained by their resolution lack capacity dynamically tissue alterations. The advent emerging spatiotemporal multi-omics approaches, encompassing proteomics, metabolomics, epigenomics, furnishes comprehensive insights into intricate dynamics. These sophisticated techniques facilitate accurate delineation patterns across an array cells, tissues, organs, thereby offering in-depth understanding fundamental mechanisms at play. This review meticulously examines significance realms research. It underscores how methodologies augment our comprehension dynamics, cellular interactions, signaling pathways. Initially, delineates foundational principles underpinning methods, followed evaluation recent applications within field. ultimately concludes addressing prevailing challenges projecting future advancements Indubitably, deciphering complexities inherent regeneration, thus charting course toward potential therapeutic innovations.

Язык: Английский

Процитировано

7

Single cell spatial biology over developmental time can decipher pediatric brain pathologies DOI Creative Commons
Ruth Nussinov, Bengi Ruken Yavuz, Hyunbum Jang

и другие.

Neurobiology of Disease, Год журнала: 2024, Номер 199, С. 106597 - 106597

Опубликована: Июль 9, 2024

Pediatric low grade brain tumors and neurodevelopmental disorders share proteins, signaling pathways, networks. They also germline mutations an impaired prenatal differentiation origin. may differ in the timing of events proliferation. We suggest that their pivotal distinct, albeit partially overlapping, outcomes relate to cell states, which depend on spatial location, gene expression during development. These attributes are crucial as develops sequentially, single-cell organization influences state, thus function. Our underlying premise is root cause pediatric differentiation. Data related tumors, disorders, (sub)types, locations, developing scant. However, emerging single technologies, including transcriptomic, biology, high-resolution imaging performed over developmental time, could be transformational deciphering pathologies thereby pharmacology.

Язык: Английский

Процитировано

5

Efficacy of Astragalus membranaceus–Carthamus tinctorius in Cerebral Ischemia/Reperfusion Injury: Insights from Metabolomics and Mass Spectrometry Imaging DOI
Di Zhao, Xian Zhang, Weifeng Jin

и другие.

Phytomedicine, Год журнала: 2024, Номер 133, С. 155881 - 155881

Опубликована: Июль 15, 2024

Язык: Английский

Процитировано

5

Implementation and validation of single-cell genomics experiments in neuroscience DOI
Marco Colonna, Geneviève Konopka, Shane A. Liddelow

и другие.

Nature Neuroscience, Год журнала: 2024, Номер 27(12), С. 2310 - 2325

Опубликована: Дек. 1, 2024

Язык: Английский

Процитировано

4

To image or not to image: Use of imaging mass spectrometry in biomedical lipidomics DOI
Albert Maimó-Barceló, Karim Pérez-Romero, Ramón María Alvargonzález Rodríguez

и другие.

Progress in Lipid Research, Год журнала: 2025, Номер 97, С. 101319 - 101319

Опубликована: Янв. 1, 2025

Язык: Английский

Процитировано

0

Spatial omics shed light on the tumour organisation of glioblastoma DOI Creative Commons
James R. Whittle, Jurgen Kriel, Ebenezer O. Fatunla

и другие.

Seminars in Cell and Developmental Biology, Год журнала: 2025, Номер 167, С. 1 - 9

Опубликована: Янв. 8, 2025

Язык: Английский

Процитировано

0

In-depth and high-throughput spatial proteomics for whole-tissue slice profiling by deep learning-facilitated sparse sampling strategy DOI Creative Commons
Ritian Qin,

Jiacheng Ma,

Fuchu He

и другие.

Cell Discovery, Год журнала: 2025, Номер 11(1)

Опубликована: Март 11, 2025

Abstract Mammalian organs and tissues are composed of heterogeneously distributed cells, which interact with each other the extracellular matrix surrounding them in a spatially defined way. Therefore, resolved gene expression profiling is crucial for determining function phenotypes these cells. While genome mutations transcriptome alterations act as drivers diseases, proteins that they encode regulate essentially all biological functions constitute majority biomarkers drug targets disease diagnostics treatment. However, unlike transcriptomics, has recent explosion high-throughput spatial technologies deep coverage, proteomics capable reaching bulk tissue-level coverage still rare field, due to non-amplifiable nature sensitivity limitation mass spectrometry (MS). More importantly, limited multiplexing capability current methods, whole-tissue slice mapping high resolution requires formidable amount MS matching time. To achieve resolved, deeply covered proteome centimeter-sized samples, we developed s parse ampling trategy patial p roteomics (S4P) using computationally assisted image reconstruction potentially reducing number samples by tens thousands times depending on resolution. In this way, generated largest date, more than 9000 mouse brain, discovered potential new regional or cell type markers. Considering its advantage throughput, expect S4P strategy will be applicable wide range future studies.

Язык: Английский

Процитировано

0

Cognitive Frailty: A Comprehensive Clinical Paradigm Beyond Cognitive Decline DOI
Mariagiovanna Cozza, Virginia Boccardi

Ageing Research Reviews, Год журнала: 2025, Номер unknown, С. 102738 - 102738

Опубликована: Март 1, 2025

Язык: Английский

Процитировано

0

A high-definition spatially resolved metabolomics method to illuminate the metabolic specificity and interconnection across mouse brain DOI
Meng Yu, Yanhe Zhou, Guanlin Xiao

и другие.

Chinese Chemical Letters, Год журнала: 2025, Номер unknown, С. 111153 - 111153

Опубликована: Март 1, 2025

Язык: Английский

Процитировано

0