N6-methyladenosine (m6A) in cancer stem cell: From molecular mechanisms to therapeutic implications DOI Creative Commons
Liming Wang,

Yuanxin Tang

Biomedicine & Pharmacotherapy, Journal Year: 2023, Volume and Issue: 163, P. 114846 - 114846

Published: May 9, 2023

The emergence of drug resistance and metastasis has long been a difficult problem for cancer treatment. Recent studies have shown that stem cell populations are key factors in the regulation aggressiveness, relapse resistance. Cancer (CSC) highly plastic self-renewing, giving them unique metabolic, metastatic, chemotherapy properties. N6-methyladenosine (m6A) is most abundant internal modification mRNA involved variety growth development processes, including RNA transcription, alternative splicing, degradation, translation. It also linked to various cancers. At present, important role m6A tumour progression gradually attracting attention, especially stemness process. Abnormal modifications regulate metastasis, recurrence This paper aims explore regulatory mechanism CSCs clinical therapy, clarify its network, provide theoretical guidance targets improvement therapeutic effects.

Language: Английский

Cellular senescence is associated with the spatial evolution toward a higher metastatic phenotype in colorectal cancer DOI Creative Commons
Soon Sang Park, Young‐Kyoung Lee,

Yong Won Choi

et al.

Cell Reports, Journal Year: 2024, Volume and Issue: 43(3), P. 113912 - 113912

Published: March 1, 2024

In this study, we explore the dynamic process of colorectal cancer progression, emphasizing evolution toward a more metastatic phenotype. The term "evolution" as used in study specifically denotes phenotypic transition higher potency from well-formed glandular structures to collective invasion, ultimately resulting development cell buddings at invasive front. Our findings highlight spatial correlation with tumor senescence, revealing distinct types senescent cells (types I and II) that play different roles overall progression. Type (p16INK4A+/CXCL12+/LAMC2−/MMP7−) are identified invasion region, whereas type II (p16INK4A+/CXCL12+/LAMC2+/MMP7+), representing final evolved form, prominently located partial-EMT region. Importantly, associate local lymph node metastasis cancer, potentially affecting patient prognosis.

Language: Английский

Citations

12
Targeting the peripheral neural-tumour microenvironment for cancer therapy DOI
Dan Yaniv,

Brandi J. Mattson,

Sébastien Talbot

et al.

Nature Reviews Drug Discovery, Journal Year: 2024, Volume and Issue: 23(10), P. 780 - 796

Published: Sept. 6, 2024

Language: Английский

Citations

9
Comparison of spatial transcriptomics technologies using tumor cryosections DOI Creative Commons
Anne Rademacher, Alik Huseynov, Michele Bortolomeazzi

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: April 5, 2024

Abstract Background Spatial transcriptomics ( ST ) technologies are revolutionizing our understanding of intra-tumor heterogeneity and the tumor microenvironment by revealing single-cell molecular profiles within their spatial tissue context. The rapid evolution methods, each with unique features, presents a challenge in selecting most appropriate technology for specific research objectives. Here, we compare four imaging-based methods – RNAscope HiPlex, Molecular Cartography, MERFISH/Merscope, Xenium together sequencing-based (Visium). These were used to study cryosections medulloblastoma extensive nodularity (MBEN), chosen its distinct microanatomical features. Results Our analysis reveals that automated well suited delineating intricate MBEN microanatomy, capturing cell-type-specific transcriptome profiles. We devise approaches sensitivity specificity different attributes guide method selection based on aim. Furthermore, demonstrate how reimaging slides after can markedly improve cell segmentation accuracy integrate additional transcript protein readouts expand analytical possibilities depth insights. Conclusions This highlights key distinctions between various provides set parameters evaluating performance. findings aid informed choice delineate enhancing resolution breadth transcriptomic analyses, thereby contributing advancing applications solid research.

Language: Английский

Citations

8
Spatial expression of fibroblast activation protein-α in clear cell renal cell carcinomas revealed by multiplex immunoprofiling analysis of the tumor microenvironment DOI Creative Commons
Gorka Larrinaga, Miriam Redrado,

Ana Loizaga‐Iriarte

et al.

Cancer Immunology Immunotherapy, Journal Year: 2025, Volume and Issue: 74(2)

Published: Jan. 3, 2025

Language: Английский

Citations

1
Spatial transcriptomics: recent developments and insights in respiratory research DOI Creative Commons
Wenjia Wang, Liuxi Chu,

Liyong He

et al.

Military Medical Research, Journal Year: 2023, Volume and Issue: 10(1)

Published: Aug. 17, 2023

Abstract The respiratory system’s complex cellular heterogeneity presents unique challenges to researchers in this field. Although bulk RNA sequencing and single-cell (scRNA-seq) have provided insights into cell types the system, relevant specific spatial localization interactions not been clearly elucidated. Spatial transcriptomics (ST) has filled gap widely used studies. This review focuses on latest iterative technology of ST recent years, summarizing how can be applied physiological pathological processes with emphasis lungs. Finally, current potential development directions are proposed, including high-throughput full-length transcriptome, integration multi-omics, temporal omics, bioinformatics analysis, etc. These viewpoints expected advance study systematic mechanisms,

Language: Английский

Citations

20
Combining preclinical tools and models to unravel tumor complexity: Jump into the next dimension DOI Creative Commons
Giacomo Miserocchi, Martine Bocchini, Michela Cortesi

et al.

Frontiers in Immunology, Journal Year: 2023, Volume and Issue: 14

Published: March 24, 2023

Tumors are complex and heterogeneous diseases characterized by an intricate milieu dynamically in connection with surrounding distant tissues. In the last decades, great efforts have been made to develop novel preclinical models able recapitulate original features of tumors. However, development vitro functional realistic tumor organ is still utopic represents one major challenges reproduce architecture ecosystem. A strategy decrypt whole picture predict its behavior could be started from validation simplified biomimetic systems then proceed their integration. Variables such as cellular acellular composition microenvironment (TME) spatio-temporal distribution considered order respect dynamic evolution oncologic disease. this perspective, we aim explore currently available strategies improve integrate vivo models, three-dimensional (3D) cultures, organoids, zebrafish, better understand disease biology therapeutic approaches.

Language: Английский

Citations

19
Challenges and Opportunities for Clinical Cytogenetics in the 21st Century DOI Open Access

Eric Heng,

Sanjana Thanedar,

Henry H.Q. Heng

et al.

Genes, Journal Year: 2023, Volume and Issue: 14(2), P. 493 - 493

Published: Feb. 15, 2023

The powerful utilities of current DNA sequencing technology question the value developing clinical cytogenetics any further. By briefly reviewing historical and challenges cytogenetics, new conceptual technological platform 21st century is presented. Particularly, genome architecture theory (GAT) has been used as a framework to emphasize importance in genomic era, karyotype dynamics play central role information-based genomics genome-based macroevolution. Furthermore, many diseases can be linked elevated levels variations within given environment. With coding mind, opportunities for are discussed integrate back into karyotypic context represents type information that organizes gene interactions. proposed research frontiers include: 1. focusing on heterogeneity (e.g., classifying non-clonal chromosome aberrations (NCCAs), studying mosaicism, heteromorphism, nuclear alteration-mediated diseases), 2. monitoring process somatic evolution by characterizing instability illustrating relationship between stress, dynamics, diseases, 3. methods data cytogenomics. We hope these perspectives trigger further discussion beyond traditional chromosomal analyses. Future should profile instability-mediated evolution, well degree monitor system’s stress response. Using this platform, common complex disease conditions, including aging process, effectively tangibly monitored health benefits.

Language: Английский

Citations

18
Human pan-cancer analysis of the predictive biomarker for the CDKN3 DOI Creative Commons
Yingjun Chen, Dai Li,

Kaihui Sha

et al.

European journal of medical research, Journal Year: 2024, Volume and Issue: 29(1)

Published: May 8, 2024

Abstract Background Cell cycle protein-dependent kinase inhibitor protein 3 (CDKN3), as a member of the family, has been demonstrated to exhibit oncogenic properties in several tumors. However, there are no pan-carcinogenic analyses for CDKN3. Methods Using bioinformatics tools such The Cancer Genome Atlas (TCGA) and UCSC Xena database, comprehensive pan-cancer analysis CDKN3 was conducted. inverstigation encompassed examination function actoss 33 different kinds tumors, well exploration gene expressions, survival prognosis status, clinical significance, DNA methylation, immune infiltration, associated signal pathways. Results significantly upregulated most tumors correlated with overall (OS) patients. Methylation levels differed between normal tissues. In addition, infiltration CD4 + T cells, cancer-associated fibroblasts, macrophages, endothelial cells were expression various Mechanistically, P53, PI3K-AKT, cell checkpoints, mitotic spindle checkpoint, chromosome maintenance. Conclusion Our conducted study provides understanding involvement tumorigenesis. findings suggest that targeting may potentially lead novel therapeutic strategies treatment

Language: Английский

Citations

7
Ovarian cancer-derived IL-4 promotes immunotherapy resistance DOI
Gürkan Mollaoglu, Alexander Tepper, Chiara Falcomatà

et al.

Cell, Journal Year: 2024, Volume and Issue: unknown

Published: Oct. 1, 2024

Language: Английский

Citations

7
Semi-automated approaches for interrogating spatial heterogeneity of tissue samples DOI Creative Commons
Vytautas Navikas, Joanna Kowal,

Daniel Rodríguez

et al.

Scientific Reports, Journal Year: 2024, Volume and Issue: 14(1)

Published: Feb. 29, 2024

Abstract Tissues are spatially orchestrated ecosystems composed of heterogeneous cell populations and non-cellular elements. Tissue components’ interactions shape the biological processes that govern homeostasis disease, thus comprehensive insights into tissues’ composition crucial for understanding their biology. Recently, advancements in spatial biology field enabled in-depth analyses tissue architecture at single-cell resolution, while preserving structural context. The increasing number biomarkers analyzed, together with whole imaging, generate datasets approaching several hundreds gigabytes size, which rich sources valuable knowledge but require investments infrastructure resources extracting quantitative information. analysis multiplex whole-tissue images requires extensive training experience data analysis. Here, we showcase how a set open-source tools can allow semi-automated image extraction to study tissues focus on tumor microenvironment (TME). With use Lunaphore COMET platform, interrogated lung cancer specimens where examined expression 20 biomarkers. Subsequently, was using an in-house optimized nuclei detection algorithm followed by newly developed artifact exclusion approach. Thereafter, processed publicly available tools, highlighting compatibility COMET-derived currently frameworks. In summary, showcased innovative workflow highlights ease adoption imaging explore TME resolution simple slide in, out Our is easily transferrable various cohorts provide toolset cellular dissection composition.

Language: Английский

Citations

6