Aberrant protein glycosylation: Implications on diagnosis and Immunotherapy

Bangarh, Rashmi; Khatana, Chainika; Kaur, Simranpreet; Sharma, Anchita; Kaushal, Ankur; Siwal, Samarjeet Singh; Tuli, Hardeep Singh; Dhama, Kuldeep; Thakur, Vijay Kumar; Saini, Reena V.; Saini, Adesh K.

doi:10.1016/j.biotechadv.2023.108149

Cited by 32 publications

(11 citation statements)

References 179 publications

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“…We describe the mevalonate, the Nglycan and the sphingolipid biosynthetic pathways, as induced pathways in HCC and thus potential targets for therapy. Although these new findings validate previous evidence of the role of these pathways in cancer cell survival and immune evasion (35,(37)(38)(39)45), such data is so far scarce and fragmented in HCC literature.…”

Section: Discussionsupporting

confidence: 79%

Application of graph models to the identification of transcriptomic oncometabolic pathways in human hepatocellular carcinoma

Barace,

Santamaría,

Infante

et al. 2024

Preprint

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Whole tissue transcriptomic analyses have been helpful to characterize molecular subtypes of hepatocellular carcinoma (HCC). Metabolic subtypes of human HCC have been defined, yet whether these different metabolic classes are clinically relevant or derive in actionable cancer vulnerabilities is still an unanswered question. Publicly available gene sets or gene signatures have been used to infer functional changes through gene set enrichment methods. However, me-tabolism-related gene signatures are poorly coexpressed when applied to a biological context. Here, we apply a simple method to infer highly consistent signatures using graph models. Using The Cancer Genome Atlas Liver Hepatocellular cohort (LIHC), we describe the main metabolic clusters and their relationship with commonly used molecular classes, and with the presence of TP53 or CTNNB1 driver mutations. We find similar results in our validation cohort, the LIRI-JP cohort. We describe how previously described metabolic subtypes could not have therapeutic rel-evance due to their overall downregulation when compared to non-tumoral liver, and identify N-Glycan, Mevalonate and Sphingolipid biosynthetic pathways as the hallmark of the oncogenic shift of the use of Acetyl-coenzyme A in HCC metabolism. Finally, using DepMap data, we demonstrate metabolic vulnerabilities in HCC cell lines.

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Section: Discussionsupporting

confidence: 79%

Application of graph models to the identification of transcriptomic oncometabolic pathways in human hepatocellular carcinoma

Barace,

Santamaría,

Infante

et al. 2024

Preprint

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“…12 Given that the development of cancer is a combination of genetic and environmental factors, 13,14 in the case where disease states cannot be well reflected by genetic or proteomic markers, glycans can report on cancers much better. Virtually, the aberrations in glycan structures and glycosylation patterns have been observed in various types of cancers, 15,16 and their critical role as biomarkers has been recognized by the fact that diagnosis with protein-specific glycan changes rather than only proteins will have improved clinical outcomes. 17,18…”

Section: Introductionmentioning

confidence: 99%

Glycan-specific molecularly imprinted polymers towards cancer diagnostics: merits, applications, and future perspectives

Li,

Liu

2024

Chem. Soc. Rev.

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“…8 High porosity, internal channels and pores, and structural periodicity are advantageous in achieving high payloads and simplistic transport of therapeutic agents. 9 The multifunctionality can be integrated into COFs by choosing suitable functionalized organic building blocks. This versatility of the COFs permits them to release and deliver theranostic agents or drugs in a precise way.…”

Section: Introductionmentioning

confidence: 99%

“…COFs can be synthesized facilely under mild conditions, and bonding defects may be involved at the boundary of the COF matrix . High porosity, internal channels and pores, and structural periodicity are advantageous in achieving high payloads and simplistic transport of therapeutic agents . The multifunctionality can be integrated into COFs by choosing suitable functionalized organic building blocks.…”

Section: Introductionmentioning

confidence: 99%

Covalent–Organic Framework-Based Materials in Theranostic Applications: Insights into Their Advantages and Challenges

Kaur,

Siwal,

Saini

et al. 2024

ACS Omega

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Nanomedicine has been essential in bioimaging and cancer therapy in recent years. Nanoscale covalent−organic frameworks (COFs) have been growing as an adequate classification of biomedical nanomaterials with practical application prospects because of their increased porosity, functionality, and biocompatibility. The high sponginess of COFs enables the incorporation of distinct imaging and therapeutic mechanisms with a better loading efficiency. Nevertheless, preliminary biocompatibility limits their possibility for clinical translation. Thus, cutting-edge nanomaterials with high biocompatibility and improved therapeutic efficiency are highly expected to fast-track the clinical translation of nanomedicines. The inherent effects of nanoscale COFs, such as proper size, modular pore geometry and porosity, and specific postsynthetic transformation through simple organic changes, make them particularly appealing for prospective nanomedicines. The organic building blocks of COFs may also be postmodified for particular binding to biomarkers. The exceptional features of COFs cause them to be an encouraging nanocarrier for bioimaging and therapeutic applications. In this review, we have systematically discussed the advances of COFs in the field of theranostics by providing essential features of COFs along with their synthetic methods. Further, the applications of COFs in the field of theranostics (such as drug delivery systems, photothermal, and photodynamic therapy) are discussed in detail with the help of available literature to date. Furthermore, the advantages of COFs over other materials for therapeutics and drug delivery are discussed. Finally, the review concludes with potential future COF applications in the theranostic field.

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Aberrant protein glycosylation: Implications on diagnosis and Immunotherapy

Cited by 32 publications

References 179 publications

Application of graph models to the identification of transcriptomic oncometabolic pathways in human hepatocellular carcinoma

Application of graph models to the identification of transcriptomic oncometabolic pathways in human hepatocellular carcinoma

Glycan-specific molecularly imprinted polymers towards cancer diagnostics: merits, applications, and future perspectives

Covalent–Organic Framework-Based Materials in Theranostic Applications: Insights into Their Advantages and Challenges

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