RSC - Mol. Omics latest articles

STUB1 (CHIP) – a prognostic marker in cancer

Mol. Omics, 2025, 21,768-793
DOI: 10.1039/D5MO00205B, Research Article

Subhajit Karmakar, Mouli Chatterjee, Malini Basu, Mrinal K Ghosh
A multi-omics pan-cancer framework revealing how STUB1 (CHIP) expression, mutations, immune contexture, survival associations, and network biology converge to define its context-dependent tumor-suppressive or oncogenic roles.
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DeSciDe: a tool for unbiased literature searching and gene list curation unveils a new role for the acidic patch mutation H2A E92K

Mol. Omics, 2025, 21,760-767
DOI: 10.1039/D5MO00160A, Research Article

Open Access

This article is licensed under a Creative Commons Attribution-NonCommercial 3.0 Unported Licence.

Cameron J. Douglas, Ciaran P. Seath
Omics analysis has become an indispensable tool for researchers in the life sciences, enabling the study of DNA, RNA, and proteins and how they respond to cellular stimulus.
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Mapping the Helichrysum metabolome: uncovering species-specific chemistry through an AI-guided LC-MS/MS workflow

Mol. Omics, 2025, 21,747-759
DOI: 10.1039/D5MO00118H, Research Article

Open Access

This article is licensed under a Creative Commons Attribution 3.0 Unported Licence.

Motseoa Mariam Lephatsi, Mpho Susan Choene, Abidemi Paul Kappo, Ntakadzeni Edwin Madala, Fidele Tugizimana
Helichrysum species, of which 35% are native to South Africa, are renowned for their diverse medicinal properties, yet their chemical composition remains largely unexplored.
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Hypoxia-induced alterations in lipid polyunsaturation and associated proteins drive aggressive metastasis in pancreatic cancer via the PPAR/hypoxia pathway

Mol. Omics, 2025, 21,736-746
DOI: 10.1039/D5MO00111K, Research Article

Prema Kumari Agarwala, Avinash Singh, Sanjeeva Srivastava, Shobhna Kapoor
Lipid regulation induced by hypoxic stress drives metastatic potential in pancreatic cancer while maintaining membrane homeostasis.
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Global spinal cord peptidome profiling in response to osteoarthritis in rats

Mol. Omics, 2025, 21,645-656
DOI: 10.1039/D5MO00152H, Research Article

Gaoyuan Lu, Marilyn Frézier, Colombe Otis, Vu Ngoc Huong Tran, Bertrand Lussier, Guillaume Saint-Jean, Helene Beaudry, Eric Troncy, Lingjun Li
Mass spectrometry-based spinal peptidomic profiling in the MI-RAT© model reveals distinct neuropeptide alterations following osteoarthritis induction, compared with sham and naïve control rats.
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Nucleolin perturbation alters membrane lipid homeostasis

Mol. Omics, 2025, 21,723-735
DOI: 10.1039/D5MO00088B, Research Article

Open Access

This article is licensed under a Creative Commons Attribution-NonCommercial 3.0 Unported Licence.

Eitan Erez Zahavi, Ida Rishal, Juan A. Oses-Prieto, Alexander Brandis, Sergey Malitsky, Maxim Itkin, Šárka Pokorná, Florencia Cabrera-Cabrera, Natjan-Naatan Seeba, Robert Risti, Aivar Lõokene, Anthony H. Futerman, Alma L. Burlingame, Mike Fainzilber, Indrek Koppel
Multi-omics molecular profiling of nucleolin-binding DNA aptamer AS1411; AS1411 causes broad changes in lipid biosynthesis and homeostasis.
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Mass spectrometry-based profiling of phosphoinositide: advances, challenges, and future directions

Mol. Omics, 2025, 21,536-544
DOI: 10.1039/D5MO00115C, Review Article

Open Access

This article is licensed under a Creative Commons Attribution 3.0 Unported Licence.

Yuki Ishino, Yuta Shimanaka, Junken Aoki, Nozomu Kono
This review provides an overview of recent advances in mass spectrometric methods for phosphoinositide analysis, with a focus on the separation of regioisomers and acyl chain profiling.
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The omics revolution in obesity: from molecularsignatures to clinical solutions

Mol. Omics, 2025, 21,582-593
DOI: 10.1039/D5MO00074B, Review Article

Mohammad Mustafa, Amr A. Arafat, Waleed Alhazzani, Faisal Kunnathodi, Sarfuddin Azmi, Riyasdeen Anvarbatcha, Ishtiaque Ahmad, Haifa F. Alotaibi
Illustrating the implementation of multiomics technologies for precision prevention of obesity.
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Cytokine-induced memory-like responses in endothelial cells link chronic inflammation to vascular disease risk

Mol. Omics, 2025, 21,706-722
DOI: 10.1039/D5MO00136F, Research Article

Open Access

This article is licensed under a Creative Commons Attribution 3.0 Unported Licence.

Kieu T. T. Le, Nick Keur, Heleen Middelkamp, Thuy Linh Do, Albert van den Berg, Valeria Orlova, Leo A.B. Joosten, Mihai G. Netea, Cisca Wijmenga, Iris Jonkers, Sebo Withoff, Andries D. Van der Meer, Vinod Kumar
Repeated stimulation with TNF-α and IFN-γ induces memory-like transcriptional and chromatin responses in endothelial cells, linking inflammatory exposure to vascular dysfunction and disease risk.
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An altered proteome in ovarian cancer stem-like cells: profiling of the mDivi-1 induced proteome and its clinical significance

Mol. Omics, 2025, 21,621-632
DOI: 10.1039/D5MO00098J, Research Article

Manita Raina, Tejan Lodhiya, Rahail Ashraf, Kalpana Tankay, Arunaja K., Raju Mukherjee, Sanjay Kumar
The graphical abstract represents the altered proteome in 2D- and 3D-cultured ovarian cancer cells. mDivi-1-treated 3D-cultured cells have differential expression of proteins that correlate with progression-free survival of ovarian cancer patients.
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MOFNet: a deep learning framework for multi-omics data fusion in cancer subtype classification

Mol. Omics, 2025, 21,690-705
DOI: 10.1039/D5MO00221D, Research Article

Guangji Zhang, Chunxiao Zhang, Pengpai Li, Duanchen Sun, Zhixia Yang, Zhi-Ping Liu
MOFNet integrates multi-omics data using similarity graph pooling and label-space fusion (VCDN), improving cancer subtype classification while retaining interpretable, biologically relevant features.
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Multi-omics data integration for topology-based pathway activation assessment and personalized drug ranking

Mol. Omics, 2025, 21,678-689
DOI: 10.1039/D5MO00151J, Research Article

Open Access

This article is licensed under a Creative Commons Attribution 3.0 Unported Licence.

Nicolas Borisov, Yaroslav Ilnytsky, Boseon Byeon, Olga Kovalchuk, Igor Kovalchuk
The main finding – the expression of long non-coding RNAs (in red) – correlates much better with mRNA, as compared to correlation between miRNA (in blue) and mRNA.
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MALDI mass spectrometry imaging in plant and food lipidomics: advances, challenges, and future perspectives

Mol. Omics, 2025, 21,566-581
DOI: 10.1039/D5MO00116A, Review Article

G. Ventura, M. Bianco, I. Losito, T. R. I. Cataldi, C. D. Calvano
MALDI MSI enables high-resolution spatial lipid analysis in plants and food. This review covers current methods, challenges, and emerging technologies shaping the future of plant and food lipidomics research.
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Network-driven identification of indisulam neo-substrates for targeted protein degradation

Mol. Omics, 2025, 21,668-677
DOI: 10.1039/D5MO00053J, Research Article

Andrew F. Jarnuczak, Orli Yogev, Angelo Andres, Stephanie K. Ashenden, Cheng Ye, Fiona Pachl, Andrew Zhang, Maria Emanuela Cuomo, Meizhong Jin
Molecular glue neo-substrate identification via proteomics profiling and network analysis.
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Prunus mongolica oil attenuates hepatic fibrosis via a lncRNA-mediated ceRNA network targeting dual PGC-1α/PPARγ and TGF-β/Smad3 pathways

Mol. Omics, 2025, 21,657-667
DOI: 10.1039/D5MO00083A, Research Article

YiJie Hou, HongBing Zhou, XiaoGang Li, JiaXing Gao, Hong Chang, Jia Wang, YingChun Bai, ShuYuan Jiang, ShuFang Niu, WanFu Bai, SongLi Shi
This study systematically investigated the antifibrotic mechanism of Prunus mongolica oil through an integrated approach combining pharmacodynamics, transcriptomics, and molecular biology in CCl₄-induced Sprague–Dawley rat models.
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Deep learning methods and applications in single-cell multimodal data integration

Mol. Omics, 2025, 21,545-565
DOI: 10.1039/D5MO00062A, Review Article

Franklin Vinny Medina Nunes, Luiza Marques Prates Behrens, Rafael Diogo Weimer, Gabriela Flores Gonçalves, Guilherme da Silva Fernandes, Márcio Dorn
This review examines cutting-edge deep learning methods for integrating single-cell multimodal data, highlighting key tools and their applications in harmonizing various omics layers and improving downstream biological analyses.
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Differentially regulated saliva proteome and metabolome: a way forward for risk-assessment of oral cancer among tobacco abusers

Mol. Omics, 2025, 21,594-606
DOI: 10.1039/D5MO00058K, Research Article

Bolaji Fatai Oyeyemi, Shruti Dabral, Amit Paramaraj, Sandhya Srinivasan, Gagan Deep Jhingan, Dhiraj Kumar, Chintamani, Abhinav Kumar, Néel Sarovar Bhavesh
Oral cancer (OC) is a malignant tumour with high morbidity and mortality.
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Comparative glycomic analysis of hawk (Rupornis magnirostris), caiman (Caiman latirostris) and sea turtle (Caretta caretta) tear films

Mol. Omics, 2025, 21,633-644
DOI: 10.1039/D4MO00255E, Research Article

Ana Cláudia Raposo, Sheryl Joyce B. Grijaldo-Alvarez, Gege Xu, Michael Russelle S. Alvarez, Carlito B. Lebrilla, Ricardo Wagner Portela, Arianne Oriá
Glycans are recognized as biomarkers and therapeutic targets.
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Characterizing metabolic dysregulation in early-stage chronic kidney disease for diagnostic insights

Mol. Omics, 2025, 21,607-620
DOI: 10.1039/D5MO00018A, Research Article

Upasna Gupta, Amrita Sahu, Dharmendra Singh Bhadauria, Bikash Baishya, Neeraj Sinha
Understanding these metabolic and pathophysiological processes and discovering relevant biomarkers enables early identification, individualized treatment plans, and the possibility of slowing down or even reversing the progression of CKD.
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