Biochemistry and Biophysics Reports最新文献

{"title":"Egg-derived sphingomyelin induces ferroptosis in cancer cells, depending on intracellular labile iron pool levels","authors":"Chiharu Iwase ,&nbsp;Atsushi Nishikawa ,&nbsp;Chie Umatani ,&nbsp;Yutaka Miura","doi":"10.1016/j.bbrep.2025.102239","DOIUrl":"10.1016/j.bbrep.2025.102239","url":null,"abstract":"<div><div>Sphingomyelin (SPM), a sphingolipid abundant in animal cell membranes and animal-derived foods, plays a crucial role in maintaining cell membranes and intracellular signaling. Additionally, although previous studies have suggested that SPM has anticancer effects, the molecular entity underlying its effect on cancer cell viability remains unclear. Moreover, the effects of exogenous SPM on cancer cells have not yet been thoroughly explored. In this study, we investigated the mechanisms underlying SPM-induced cell death in cancer cell lines. For the analyses of cell death, we used five cancer cell lines—COV362, AH109A, HepG2, A549, and Colo201—as cancer models and primary cultured rat hepatocytes and normal human dermal fibroblasts (NHDF) as normal cell models. We demonstrated that SPM induces a type of cell death, ferroptosis, in several cancer cell lines, including COV362, AH109A, HepG2, and A549. Furthermore, SPM application increased the production of reactive oxygen species (ROS) and induced ferroptosis. Since one of the key factors regulating ferroptosis sensitivity is the intracellular labile iron pool (LIP), we examined LIP levels in each cell and found that cells with higher LIP levels were more susceptible to SPM-induced cell death; exogenous iron further enhanced this effect, confirming that LIP plays a crucial role in ferroptosis induction. Our findings demonstrate that SPM can selectively induce ferroptosis in cancer cells through ROS production and, possibly, iron-dependent lipid peroxidation. These findings may provide a potential therapeutic strategy for the selective induction of ferroptosis in cancer cells.</div></div>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"44 ","pages":"Article 102239"},"PeriodicalIF":2.2,"publicationDate":"2025-09-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145004586","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Krüppel-like factor 4 regulates cellular proliferation and differentiation in human bone marrow-derived mesenchymal stem cells","authors":"Kenichi Miyamoto ,&nbsp;Satoru Miyagi ,&nbsp;Rintaro Yoshikawa ,&nbsp;Yuichi Michikawa ,&nbsp;Yumi Matsuzaki","doi":"10.1016/j.bbrep.2025.102241","DOIUrl":"10.1016/j.bbrep.2025.102241","url":null,"abstract":"<div><div>Mesenchymal stem cells (MSCs) form one of the types of adult stem cell which have the capacity to self-renew, and the multipotentiality for osteogenic, chondrogenic and adipogenic differentiation and immune modulation. Consequently, MSCs are an attractive cell source for regenerative medicine and therapy for inflammatory disease. However, biological criteria to ensure any particular MSCs are “stem cells” have not been clarified. Previously, we reported that MSCs isolated from a single CD90/CD271 double-positive cell in human bone marrow have high colony-forming capacity and tri-lineage differentiation potential <em>in vitro</em>. Such clonal MSCs are highly homogeneous and considered to be useful for the analysis of molecular function. In this study, we focused on Krüppel-like factor 4 (KLF4) which is highly expressed by our MSC subtype, and examined its role <em>in vitro</em>. The expression of KLF4 was significantly reduced within 24 h after the induction of adipogenic or osteogenic differentiation. Knockdown of KLF4 led to promotion of cellular proliferation and differentiation at an early stage. Furthermore, the expressions of <em>TGFBR1</em>, <em>FZD6</em>, <em>FGFR2</em>, <em>THY1</em> and <em>CXCL12</em> genes were upregulated in KLF4 knockdown MSCs. These results indicated that KLF4 regulates not only cellular proliferation but also the early stage of differentiation. Our findings suggest that KLF4 has an important role in maintaining the properties of MSCs and regulating differentiation via TGF-β, WNT and FGF signaling pathways.</div></div>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"44 ","pages":"Article 102241"},"PeriodicalIF":2.2,"publicationDate":"2025-09-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145004587","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Combined effects of hyperbaric oxygen and ozone therapy on biochemical markers in ischemia-reperfusion injury: An experimental study","authors":"Asli Datli ,&nbsp;Ozgur Pilanci ,&nbsp;Savas Ilgezdi ,&nbsp;Saadet Pilten Guzel ,&nbsp;Mehmet Bozkurt","doi":"10.1016/j.bbrep.2025.102232","DOIUrl":"10.1016/j.bbrep.2025.102232","url":null,"abstract":"<div><h3>Objective</h3><div>This study aimed to compare the effects of hyperbaric oxygen therapy (HBO) and ozone therapy (OT) on ischemia-reperfusion injury in Sprague-Dawley rat rectus abdominis muscle (RAM) flaps through the analysis of oxidative stress markers.</div></div><div><h3>Methods</h3><div>This experimental study involved 36 adult Sprague-Dawley rats divided into five groups: HBO, OT, HBO + OT, Control, and Sham. Ischemia-reperfusion injury was induced in RAM flaps for 4 h. Levels of myeloperoxidase (MPO), superoxide dismutase (SOD), and malondialdehyde (MDA) were measured in serum samples on the 1st and 7th days using the ELISA method.</div></div><div><h3>Results</h3><div>SOD levels increased significantly on the 7th day in the HBO + OT group (p = 0.044). MPO levels were significantly elevated in the Sham and Control groups by day 7 (p = 0.049, p = 0.025). MDA levels increased significantly in the Control, OT, and HBO groups on day 7 (p = 0.028). While HBO and OT reduced oxidative stress, the combined HBO + OT therapy appeared to elevate oxidative stress markers over time.</div></div><div><h3>Conclusion</h3><div>HBO and OT therapies show individual efficacy in reducing oxidative stress during ischemia-reperfusion injury. While both therapies reduced oxidative damage, combining them might offer additional protection.</div></div>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"44 ","pages":"Article 102232"},"PeriodicalIF":2.2,"publicationDate":"2025-09-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144989072","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"OT17 a novel microsatellite stable colorectal cancer cell line and organoid model for investigating BRAF V600E mutant tumorigenesis and targeted therapeutics","authors":"Chen Zheng ,&nbsp;Xuan Tang ,&nbsp;Shuang Wang ,&nbsp;Yuxuan Xu ,&nbsp;Keyang Jia ,&nbsp;Ganglong Gao ,&nbsp;Guiying Wei ,&nbsp;Gengming Niu ,&nbsp;Yiwen Wu ,&nbsp;Xiaozhe Qian ,&nbsp;Ying Zhu ,&nbsp;Dongxi Xiang","doi":"10.1016/j.bbrep.2025.102235","DOIUrl":"10.1016/j.bbrep.2025.102235","url":null,"abstract":"<div><div>Human cancer cell lines serve as essential in vitro models for investigating tumor biology, carcinogenesis, molecular genetics, metastasis, and tumor evolution. In this study, we establish and characterize the OT17 cell line, derived from a moderately to poorly differentiated colorectal adenocarcinoma surgical specimen. Genetic analysis of OT17 revealed key mutations, including BRAF V600E, APC, and ERBB2, along with a deletion in TP53. Immunohistochemical profiling confirmed the expression of MLH1, MSH2, MSH6, and PMS2, indicating a microsatellite-stable (MSS) phenotype consistent with the primary tumor. The OT17 cell line demonstrated robust tumorigenicity in vivo, achieving a 100 % success rate in forming subcutaneous tumors in NOD-scid Il2rg^−/−(NSG)(NSG) mice. Additionally, a corresponding 3D organoid model (CO17) was established, which retained genetic concordance with OT17, further validating its relevance for preclinical applications. Together, the OT17 cell line and CO17 organoid system represent robust models for advancing colorectal cancer research, with potential applications in therapeutic screening, immunotherapy development, and MSS tumor biology studies.</div></div>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"44 ","pages":"Article 102235"},"PeriodicalIF":2.2,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144933284","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Altered lipidomic and metabolomic status in cerebrospinal fluid of children with myelin oligodendrocyte glycoprotein antibody-associated disorder","authors":"Pin Fee Chong ,&nbsp;Kenta Kajiwara ,&nbsp;Yuji Ueno ,&nbsp;Satoshi Akamine ,&nbsp;Hiroyuki Torisu ,&nbsp;Ryutaro Kira ,&nbsp;Shouichi Ohga ,&nbsp;Yasunari Sakai","doi":"10.1016/j.bbrep.2025.102233","DOIUrl":"10.1016/j.bbrep.2025.102233","url":null,"abstract":"<div><div>Myelin oligodendrocyte glycoprotein antibody-associated disorder (MOGAD) is a group of acquired demyelinating syndromes affecting the central nervous system. MOGAD-associated bioactive molecules remain elusive. A retrospective case-control study was performed to characterize the biochemical and immunological profiles of cerebrospinal fluid (CSF) in MOGAD. Thirteen patients with MOGAD (onset age: 2–14 years, 6 females) and five patients with epilepsy, serving as controls, were enrolled. Liquid chromatography with tandem mass spectrometry was used for lipidomic and metabolomic analyses using CSF samples collected at disease onset (n = 5). The MS/MS system detected a total of 7527 molecules in lipidomic and 17,526 molecules in metabolomic analyses of CSF. Among them, 162 (0.02 %) lipophilic molecules were detected at levels that differed from those of controls. Among the 549 (0.03 %) hydrophilic molecules that were differentially presented, pyridoxine, ribitol, and isethionate levels were significantly lower in patients with MOGAD. Both lipidomic and metabolomic analyses, discriminated CSF samples of patients with MOGAD from controls using Uniform Manifold Approximation and Projection. In summary, CSF samples from children with MOGAD exhibit distinctive lipidomic and metabolomic profiles. These findings provide evidence for the diagnostic potential of CSF-based lipidomic and metabolomic analyses for childhood-onset MOGAD.</div></div>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"44 ","pages":"Article 102233"},"PeriodicalIF":2.2,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144933273","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Identification of bile powder based on component data matrix and progressive matching strategy combined with UHPLC-QTOF-MS","authors":"Haonan Wu ,&nbsp;Xianrui Wang ,&nbsp;Minghua Li ,&nbsp;Xiaohan Guo ,&nbsp;Xianlong Cheng ,&nbsp;Tian Yin ,&nbsp;Wenguang Jing ,&nbsp;Feng Wei","doi":"10.1016/j.bbrep.2025.102234","DOIUrl":"10.1016/j.bbrep.2025.102234","url":null,"abstract":"<div><h3>Background</h3><div>Pig bile powder (PBP), chicken bile powder (CKBP), goat bile powder (GBP), bear bile powder (BBP), cow bile powder (CBP), rabbit bile powder (RBP) and snake bile powder (SBP) are commonly used bile powder medicinal materials in the clinic. Due to frequent confusion and fraudulent use, it is necessary to establish and enrich identification methods. In this paper, the component data matrix (CDM) contained common component matrix (CCM) and specificity component matrix (SCM), and progressive matching strategy (PMS) were innovatively proposed to identify PBP, CKBP, GBP, BBP, CBP, RBP and SBP.</div></div><div><h3>Methods</h3><div>The samples were analyzed by LC-MS to obtain MS data on chemical components. Then, the CCM and SCM of each bile powder was obtained by taking the intersection and de-intersection of MS data. Finally, the CCM and SCM were used for matching test samples to obtain matching value (MV). At the same time, the proprietary components were further explored.</div></div><div><h3>Results</h3><div>Based on CDM and PMS, the identification of PBP, CKBP, GBP, BBP, CBP, RBP and SBP can be quickly realized with MV ≥ 70 %. <strong>Conclusions</strong>: The CDM and PMS were efficient to identify PBP, CKBP, GBP, BBP, CBP, RBP and SBP, which has more specificity. It can enrich identification methods and strengthen quality assurance of bile powder medicinal materials.</div></div>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"44 ","pages":"Article 102234"},"PeriodicalIF":2.2,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144926003","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"CEBPB as a prognostic biomarker and its association with immune cells in clear cell renal cell carcinoma","authors":"Yaoqiang Ren ,&nbsp;Min Wei ,&nbsp;Quanfa Tian ,&nbsp;Wenke Guo","doi":"10.1016/j.bbrep.2025.102231","DOIUrl":"10.1016/j.bbrep.2025.102231","url":null,"abstract":"<div><div>Clear cell renal cell carcinoma (ccRCC) is a highly aggressive malignancy with a poor prognosis. This study examines the expression, prognostic significance, and immune association of CCAAT/enhancer-binding protein beta (CEBPB) in ccRCC. RNA sequencing data from The Cancer Genome Atlas (TCGA) and Genotype-Tissue Expression (GTEx) Project were analyzed using the STAR workflow and R software. Immunohistochemistry (IHC) validated CEBPB expression in ccRCC tissues. Functional enrichment analyses (Gene Ontology and Kyoto Encyclopedia of Genes and Genomes) and a protein-protein interaction (PPI) network (STRING and Cytoscape) were used to explore CEBPB-related pathways. Single-sample gene set enrichment analysis (ssGSEA) revealed significant correlations between CEBPB expression and the infiltration of 24 immune cell types. CEBPB was linked to immune-related pathways, including humoral immune response, leukocyte migration, and cytokine signaling. PPI analysis identified strong interactions with STAT3/EP300, highlighting its role in immune regulation. Cox regression analysis showed that high CEBPB expression is associated with poorer overall survival, supporting its potential as a prognostic biomarker. In conclusion, CEBPB plays a key role in shaping the immune microenvironment of ccRCC and may serve as a novel prognostic marker and therapeutic target.</div></div>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"44 ","pages":"Article 102231"},"PeriodicalIF":2.2,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144922047","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A modified protocol for the isolation and culture of human umbilical vein endothelial cells","authors":"Anmol Sandhu ,&nbsp;Anannya Parvathi ,&nbsp;Jennifer Jane McGhee ,&nbsp;Salim Ismail ,&nbsp;I-Ping Loh ,&nbsp;Bert van der Werf ,&nbsp;Jie Zhang ,&nbsp;Trevor Sherwin","doi":"10.1016/j.bbrep.2025.102221","DOIUrl":"10.1016/j.bbrep.2025.102221","url":null,"abstract":"<div><div>The umbilical cord is a valuable source of foetal stem cells, progenitor cells, and early-stage developmental cells, including human umbilical vein endothelial cells (HUVECs). HUVECs are widely used as a model for endothelial biology and are increasingly being investigated for their regenerative potential. Efficient isolation of these cells from the umbilical vein is a critical first step for both research and therapeutic applications. To date, most published protocols utilise Collagenase A for isolation. In this study, we present a modified HUVEC isolation protocol that employs dispase, alongside refined tissue and cell culture handling practices. We characterised the isolated cells using established HUVEC markers CD31 and CD146, and demonstrated in situ detachment of the cells from the vessel wall through immunofluorescence imaging. Our method achieved a success rate exceeding 95.6 % across all umbilical cords processed. These findings highlight the protocol's potential for broad applicability across research settings, using readily accessible reagents and equipment.</div></div>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"44 ","pages":"Article 102221"},"PeriodicalIF":2.2,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144922054","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Clinical application study of a novel fully automatic erythrocyte osmotic fragility analysis system","authors":"Zixin Deng ,&nbsp;Yi Li ,&nbsp;Zhizhi Xiang ,&nbsp;Yi Liu ,&nbsp;Jingbo Tang ,&nbsp;Song Zhang ,&nbsp;Guangchao Zang ,&nbsp;Yingying Gao ,&nbsp;Lei Ma","doi":"10.1016/j.bbrep.2025.102224","DOIUrl":"10.1016/j.bbrep.2025.102224","url":null,"abstract":"<div><h3>Background</h3><div>Existing erythrocyte osmotic fragility test (EFT) methods are constrained by subjectivity, poor reproducibility, and lack of standardization, limiting their clinical utility in thalassemia screening. This study evaluates the RA-800 Plus, a novel fully automated EFT analyzer, as a scalable tool for thalassemia screening and aims to establish reference intervals for healthy individuals. By addressing the key limitations of manual EFTs, this work seeks to promote methodological innovation and enable standardized, high-throughput screening in diverse clinical settings.</div></div><div><h3>Methods</h3><div>EFTs were performed on 273 healthy adults via an RA-800 Plus analyzer. The light scattering turbidity method was employed to establish a reference interval within the normal range. The neonatal samples were tested in the same way to determine the newborn-specific range. Moreover, 97 samples underwent dual tests of RA-800 Plus analysis and the gold standard (genetic testing) to evaluate the diagnostic performance. A total of 103 pairs of samples were detected and compared via an automated system and the traditional manual direct colorimetric method, further verifying the consistency of the two methods. The effects of anticoagulant type, sample storage, and rewarming were also investigated.</div></div><div><h3>Results</h3><div>RA-800 Plus demonstrated high reliability, with minimal influence from anticoagulants and sample handling conditions. The analyzer showed an 84 % detection rate for β-thalassemia, indicating superior effectiveness for β-thalassemia screening. The test results were consistent with the manual method (Kappa ≥0.6). ROC curve analysis confirmed the suitability of both methods for thalassemia screening, with AUCs of 0.91 for β-thalassemia and 0.72 for α-thalassemia.</div></div><div><h3>Conclusions</h3><div>The RA-800 Plus offers a fully automated, reliable, and clinically viable alternative for thalassemia screening, particularly for β-thalassemia. Its stability, accuracy, and ease of use make it a valuable tool for improving thalassemia diagnostics.</div></div>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"44 ","pages":"Article 102224"},"PeriodicalIF":2.2,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144926005","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Collagen proteins, thrombospondin 1 and lumican are differentially expressed across breast cancer subtypes by functional proteomics from core needle biopsy samples of Taiwanese breast cancer","authors":"Wei-Chi Ku ,&nbsp;Nam Nhut Phan ,&nbsp;Chih-Yi Liu ,&nbsp;Chi-Jung Huang ,&nbsp;Chen-Chung Liao ,&nbsp;Yen-Chun Huang ,&nbsp;Po-Hsin Kong ,&nbsp;Ling-Ming Tseng ,&nbsp;Chi-Cheng Huang","doi":"10.1016/j.bbrep.2025.102210","DOIUrl":"10.1016/j.bbrep.2025.102210","url":null,"abstract":"<div><h3>Purpose</h3><div>This study aimed to conduct functional proteomics across breast cancer subtypes with bioinformatics analyses.</div></div><div><h3>Methods</h3><div>Candidate proteins were identified using nanoscale liquid chromatography with tandem mass spectrometry (NanoLC-MS/MS) from core needle biopsy samples of early stage (0-III) breast cancers, followed by external validation with public domain gene-expression datasets (TCGA TARGET GTEx and TCGA BRCA).</div></div><div><h3>Results</h3><div>Seventeen proteins demonstrated significantly differential expression and protein-protein interaction (PPI) found the strong networks including COL2A1, COL11A1, COL6A1, COL6A2, THBS1 and LUM. Public domain databases also showed that <em>COL2A1</em>, <em>COL11A1</em>, <em>COL6A1</em>, <em>COL6A2</em> and <em>LUM</em> were higher in primary/metastatic tumor than in normal tissue (one-way ANOVA, all P-values less than 0.001), and all six genes were differentially expressed across four molecular subtypes based on hormone receptor (HR) status and human epidermal growth factor receptor II (HER2) status (one-way ANOVA, all P-values less than 0.001). Disease-specific survival discrepancy was observed comparing breast cancer patients of the upper and lower quartile of the collagen family (<em>COL2A1</em>, <em>COL11A1</em>, <em>COL6A1</em>, <em>COL6A2</em>), <em>THBS1</em> and <em>LUM</em> gene expression signature (log-rank test, P = 0.06).</div></div><div><h3>Conclusion</h3><div>Functional proteomics suggested that collagen proteins, thrombospondin 1 and lumican are differentially expressed across breast cancer subtypes.</div></div>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"44 ","pages":"Article 102210"},"PeriodicalIF":2.2,"publicationDate":"2025-08-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144919914","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}