Atherosclerosis-related biomarker PABPC1 predicts pan-cancer events

Background Atherosclerosis (AS) and tumours are the leading causes of death worldwide and share common risk factors, detection methods and molecular markers. Therefore, searching for serum markers shared by AS and tumours is beneficial to the early diagnosis of patients. Methods The sera of 23 patients with AS-related transient ischaemic attack were screened by serological identification of antigens through recombinant cDNA expression cloning (SEREX), and cDNA clones were identified. Pathway function enrichment analysis was performed on cDNA clones to identify their biological pathways and determine whether they were related to AS or tumours. Subsequently, gene–gene and protein–protein interactions were performed and AS-associated markers would be discovered. The expression of AS biomarkers in human normal organs and pan-cancer tumour tissues were explored. Then, immune infiltration level and tumour mutation burden of various immune cells were evaluated. Survival curves analysis could show the expression of AS markers in pan-cancer. Results AS-related sera were screened by SEREX, and 83 cDNA clones with high homology were obtained. Through functional enrichment analysis, it was found that their functions were closely related to AS and tumour functions. After multiple biological information interaction screening and the external cohort validating, poly(A) binding protein cytoplasmic 1 (PABPC1) was found to be a potential AS biomarker. To assess whether PABPC1 was related to pan-cancer, its expression in different tumour pathological stages and ages was screened. Since AS-associated proteins were closely related to cancer immune infiltration, we investigated and found that PABPC1 had the same role in pan-cancer. Finally, analysis of Kaplan-Meier survival curves revealed that high PABPC1 expression in pan-cancer was associated with high risk of death. Conclusions Through the findings of SEREX and bioinformatics pan-cancer analysis, we concluded that PABPC1 might serve as a potential biomarker for the prediction and diagnosis of AS and pan-cancer.

[1]  T. Hiwasa,et al.  Serum Anti-BRAT1 is a Common Molecular Biomarker for Gastrointestinal Cancers and Atherosclerosis , 2022, Frontiers in Oncology.

[2]  Brad T. Sherman,et al.  DAVID: a web server for functional enrichment analysis and functional annotation of gene lists (2021 update) , 2022, Nucleic Acids Res..

[3]  Zhaohui S. Qin,et al.  UALCAN: An update to the integrated cancer data analysis platform , 2022, Neoplasia.

[4]  A. Jemal,et al.  Cancer statistics, 2022 , 2022, CA: a cancer journal for clinicians.

[5]  F. Meng,et al.  GBAS Regulates the Proliferation and Metastasis of Ovarian Cancer Cells by Combining with eEF1A1 , 2022, The oncologist.

[6]  E. Nakakura,et al.  Discovering dominant tumor immune archetypes in a pan-cancer census , 2021, Cell.

[7]  Yunchang Mo,et al.  DCA Protects against Oxidation Injury Attributed to Cerebral Ischemia-Reperfusion by Regulating Glycolysis through PDK2-PDH-Nrf2 Axis , 2021, Oxidative medicine and cellular longevity.

[8]  I. Soerjomataram,et al.  Alcohol and Cancer: Epidemiology and Biological Mechanisms , 2021, Nutrients.

[9]  Chandra L. Theesfeld,et al.  Decoding disease: from genomes to networks to phenotypes , 2021, Nature Reviews Genetics.

[10]  R. Reiter,et al.  Pan‐cancer analyses reveal genomics and clinical characteristics of the melatonergic regulators in cancer , 2021, Journal of pineal research.

[11]  A. Lánczky,et al.  Web-Based Survival Analysis Tool Tailored for Medical Research (KMplot): Development and Implementation , 2021, Journal of medical Internet research.

[12]  C. Lindskog,et al.  A single–cell type transcriptomics map of human tissues , 2021, Science Advances.

[13]  M. Norell,et al.  Bird neurocranial and body mass evolution across the end-Cretaceous mass extinction: The avian brain shape left other dinosaurs behind , 2021, Science Advances.

[14]  F. Bray,et al.  The ever‐increasing importance of cancer as a leading cause of premature death worldwide , 2021, Cancer.

[15]  M. Fassan,et al.  The molecular profiling of solid tumors by liquid biopsy: a position paper of the AIOM–SIAPEC-IAP–SIBioC–SIC–SIF Italian Scientific Societies☆ , 2021, ESMO open.

[16]  H. Kamel,et al.  2021 Guideline for the Prevention of Stroke in Patients With Stroke and Transient Ischemic Attack: A Guideline From the American Heart Association/American Stroke Association. , 2021, Stroke.

[17]  X. Yang,et al.  The role of the HIF‐1α/ALYREF/PKM2 axis in glycolysis and tumorigenesis of bladder cancer , 2021, Cancer communications.

[18]  C. Jin,et al.  HDAC2 enhances esophageal squamous cell carcinoma development through down-regulating microRNA-503-5p and promoting CXCL10 , 2021, Clinical epigenetics.

[19]  Chiadi E. Ndumele,et al.  Obesity and Cardiovascular Disease: A Scientific Statement From the American Heart Association , 2021, Circulation.

[20]  T. Hiwasa,et al.  Novel serum autoantibodies against ß-actin (ACTB) in amyotrophic lateral sclerosis , 2021, Amyotrophic lateral sclerosis & frontotemporal degeneration.

[21]  Annette S. Kim,et al.  JAK2 Rearrangements Are a Recurrent Alteration in CD30+ Systemic T-Cell Lymphomas With Anaplastic Morphology , 2021, The American journal of surgical pathology.

[22]  S. Prabhakaran,et al.  Diagnosis and Management of Transient Ischemic Attack and Acute Ischemic Stroke: A Review. , 2021, JAMA.

[23]  E. Fernández,et al.  Tobacco control policies in the 21st century: achievements and open challenges , 2021, Molecular oncology.

[24]  R. Xu,et al.  Liquid Biopsy of Methylation Biomarkers in Cell-Free DNA. , 2021, Trends in molecular medicine.

[25]  W. Wick,et al.  Local blood coagulation drives cancer cell arrest and brain metastasis in a mouse model. , 2020, Blood.

[26]  Xiang Chen,et al.  Pyruvate kinase M2 (PKM2) in cancer and cancer therapeutics. , 2020, Cancer letters.

[27]  M. Čemažar,et al.  Targeted delivery of siRNAs against hepatocellular carcinoma-related genes by a galactosylated polyaspartamide copolymer. , 2020, Journal of controlled release : official journal of the Controlled Release Society.

[28]  A. Baumbach,et al.  Interdisciplinary management of acute ischaemic stroke: Current evidence training requirements for endovascular stroke treatment. , 2020, European heart journal.

[29]  Nai-Feng Liu,et al.  PDK4 promotes vascular calcification by interfering with autophagic activity and metabolic reprogramming , 2020, Cell Death & Disease.

[30]  Kara Dolinski,et al.  The BioGRID database: A comprehensive biomedical resource of curated protein, genetic, and chemical interactions , 2020, Protein science : a publication of the Protein Society.

[31]  Z. YuFeng,et al.  Expression and prognostic roles of PABPC1 in hepatocellular carcinoma. , 2020, International journal of surgery.

[32]  A. Jemal,et al.  Cancer statistics for adolescents and young adults, 2020 , 2020, CA: a cancer journal for clinicians.

[33]  Rika Nakamura,et al.  Serum anti‐LRPAP1 is a common biomarker for digestive organ cancers and atherosclerotic diseases , 2020, Cancer science.

[34]  A. Sudo,et al.  Significance of coagulation and fibrinolysis markers for benign and malignant soft tissue tumors , 2020, BMC cancer.

[35]  Xiaole Shirley Liu,et al.  TIMER2.0 for analysis of tumor-infiltrating immune cells , 2020, Nucleic Acids Res..

[36]  J. Després,et al.  Obesity Phenotypes, Diabetes, and Cardiovascular Diseases. , 2020, Circulation research.

[37]  Lei Chang,et al.  HDAC2 (Histone deacetylase 2): A critical factor in environmental enrichment‐mediated stroke recovery , 2020, Journal of neurochemistry.

[38]  S. Tsugane,et al.  Association of serum levels of antibodies against ALDOA and FH4 with transient ischemic attack and cerebral infarction , 2020, BMC Neurology.

[39]  Huanming Yang,et al.  An atlas of the protein-coding genes in the human, pig, and mouse brain , 2020, Science.

[40]  A. Jemal,et al.  Cancer statistics, 2020 , 2020, CA: a cancer journal for clinicians.

[41]  Ye Tian,et al.  PKM2-dependent glycolysis promotes the proliferation and migration of vascular smooth muscle cells during atherosclerosis. , 2019, Acta biochimica et biophysica Sinica.

[42]  A. Weeraratna,et al.  How the ageing microenvironment influences tumour progression , 2019, Nature Reviews Cancer.

[43]  Xiao-qin Zhang,et al.  Long Noncoding RNA-dependent Regulation of Vascular Smooth Muscle Cell Proliferation and Migration in Hypertension. , 2019, The international journal of biochemistry & cell biology.

[44]  Gunnar Rätsch,et al.  A Pan-cancer Transcriptome Analysis Reveals Pervasive Regulation through Alternative Promoters , 2019, Cell.

[45]  P. Libby,et al.  Atherosclerosis , 2019, Nature Reviews Disease Primers.

[46]  P. Libby,et al.  Clonal Hematopoiesis: Crossroads of Aging, Cardiovascular Disease, and Cancer: JACC Review Topic of the Week. , 2019, Journal of the American College of Cardiology.

[47]  F. Greten,et al.  Inflammation and Cancer: Triggers, Mechanisms, and Consequences. , 2019, Immunity.

[48]  Zemin Zhang,et al.  GEPIA2: an enhanced web server for large-scale expression profiling and interactive analysis , 2019, Nucleic Acids Res..

[49]  M. Russo,et al.  Mitophagy and Oxidative Stress in Cancer and Aging: Focus on Sirtuins and Nanomaterials , 2019, Oxidative medicine and cellular longevity.

[50]  R. Cheng,et al.  Cardiovascular Disease and Cancer: Is There Increasing Overlap? , 2019, Current Oncology Reports.

[51]  Alireza Hadj Khodabakhshi,et al.  Metascape provides a biologist-oriented resource for the analysis of systems-level datasets , 2019, Nature Communications.

[52]  Damian Szklarczyk,et al.  STRING v11: protein–protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets , 2018, Nucleic Acids Res..

[53]  Stuart Walker Local. , 2018, AORN journal.

[54]  Gretchen A. Stevens,et al.  NCD Countdown 2030: worldwide trends in non-communicable disease mortality and progress towards Sustainable Development Goal target 3.4 , 2018, The Lancet.

[55]  Jeff Gauthier,et al.  A brief history of bioinformatics , 2018, Briefings Bioinform..

[56]  Steven J. M. Jones,et al.  The Immune Landscape of Cancer , 2018, Immunity.

[57]  L. Jones,et al.  Exercise Therapy and Cardiovascular Toxicity in Cancer , 2018, Circulation.

[58]  W. Powers,et al.  2018 Guidelines for the Early Management of Patients With Acute Ischemic Stroke: A Guideline for Healthcare Professionals From the American Heart Association/American Stroke Association , 2018, Stroke.

[59]  Takeshi Kimura,et al.  Association of serum levels of antibodies against MMP1, CBX1, and CBX5 with transient ischemic attack and cerebral infarction , 2017, Oncotarget.

[60]  J. Ferlay,et al.  Cancer incidence and mortality among young adults aged 20-39 years worldwide in 2012: a population-based study. , 2017, The Lancet. Oncology.

[61]  P. Stacpoole Therapeutic Targeting of the Pyruvate Dehydrogenase Complex/Pyruvate Dehydrogenase Kinase (PDC/PDK) Axis in Cancer , 2017, Journal of the National Cancer Institute.

[62]  N. Mackman,et al.  Cancer-associated pathways and biomarkers of venous thrombosis. , 2017, Blood.

[63]  Icgc,et al.  Pan-cancer analysis of whole genomes , 2017, bioRxiv.

[64]  Subbroto Kumar Saha,et al.  Correlation between Oxidative Stress, Nutrition, and Cancer Initiation , 2017, International journal of molecular sciences.

[65]  A. Bardelli,et al.  Integrating liquid biopsies into the management of cancer , 2017, Nature Reviews Clinical Oncology.

[66]  Ralf Herwig,et al.  Analyzing and interpreting genome data at the network level with ConsensusPathDB , 2016, Nature Protocols.

[67]  Jun S. Liu,et al.  Comprehensive analyses of tumor immunity: implications for cancer immunotherapy , 2016, Genome Biology.

[68]  O. Rabal,et al.  Hsp70 protects from stroke in atrial fibrillation patients by preventing thrombosis without increased bleeding risk. , 2016, Cardiovascular research.

[69]  N. Gray,et al.  Poly(A)-binding proteins and mRNA localization: who rules the roost? , 2015, Biochemical Society transactions.

[70]  Chunlei Wu,et al.  BioGPS: building your own mash-up of gene annotations and expression profiles , 2015, Nucleic Acids Res..

[71]  Joseph P. Broderick,et al.  Gene Expression in Peripheral Immune Cells following Cardioembolic Stroke Is Sexually Dimorphic , 2014, PloS one.

[72]  C. Sotiriou,et al.  TP53 mutation‐correlated genes predict the risk of tumor relapse and identify MPS1 as a potential therapeutic kinase in TP53‐mutated breast cancers , 2014, Molecular oncology.

[73]  Adam A. Margolin,et al.  Enabling transparent and collaborative computational analysis of 12 tumor types within The Cancer Genome Atlas , 2013, Nature Genetics.

[74]  A. Lánczky,et al.  A meta-analysis of gene expression-based biomarkers predicting outcome after tamoxifen treatment in breast cancer , 2013, Breast Cancer Research and Treatment.

[75]  M. Wintermark,et al.  Guidelines for the Early Management of Patients With Acute Ischemic Stroke: A Guideline for Healthcare Professionals From the American Heart Association/American Stroke Association , 2013, Stroke.

[76]  Bernadette A. Thomas,et al.  Disability-adjusted life years (DALYs) for 291 diseases and injuries in 21 regions, 1990–2010: a systematic analysis for the Global Burden of Disease Study 2010 , 2012, The Lancet.

[77]  José M Ferro,et al.  TTC7B Emerges as a Novel Risk Factor for Ischemic Stroke Through the Convergence of Several Genome-Wide Approaches , 2012, Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism.

[78]  P. Libby,et al.  Progress and challenges in translating the biology of atherosclerosis , 2011, Nature.

[79]  E. Lundberg,et al.  Towards a knowledge-based Human Protein Atlas , 2010, Nature Biotechnology.

[80]  A. Singleton,et al.  Genomic biomarkers and cellular pathways of ischemic stroke by RNA gene expression profiling , 2010, Neurology.

[81]  Alexander Martin,et al.  BisoGenet: a new tool for gene network building, visualization and analysis , 2010, BMC Bioinformatics.

[82]  R. Haberl,et al.  [Transient ischemic attack]. , 2009, MMW Fortschritte der Medizin.

[83]  S. Batalov,et al.  A gene atlas of the mouse and human protein-encoding transcriptomes. , 2004, Proceedings of the National Academy of Sciences of the United States of America.

[84]  P. Shannon,et al.  Cytoscape: a software environment for integrated models of biomolecular interaction networks. , 2003, Genome research.

[85]  M. Ashburner,et al.  Gene Ontology: tool for the unification of biology , 2000, Nature Genetics.

[86]  M. Pfreundschuh,et al.  Human neoplasms elicit multiple specific immune responses in the autologous host. , 1995, Proceedings of the National Academy of Sciences of the United States of America.

[87]  OUP accepted manuscript , 2022, The Oncologist.

[88]  C. Nolte,et al.  [Management of acute ischemic stroke]. , 2016, Fortschritte der Neurologie-Psychiatrie.

[89]  Yi Pan,et al.  CytoNCA: A cytoscape plugin for centrality analysis and evaluation of protein interaction networks , 2015, Biosyst..

[90]  Hiroyuki Ogata,et al.  KEGG: Kyoto Encyclopedia of Genes and Genomes , 1999, Nucleic Acids Res..

[91]  Supplemental Information 2: Kyoto Encyclopedia of genes and genomes. , 2022 .