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Abbreviation : PPI
Long Form : protein-protein interaction
No. Year Title Co-occurring Abbreviation
2023 A Network Pharmacology-Based Study of Potential Targets of Angelicae Pubescentis-Herba Taxilli Compound for the Treatment of Osteoarthritis. GO, HT, KEGG, OA, TCMSP
2023 A Network Pharmacology-Based Study on the Mechanism of Dibutyl Phthalate of Ocimum basilicum L. against Alzheimer's Disease through the AKT/GSK-3β Pathway. AD, DBP, GO, KEGG, LDH, ROS
2023 A novel risk model based on the correlation between the expression of basement membrane genes and immune infiltration to predict the invasiveness of pituitary adenomas. AUC, BM, DEGs, GEO, IPAs, NIPAs, PAs, qPCR, ROC
2023 A novel transcription factor-based signature to predict prognosis and therapeutic response of hepatocellular carcinoma. GO, HCC, HMGA1, KEGG, MAFG, OS, ROC, TACE, TFs
2023 A pathway analysis-based algorithm for calculating the participation degree of ncRNA in transcriptome. C value, DEGs, FC, PDNT
2023 A porcine model of early-onset scoliosis combined with thoracic insufficiency syndrome: Construction and transcriptome analysis. CT, DEmRNAs, EOS, TIS, TLV
2023 A systematic review of state-of-the-art strategies for machine learning-based protein function prediction. ---
2023 AFTGAN: Prediction of multi-type PPI based on attention free transformer and graph attention network. ---
2023 An herbal formulation "Shenshuaifu Granule" alleviates cisplatin-induced nephrotoxicity by suppressing inflammation and apoptosis through inhibition of the TLR4/MyD88/NF-κB pathway. AKI, BP, BUN, GO, IHC, KEGG, PAS, SCr, SSF, TLC, TUNEL, WB
10  2023 An integrative analysis of an lncRNA-mRNA competing endogenous RNA network to identify functional lncRNAs in uterine leiomyomas with RNA sequencing. DAVID, DEmRNAs, GO, KEGG, ULs
11  2023 Analysis and identification of potential key genes in hepatic ischemia-reperfusion injury. Cdh3, DEGs, DElncRNAs, GPC-3, GSEA, HIRI, KRT14, Krt7, lncRNA, mRNA, MSLN, qRT-PCR, RF, Upk3b
12  2023 Analysis of Long Noncoding RNAs-Related Regulatory Mechanisms in Duchenne Muscular Dystrophy Using a Disease-Related lncRNA-mRNA Pathway Network. DELs, DEMs, DMD, FDR
13  2023 Analyzing the multi-target pharmacological mechanism of folium Artemisia argyi acting on breast cancer: a network pharmacology approach. CASP3, DL, EGFR, FAA, GO, KEGG, MAPK1, mTOR, MYC, OB, OMIM, STRING, TCMSP, VEGFA
14  2023 Anxiolytic-like effect of Suanzaoren-Wuweizi herb-pair and evidence for the involvement of the monoaminergic system in mice based on network pharmacology. EPM, LDB, OFT, S-W, SWHP, TCMSP
15  2023 Application value of whole exome sequencing in screening and identifying novel mutations of hypopharyngeal cancer. ACMG, GO, InDels, SNVs
16  2023 Biobran/MGN-3, an Arabinoxylan Rice Bran, Protects against Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2): An In Vitro and In Silico Study. COVID-19, PLpro, SARS-CoV-2
17  2023 Bioinformatic Analysis of Genetic Factors from Human Blood Samples and Postmortem Brains in Parkinson's Disease. PD
18  2023 Bioinformatics and Connectivity Map Analysis Suggest Viral Infection as a Critical Causative Factor of Hashimoto's Thyroiditis. CMap, DEGs, GEO, GO, GSEA, HT
19  2023 Bioinformatics Identification of Therapeutic Gene Targets for Gastric Cancer. DEGs, EMT, FBN1, GC, GEO, GEPIA, GO, GSCA, KM, OS
20  2023 Biological Functions of Selenoprotein Glutathione Peroxidases (GPXs) and their Expression in Osteoarthritis. CAT, GPXs, OA, PBMCs, qRT-PCR, SOD1, SOD2
21  2023 Biological network topology features predict gene dependencies in cancer cell-lines. DependANT
22  2023 circAR-E2E4-miR-665-STAT3 axis is a potential regulatory network in triple-negative breast cancer. AR, circRNAs, ncRNA, TNBC
23  2023 Comparative genomics and interactomics of polyadenylation factors for the prediction of new parasite targets: Entamoeba histolytica as a working model. ---
24  2023 Comparative Transcriptome Profiling of Cassava Tuberous Roots in Response to Postharvest Physiological Deterioration. DEGs, PPD
25  2023 Comprehensive analysis of PTPN family expression and prognosis in acute myeloid leukemia. AML, CPTAC, PTPNs, qRT-PCR
26  2023 Comprehensive analysis of the correlation between GSTM1 and tumor immunity in colon cancer. AUC, COAD, CPTAC, GSTM1, HPA
27  2023 Comprehensive bulk and single-cell transcriptome profiling give useful insights into the characteristics of osteoarthritis associated synovial macrophages. GSVA, LASSO, OA
28  2023 Comprehensive transcriptomics and proteomics analysis of Carassius auratus gills in response to Aeromonas hydrophila. NF-kappaB, NLR
29  2023 Computed tomography-detected extramural venous invasion-related gene signature: a potential negative biomarker of immune checkpoint inhibitor treatment in patients with gastric cancer. CT, EMVI, GC, GEO, ICIs, MSI, PCA, TMB
30  2023 Construction and validation of a prognostic model based on stage-associated signature genes of head and neck squamous cell carcinoma: a bioinformatics study. AUC, DEGs, GEO, GO, HNSCC, HR, KEGG, LASSO, ROC
31  2023 Construction of HBV gene-related prognostic and diagnostic models for hepatocellular carcinoma. DEGs, HBV, HCC, RS, SVM, TIDE
32  2023 Correlation between oncogene integrator complex subunit 7 and a poor prognosis in lung adenocarcinoma. INTS7, LUAD, RNA, TNM
33  2023 CRISPR Screen Reveals BRD2/4 Molecular Glue-like Degrader via Recruitment of DCAF16. MGs
34  2023 Deciphering cervical cancer-associated biomarkers by integrated multi-omics approach. Cdc45, CDCA5, CDT1, CESC, DEGs, GEO, GSEA, KM, MCM4, NUSAP1, OS, STRING
35  2023 Deciphering the Mechanism of Wogonin, a Natural Flavonoid, on the Proliferation of Pulmonary Arterial Smooth Muscle Cells by Integrating Network Pharmacology and In Vitro Validation. GO, HIF-1alpha, KEGG, NOX4, PASMCs, PDGF-BB, PH
36  2023 Dehydroeburicoic Acid, a Dual Inhibitor against Oxidative Stress in Alcoholic Liver Disease. ALD, DEA
37  2023 Design, synthesis and biological evaluation of quercetin derivatives as novel β-catenin/B-cell lymphoma 9 protein-protein interaction inhibitors. BCL9
38  2023 Development of a classification model and an immune-related network based on ferroptosis in periodontitis. FRGs, LASSO, ROC
39  2023 Discovery of Novel 3-Phenylpiperidine Derivatives Targeting the β-Catenin/B-Cell Lymphoma 9 Interaction as a Single Agent and in Combination with the Anti-PD-1 Antibody for the Treatment of Colorectal Cancer. Ab, BCL9, CRC
40  2023 Disease-Gene Networks of Skin Pigmentation Disorders and Reconstruction of Protein-Protein Interaction Networks. ---
41  2023 Effects of RFRP‑3 on an ovariectomized estrogen‑primed rat model and HEC‑1A human endometrial carcinoma cells. DEPs, Gna, GnIH, GO, GPR147, KEGG, LC, MS/MS, OEP, RFRP-3
42  2023 Evaluation of the proteomic landscape of HPV E7‑induced alterations in human keratinocytes reveal therapeutically relevant pathways for cervical cancer. CC, HaCaT, HPV, PGK1
43  2023 Exploration of comorbidity mechanisms and potential therapeutic targets of rheumatoid arthritis and pigmented villonodular synovitis using machine learning and bioinformatics analysis. DEGs, GEO, LASSO, PVNS, RA, RF, ssGSEA, WGCNA
44  2023 Exploring the immunomodulatory effects and mechanisms of Xinjiang fermented camel milk-derived bioactive peptides based on network pharmacology and molecular docking. GO
45  2023 Exploring the mechanism by which aqueous Gynura divaricata inhibits diabetic foot based on network pharmacology, molecular docking and experimental verification. DF, GD, GO, KEGG, TCMIP
46  2023 Exploring the mechanisms underlying the therapeutic effect of the drug pair Rhubarb-Coptis in diabetic nephropathy using network pharmacology and molecular docking analysis. DAVID, DN, GO, KEGG, OMIM, STRING, TCMSP, TTD
47  2023 Exploring the Potential Mechanism of Artemisinin and Its Derivatives in the Treatment of Osteoporosis Based on Network Pharmacology and Molecular Docking. ARE, ARM, ARS, ART, DHA, OP
48  2023 FAS-mediated circRNA-miRNA-mRNA Crosstalk Network Regulates Immune Cell Infiltration in Cerebral Infarction. CI, circRNAs, mRNAs
49  2023 Feasibility and mechanism analysis of Reduning in the prevention of sepsis-induced pulmonary fibrosis. AMs, CLP, MAPK, TCM
50  2023 Gamma-Aminobutyric Acid Type A Receptor Subunit Pi is a potential chemoresistance regulator in colorectal cancer. CRC, DEGs, GEO, HPA, qPCR, STRING
51  2023 Glycine Decarboxylase Suppresses the Renal Cell Carcinoma Growth and Regulates Its Gene Expressions and Functions. CCK-8, GLDC, GO, HPLC, KEGG, MS/MS, PCR, RCC
52  2023 High throughput sequencing revealed enhanced cell cycle signaling in SLE patients. CCK-8, GO, KEGG, qRT-PCR, SLE
53  2023 Identification and Analysis of Potential Immune-Related Biomarkers in Endometriosis. DEGs, DEIRGs, DETFs, GEO, GO, ImmPort, IRG, KEGG, qRT-PCR, ROC
54  2023 Identification and clinical validation of key genes as the potential biomarkers in colorectal adenoma. CRA, CRC, DEGs, GEO
55  2023 Identification and validation of immune cells and hub genes alterations in recurrent implantation failure: A GEO data mining study. ART, ceRNA, DEGs, GEO, lmQCM, lncRNAs, miRNAs, RIF, ssGSEA, WGCNA
56  2023 Identification and validation of oxidative stress and immune-related hub genes in Alzheimer's disease through bioinformatics analysis. AD, DEGs, DEOSGs, TFs, WGCNA
57  2023 Identification of abnormally methylated differentially expressed genes in chronic periodontitis by integrated bioinformatics analysis. ---
58  2023 Identification of Comorbidities, Genomic Associations, and Molecular Mechanisms for COVID-19 Using Bioinformatics Approaches. DEGs, GEO
59  2023 Identification of Differentially Expressed Genes Particularly Associated with Immunity in Uremia Patients by Bioinformatic Analysis. DEGs, FOXD3, IRF7, ISRE, POU6F1
60  2023 Identification of Differentially Expressed Proteins in Rats with Early Subacute Spinal Cord Injury Using an iTRAQ-based Quantitative Analysis. CNS, DEPs, GO, iTRAQ, KEGG, SCI
61  2023 Identification of ferroptosis‑associated genes in chronic kidney disease. CKD, DFGs, GO, HSP, KEGG, RT-q, SLC2A1
62  2023 Identification of FGF13 as a Potential Biomarker and Target for Diagnosis of Impaired Glucose Tolerance. GO, IGT, KEGG, ND, T2DM
63  2023 Identification of hub genes correlated with the initiation and development in chronic kidney disease via bioinformatics analysis. CKD, DEGs, GO, UUO
64  2023 Identification of immune associated potential molecular targets in proliferative diabetic retinopathy. DR, HG, HRMECs, NVMs, PDR, qRT-PCR
65  2023 Identification of Immune Infiltration and the Potential Biomarkers in Diabetic Peripheral Neuropathy through Bioinformatics and Machine Learning Methods. DEGs, DPN, GEO, LASSO, SVM-RFE
66  2023 Identification of Key Biomarkers and Candidate Molecules in Non-Small-Cell Lung Cancer by Integrated Bioinformatics Analysis. DEGs, NSCLC, PD-1
67  2023 Identification of key ferroptosis genes in diabetic retinopathy based on bioinformatics analysis. DEFRGs, DR, GEO
68  2023 Identification of Lipocalin 2 as a Ferroptosis-Related Key Gene Associated with Hypoxic-Ischemic Brain Damage via STAT3/NF-κB Signaling Pathway. ANN, DEGs, HIBD, LCN2, PI, RF, SVM-RFE, TEM
69  2023 Identification of Oxidative Stress-Related Biomarkers in Diabetic Kidney Disease. DEGs, DKD, GEO, GO, KEGG, MCODE, ROC, ROS, TF, WGCNA
70  2023 Identification of potential biomarkers for papillary thyroid carcinoma by comprehensive bioinformatics analysis. DEGs, GO, KEGG, PTC
71  2023 Identification of Potential Differentially-Methylated/Expressed Genes in Chronic Obstructive Pulmonary Disease. COPD, ROC
72  2023 Identification of potential prognostic biomarkers in vulval squamous cell carcinoma based on human papillomavirus infection Status-Analysis of GSE183454. GEO, TME, VSCC
73  2023 Identification of potential target genes of honokiol in overcoming breast cancer resistance to tamoxifen. AUC, DEGs, EGFR, GO, Hon, KEGG, MCF-7, ROC, TAM
74  2023 Identification of prognosis-related gene features in low-grade glioma based on ssGSEA. DEGs, GO, KEGG, LASSO, LGG, OS, ssGSEA, TCRS
75  2023 Identification of TAC1 Associated with Alzheimer's Disease Using a Robust Rank Aggregation Approach. AD, DEGs, RRA
76  2023 Identification of the osteoarthritis signature gene PDK1 by machine learning and its regulatory mechanisms on chondrocyte autophagy and apoptosis. DEGs, LASSO, OA, SVM-RFE, WGCNA
77  2023 Identification of the potential biomarkers associated with circadian rhythms in heart failure. CGDB, DEGs, HF, ROC, RT-PCR
78  2023 Identifying the mechanisms and molecular targets of Hongjingtian injection on treatment of TGFβ1-induced HK-2 cells: coupling network pharmacology with experimental verification. CKD, HJT, KEGG, qPCR, TCMSP, TIF, WB
79  2023 Improvement of obesity by Liupao tea is through the IRS-1/PI3K/AKT/GLUT4 signaling pathway according to network pharmacology and experimental verification. EA, EGCG, FAS, GA, GLUT4, HPLC, IL-6, IR, IRS-1, LC-MS, LT, LTWE, PI3K-AKT, PPARgamma, TNF
80  2023 Infiltration of LPAR5+ macrophages in osteosarcoma tumor microenvironment predicts better outcomes. TME
81  2023 Inhibitors of Keap1-Nrf2 protein-protein interaction reduce estrogen responsive gene expression and oxidative stress in estrogen receptor-positive breast cancer. ER, Nrf2
82  2023 Integrated bioinformatics-based identification of potential diagnostic biomarkers associated with atopic dermatitis. DEGs, GEO, GO, KEGG
83  2023 Integrative analyses of radiation-related genes and biomarkers associated with breast cancer. GEO, GO, GSEA, HPA
84  2023 Integrative analysis of microRNA-320a-related genes in osteoarthritis cartilage. DAVID, DEGs, GO, KEGG, OA
85  2023 Integrative Bioinformatics Analysis of mRNA Expression Profiles of Mice to Explore the Key Genes Involved in Crim1 Mutation-Induced Congenital Cataracts. CC, DEGs
86  2023 Integrative Multiomics and Regulatory Network Analyses Uncovers the Role of OAS3, TRAFD1, miR-222-3p, and miR-125b-5p in Hepatitis E Virus Infection. CHEV, DEGs, FFL, HEV, IFN, OAS3, TF, TRAFD1, WGCN
87  2023 iTRAQ-based proteomic analysis unveils ACSL4 as a novel potential regulator of human endometrial receptivity. DEPs, RIF
88  2023 Knockdown of carboxypeptidase A4 (CPA4) inhibits gastric cancer cell progression via cell cycle arrest and apoptosis. AGS cell line, CPA4, EMT, MAPK, mTOR, PI3K, qRT-PCR
89  2023 Learning the protein language of proteome-wide protein-protein binding sites via explainable ensemble deep learning. EDLM, PPIs
90  2023 Ligand-Based Drug Design of Novel Antimicrobials against Staphylococcus aureus by Targeting Bacterial Transcription. MDRSA, MRSA
91  2023 Lnc-TMEM132D-AS1 as a potential therapeutic target for acquired resistance to osimertinib in non-small-cell lung cancer. ENTPD1, lncRNAs, NSCLC
92  2023 LRRC superfamily expression in stromal cells predicts the clinical prognosis and platinum resistance of ovarian cancer. CAFs, HGSC, LRRC, OC
93  2023 Mechanism of immune infiltration in synovial tissue of osteoarthritis: a gene expression-based study. DEGs, WGCNA
94  2023 Network analysis of anti-inflammatory phytochemicals and omics data for Rheumatoid arthritis. MAPK, MCODE, RA
95  2023 Network Pharmacology and Experimental Validation to Explore the Molecular Mechanisms of Compound Huangbai Liquid for the Treatment of Acne. CHL, GO, KEGG, TCM
96  2023 Optimization of protein removal process of Lonicera japonica polysaccharide and its immunomodulatory mechanism in cyclophosphamide-induced mice by metabolomics and network pharmacology. BBD, CTX, IL-2, LJP, RSM, TCA
97  2023 Pharmacological Mechanism of Sancao Yuyang Decoction in the Treatment of Oral Mucositis Based on Network Pharmacology and Experimental Validation. GO, KEGG, OM, SCYYD
98  2023 Phosphoproteomic analysis identifies differentially expressed phosphorylation sites that affect muscle fiber type in pigs. DEPSs
99  2023 Poly(I:C)-exposed zebrafish shows autism-like behaviors which are ameliorated by fabp2 gene knockout. ASD, DEGs, fabp2, GO, KEGG, MIA, vil1
100  2023 Potential Therapeutic Mechanism of Scutellaria baicalensis Georgi against Ankylosing Spondylitis Based on a Comprehensive Pharmacological Model. AS, DEGs, GO, KEGG, SBG