Search Results - String Database Version 12.0

Molecular Architecture of Duchenne Muscular Dystrophy: Hub Gene Identification and Functional Pathway Analysis

Authors: Amna Makawi Somia Attaelseed Khalafallah Aymen Elfadil Abbas et al.

Contributors: Amna Makawi Somia Attaelseed Khalafallah Aymen Elfadil Abbas et al.

Source: Biomedical and Pharmacology Journal. 18:1695-1710

Subject Terms: Muscle Atrophy, Omim Database, Transcription Factor, Disease Exacerbation, Protein Expression, Gene Expression, Apoptosis, Duchenne Muscular Dystrophy, Functional Enrichment Analysis, Gene, Microrna, Dystrophin, Cell Infiltration, Go Consortium Enrichment Tool, Architecture, Down Regulation, Dystrophin Protein, Muscular Dystrophy, Protein Protein Interaction, Immune Response, Gene Regulatory Network, Genetic Transcription, Genecards Database, Enrichment Pathway, Extracellular Matrix, Extracellular Matrix Organization, Geo2r Tool, Differential Gene Expression, Limma Package R, Functional Pathway Analysis, Genetic Association, Network Analysis, Human, Signal Transduction, Bioinformatics, Gene Set Enrichment Analysis, Pathophysiology, Article, Rna Sequence, Life Expectancy, Kegg, Reactome Database, Hub Genes, Gene Identification, Molecular Architecture, Transcriptomics, Enrichment Pathways, Gene Expression Profiling, String Database Version 12.0, Differential Expression Analysis, Cytoscape Version 3.10.2, Validation Process, Gene Ontology, Mutation, Hub Gene

Access URL: https://hdl.handle.net/20.500.12831/25778
https://doi.org/10.13005/bpj/3203

The STRING database in 2023:protein-protein association networks and functional enrichment analyses for any sequenced genome of interest

Authors: Szklarczyk, Damian Kirsch, Rebecca Koutrouli, Mikaela et al.

Source: Szklarczyk , D , Kirsch , R , Koutrouli , M , Nastou , K , Mehryary , F , Hachilif , R , Gable , A L , Fang , T , Doncheva , N T , Pyysalo , S , Bork , P , Jensen , L J & von Mering , C 2023 , ' The STRING database in 2023 : protein-protein association networks and functional enrichment analyses for any sequenced genome of interest ' , Nucleic Acids Research , vol. 51 , no. D1 , pp. D638-D646 .

Index Terms: article

URL: https://researchprofiles.ku.dk/da/publications/the-string-database-in-2023(a3c1e880-3bf6-4ee8-9319-b3b208a5e9e6).html
https://doi.org/10.1093/nar/gkac1000
https://curis.ku.dk/ws/files/335429115/gkac1000_2.pdf

The STRING database in 2023: protein-protein association networks and functional enrichment analyses for any sequenced genome of interest

Authors: Szklarczyk, Damian Kirsch, Rebecca Koutrouli, Mikaela; https://orcid.org/0000-0002-8953-3561 et al.

Source: Szklarczyk, Damian; Kirsch, Rebecca; Koutrouli, Mikaela; Nastou, Katerina; Mehryary, Farrokh; Hachilif, Radja; Gable, Annika L; Fang, Tao; Doncheva, Nadezhda T; Pyysalo, Sampo; Bork, Peer; Jensen, Lars J; von Mering, Christian (2023). The STRING database in 2023: protein-protein association networks and functional enrichment analyses for any sequenced genome of interest. Nucleic Acids Research, 51(D1):D638-D646.

Index Terms: Institute of Molecular Life Sciences, Evolution in Action: From Genomes to Ecosystems, 570 Life sciences; biology, Journal Article, PeerReviewed, info:eu-repo/semantics/article, info:eu-repo/semantics/publishedVersion

URL: https://www.zora.uzh.ch/id/eprint/229577/
https://www.zora.uzh.ch/id/eprint/229577
10.1093/nar/gkac1000

SPACE: STRING proteins as complementary embeddings Open Access.

Authors: Hu, Dewei Szklarczyk, Damian Mering, Christian von et al.

Source: Bioinformatics. Sep2025, Vol. 41 Issue 9, p1-10. 10p.

Subject Terms: *PROTEINS, *EMBEDDINGS (Mathematics), *MACHINE learning, *COMPARATIVE biology, *BIOLOGICAL databases

Predicting interactome networks of up/down regulated proteins and drug-gene interaction analysis associated with peri-implantitis.

Authors: Asadzadeh, Azizeh Moattar, Fatemeh Shams Moshfegh, Azam

Source: Dental Research Journal; Jan2025, Vol. 22 Issue 1, p1-7, 7p

Subject Terms: PROTEINS, DENTAL implants, COMPUTER software, PHARMACEUTICAL chemistry, PERI-implantitis, BIOINFORMATICS, GENE expression profiling, MICROARRAY technology, PROTEOMICS, PHARMACOGENOMICS, DRUG interactions, INDIVIDUALIZED medicine, BIOMARKERS, MOLECULAR pathology

Graph-based machine learning model for weight prediction in protein–protein networks.

Authors: Akid, Hajer Chennen, Kirsley Frey, Gabriel et al.

Source: BMC Bioinformatics; 11/8/2024, Vol. 25 Issue 1, p1-18, 18p

Subject Terms: MACHINE learning, STANDARD deviations, DATABASES, SACCHAROMYCES cerevisiae, PREDICTION models

Comparison Bioinformatic Analysis of Extracellular Vesicles-Related Genes and MicroRNAs in Breast Cancer.

Authors: Ayan, Durmus Bozkurt Polat, Serife Buket Ozmen, Esma et al.

Source: International Journal of Molecular Sciences; Jun2025, Vol. 26 Issue 12, p5906, 24p

Subject Terms: BRCA genes, EXTRACELLULAR vesicles, CANCER-related mortality, DATABASES, WOMEN'S mortality

STRING database in 2023: protein–protein association networks and functional enrichment analyses for any sequenced genome of interest.

Authors: Szklarczyk, Damian Kirsch, Rebecca Koutrouli, Mikaela et al.

Source: Nucleic Acids Research; 1/6/2023, Vol. 51 Issue D1, pD638-D646, 9p

Prediction of the molecular action of Trypanosoma vivax on bovine reproductive parameters and risk factors associated with trypanosomiasis in northern Minas Gerais, Brazil.

Authors: Nunes De Lima, Amanda Cristielly Figueiredo Bittar, Joely Ferreira Pires Neto, Otaviano de Souza et al.

Source: Veterinary World. Apr2025, Vol. 18 Issue 4, p837-850. 14p.

Subjects: Epidemiology, NF-kappa B, Disease risk factors, Agriculture, Beef cattle

Systematic review of the prevalence of environmental and host-related risk factors and the zoonotic potential of leptospirosis in domestic dogs in regions impacted by environmental changes.

Authors: Heydari, Parsa Tirbandpay, Mohammadreza Ghasemishayan, Ramin

Source: BMC Veterinary Research. 10/2/2025, Vol. 21 Issue 1, p1-14. 14p.

Subjects: Leptospirosis, Dogs, Climate change, Public health, Seroprevalence, Zoonoses, Environmental risk

Geographic Terms: South America

Identification of key genes associated with infertile endometriosis based on bioinformatic analysis.

Authors: Chang, Linlin Ye, Hongjuan Hou, Min et al.

Source: Frontiers in Genetics; 2025, p1-14, 14p

Subject Terms: ENDOMETRIOSIS, INFERTILITY, MITOSIS, BIOINFORMATICS, GENE expression, DRUG target, BIOMARKERS, BIOACTIVE compounds

Identification of potential anti aging drugs and targets in chronic kidney disease.

Authors: Zhang, Qian Bai, Bing Ran, Lidan et al.

Source: Scientific Reports; 5/3/2025, Vol. 15 Issue 1, p1-14, 14p

Subject Terms: TRANSCRIPTION factors, REGULATOR genes, CHRONIC kidney failure, LIFE sciences, URETERIC obstruction

Natural Small-Molecule Bergapten Ameliorates Amyloid-β Pathology and Neuroinflammation in Alzheimer's Disease.

Authors: Zhang, Jingyan Zhang, Jing

Source: Nutrients. Oct2025, Vol. 17 Issue 20, p3218. 20p.

Identification of SNCA and DRD2 as key genes linking parkinson's disease and circadian rhythm through bioinformatics analysis.

Authors: Zhang, Jie Zhang, Guoli Liu, Wei

Source: Scientific Reports; 8/26/2025, Vol. 15 Issue 1, p1-14, 14p

Subject Terms: PARKINSON'S disease, ALPHA-synuclein, MOLECULAR docking, BIOINFORMATICS, CHINESE medicine, DOPAMINE receptors, CIRCADIAN rhythms, GENE expression

Investigating the Therapeutic Mechanisms of Honeysuckle (China) in Sepsis Through Network Pharmacology and Experimental Validation.

Authors: Liu, Pingping Zeng, Linna Fu, Hongyun et al.

Source: Infection & Drug Resistance; Jul2025, Vol. 18, p3257-3277, 21p

Subject Terms: SEPSIS, INFLAMMATION, CHINESE medicine, BIOACTIVE compounds, BIOINFORMATICS, MOLECULAR docking, HONEYSUCKLES, CYTOKINES

PhyloString: A web server designed to identify, visualize, and evaluate functional relationships between orthologous protein groups across different phylogenetic lineages.

Authors: Dorantes-Torres, Claudia Carrera-Reyna, Maricela Santos, Walter et al.

Source: PLoS ONE; 1/26/2024, Vol. 19 Issue 1, p1-24, 24p

Subject Terms: INTERNET servers, WEB design, NUCLEIC acids, DATABASES, PROTEINS, PROTEIN models

Effects of melatonin on specific gene expression in the ovaries of superovulated rats.

Authors: DALKIRAN, Sevda YAKAN, Akın ÖZKAN, Hüseyin

Source: Veterinary Journal of Ankara University / Ankara Universitesi Veteriner Fakultesi Dergisi. 2025, Vol. 72 Issue 4, p497-507. 11p.

Subjects: Melatonin, Gene expression, Progesterone receptors, Growth factors, Ovaries, Reproductive health, Induced ovulation, Cyclooxygenase 2

Exploring Gene Expression Changes in Murine Female Genital Tract Tissues Following Single and Co-Infection with Nippostrongylus brasiliensis and Herpes Simplex Virus Type 2.

Authors: Pillay, Roxanne Naidoo, Pragalathan Mkhize-Kwitshana, Zilungile L.

Source: Pathogens; Aug2025, Vol. 14 Issue 8, p795, 23p

Subject Terms: GENE expression, IMMUNE response, MIXED infections, GENETIC regulation, HELMINTHIASIS, HUMAN herpesvirus 2, GENITALIA, NUCLEOTIDE sequencing

YinChen WuLing powder attenuates non-alcoholic steatohepatitis through the inhibition of the SHP2/PI3K/NLRP3 pathway.

Authors: Xingxing Yuan Liuxin Yang Tinting Gao et al.

Source: Frontiers in Pharmacology; 2024, p1-15, 15p

Subject Terms: TREATMENT effectiveness, NON-alcoholic fatty liver disease, CHINESE medicine, DATABASES, WESTERN immunoblotting

Identification and functional analysis of novel biomarkers related to retinal neovascularization in proliferative diabetic retinopathy.

Authors: Zhang, Shengnan Song, Wenqi Huang, Bingyao et al.

Source: Technology & Health Care; May2025, Vol. 33 Issue 3, p1274-1287, 14p

Subject Terms: DIABETIC retinopathy, CELL adhesion molecules, GENE expression, RECEIVER operating characteristic curves, PEOPLE with diabetes