diff --git a/figures/PMC11246037__JIR-17-4483-g0003.jpg b/figures/PMC11246037__JIR-17-4483-g0003.jpg new file mode 100644 index 000000000..c3421b16e Binary files /dev/null and b/figures/PMC11246037__JIR-17-4483-g0003.jpg differ diff --git a/figures/PMC11246037__JIR-17-4483-g0003.yml b/figures/PMC11246037__JIR-17-4483-g0003.yml new file mode 100644 index 000000000..b64f916ef --- /dev/null +++ b/figures/PMC11246037__JIR-17-4483-g0003.yml @@ -0,0 +1,32 @@ +--- +pmcid: PMC11246037 +image_filename: JIR-17-4483-g0003.jpg +figure_link: /pmc/articles/PMC11246037/figure/f0002/ +number: Figure 2 +figure_title: '' +caption: Differential expression genes in SICM by bioinformatics analysis. (A) Venn + diagram of DEGs in 5 mice transcriptome datasets. The 12 co-DEGs in 5 datasets were + marked in red. 36 co-DEGs were common differences expressed in 4 datasets. (B) The + Volcano plot of 12 co-DEGs with red indicating high expression and blue indicating + low expression. (C) The heatmap of 36 co-DEGs expression in 5 datasets. (D) GO enrichment + analysis of 48 co-DEGs with enrichment score. (E) KEGG enrichment analysis of the + 48 co-DEGs with enrichment score. (F) PPI network of co-DEGs constructed in STRING + databases with Cytoscape. 14 genes including S100A8 and S100A9 showed significant + protein interactions. The size of the circle represents the significance. +article_title: S100A9 as a Key Myocardial Injury Factor Interacting with ATP5 Exacerbates + Mitochondrial Dysfunction and Oxidative Stress in Sepsis-Induced Cardiomyopathy. +citation: Hui Pei, et al. J Inflamm Res. 2024;17:4483-4503. + +doi: 10.2147/JIR.S457340 +journal_title: Journal of Inflammation Research +journal_nlm_ta: J Inflamm Res +publisher_name: Dove + +keywords: +- S100A9 +- SICM +- bioinformatics analysis +- mitochondrial dysfunction +- ATP5 + +--- diff --git a/figures/PMC11272554__fphar-15-1370619-g001.jpg b/figures/PMC11272554__fphar-15-1370619-g001.jpg new file mode 100644 index 000000000..f22f00091 Binary files /dev/null and b/figures/PMC11272554__fphar-15-1370619-g001.jpg differ diff --git a/figures/PMC11272554__fphar-15-1370619-g001.yml b/figures/PMC11272554__fphar-15-1370619-g001.yml new file mode 100644 index 000000000..5d24694e1 --- /dev/null +++ b/figures/PMC11272554__fphar-15-1370619-g001.yml @@ -0,0 +1,31 @@ +--- +pmcid: PMC11272554 +image_filename: fphar-15-1370619-g001.jpg +figure_link: /pmc/articles/PMC11272554/figure/F1/ +number: FIGURE 1 +figure_title: '' +caption: Network pharmacology analysis of the neuroprotective effects of phenolic + components in H. citrina leaves ((A) Venn diagram of phenolic components in H. citrina + leaves and neuroprotective targets; (B) PPI network; (C) Network of “H. citrina + leaves Phenolic Components - Common Targets – Neuroprotection”; (D) GO biological + function enrichment; (E) KEGG pathway enrichment; (F) Network of “H. citrina leaves + Phenolic Components - Common Targets - Pathways.” The component targets and disease + targets information were searched through databases, and result graph were drew + by Cytoscape software and Microbioinformatics Platform (https://www.bioinformatics.com.cn/)). +article_title: Neuroprotective effects of total phenolics from Hemerocallis citrina + Baroni leaves through the PI3K/AKT pathway. +citation: Yanjun Jia, et al. Front Pharmacol. 2024;15:1370619. + +doi: 10.3389/fphar.2024.1370619 +journal_title: Frontiers in Pharmacology +journal_nlm_ta: Front Pharmacol +publisher_name: Frontiers Media S.A. + +keywords: +- Hemerocallis citrina Baroni leaves +- total phenolics +- network pharmacology +- PI3K/AKT +- neuroprotection + +--- diff --git a/figures/PMC11272612__fonc-14-1388016-g006.jpg b/figures/PMC11272612__fonc-14-1388016-g006.jpg new file mode 100644 index 000000000..047a75493 Binary files /dev/null and b/figures/PMC11272612__fonc-14-1388016-g006.jpg differ diff --git a/figures/PMC11272612__fonc-14-1388016-g006.yml b/figures/PMC11272612__fonc-14-1388016-g006.yml new file mode 100644 index 000000000..2466b5e99 --- /dev/null +++ b/figures/PMC11272612__fonc-14-1388016-g006.yml @@ -0,0 +1,33 @@ +--- +pmcid: PMC11272612 +image_filename: fonc-14-1388016-g006.jpg +figure_link: /pmc/articles/PMC11272612/figure/f6/ +number: Figure 6 +figure_title: '' +caption: Interaction network, expression analysis, survival analysis, and stage-wise + expression of ITGA3 and PKM in HCC. (A) Protein-protein interaction (PPI) network + of differentially expressed genes (DEGs) identified in high-risk and low-risk groups. + The network was constructed using the STRING database and visualized with Cytoscape + software. (B) Comparison of ITGA3 expression levels between normal and tumor samples. + (C) Comparison of PKM expression levels between normal and tumor samples. (D) Survival + curves for patients with high and low PKM expression. (E) Survival curves for patients + with high and low ITGA3 expression. (F) Comparison of PKM expression levels across + different tumor stages. (G) Comparison of ITGA3 expression levels across different + tumor stages. The symbols *** represent P-values of < 0.001. +article_title: A novel basement membrane-related gene signature predicts prognosis + and immunotherapy response in hepatocellular carcinoma. +citation: Bingyao Li, et al. Front Oncol. 2024;14:1388016. + +doi: 10.3389/fonc.2024.1388016 +journal_title: Frontiers in Oncology +journal_nlm_ta: Front Oncol +publisher_name: Frontiers Media S.A. + +keywords: +- basement membrane +- hepatocellular carcinoma +- tumor microenvironment +- prognosis +- immunotherapy + +--- diff --git a/figures/PMC11278150__DDDT-18-3121-g0003.jpg b/figures/PMC11278150__DDDT-18-3121-g0003.jpg new file mode 100644 index 000000000..3709bf3be Binary files /dev/null and b/figures/PMC11278150__DDDT-18-3121-g0003.jpg differ diff --git a/figures/PMC11278150__DDDT-18-3121-g0003.yml b/figures/PMC11278150__DDDT-18-3121-g0003.yml new file mode 100644 index 000000000..170702a8a --- /dev/null +++ b/figures/PMC11278150__DDDT-18-3121-g0003.yml @@ -0,0 +1,32 @@ +--- +pmcid: PMC11278150 +image_filename: DDDT-18-3121-g0003.jpg +figure_link: /pmc/articles/PMC11278150/figure/f0002/ +number: Figure 2 +figure_title: '' +caption: PPI network of celastrol-HCC-ferroptosis genes. (A) Venn diagram illustrating + the common targets of celastrol (Cel), hepatocellular carcinoma (HCC), and ferroptosis + (FerrDb). FerrDb is the world’s first database that is dedicated to ferroptosis + regulators and ferroptosis-disease associations. Here, “FerrDb” represents all genes + associated with ferroptosis. (B) PPI network generated in Cytoscape 3.9.1 by importing + the STRING data for 31 shared targets. (C) Core gene cluster filtered by MCODE plugin + in Cytoscape 3.9.1. Blue and red rectangular nodes together represent 31 common + targets. The red nodes are the selected core gene cluster. Nodes are marked as corresponding + ranks and larger circles indicate more important roles in the network. +article_title: Integrating Network Pharmacology with in vitro Experiments to Validate + the Efficacy of Celastrol Against Hepatocellular Carcinoma Through Ferroptosis. +citation: Banglan Cai, et al. Drug Des Devel Ther. 2024;18:3121-3141. + +doi: 10.2147/DDDT.S450324 +journal_title: Drug Design, Development and Therapy +journal_nlm_ta: Drug Des Devel Ther +publisher_name: Dove + +keywords: +- network pharmacology +- celastrol +- hepatocellular carcinoma +- ferroptosis +- reactive oxygen species + +--- diff --git a/figures/fetch.log b/figures/fetch.log index 0b6a32951..c8fbae22a 100644 --- a/figures/fetch.log +++ b/figures/fetch.log @@ -1,2 +1,2 @@ -https://www.ncbi.nlm.nih.gov/pmc/?term=(network-OR-PPI+cytoscape)+AND+(2024/06/01[PUBDATE]+%3A+3000/01/01[PUBDATE])&report=imagesdocsum&dispmax=100 - 10 results \ No newline at end of file +https://www.ncbi.nlm.nih.gov/pmc/?term=(network-OR-PPI+cytoscape)+AND+(2024/07/01[PUBDATE]+%3A+3000/01/01[PUBDATE])&report=imagesdocsum&dispmax=100 + 4 results \ No newline at end of file diff --git a/query_config.yml b/query_config.yml index 0e57e2e8e..7b538ffe3 100644 --- a/query_config.yml +++ b/query_config.yml @@ -1,5 +1,5 @@ terms: - network OR PPI - cytoscape -last_run: 2024/07/01 +last_run: 2024/08/01 date_range: ~