new content from pmc

figures/PMC11246037__JIR-17-4483-g0003.yml

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+---
+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
+
+---

figures/PMC11272554__fphar-15-1370619-g001.yml

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+---
+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
+
+---

figures/PMC11272612__fonc-14-1388016-g006.yml

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+---
+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
+
+---

figures/PMC11278150__DDDT-18-3121-g0003.yml

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+---
+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
+
+---

figures/fetch.log

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- 10 results
+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

query_config.yml

@@ -1,5 +1,5 @@
 terms:
 - network OR PPI
 - cytoscape
-last_run: 2024/07/01
+last_run: 2024/08/01
 date_range: ~