Update citedin in frontmatter .md files

actions-user · actions-user · commit d8dc54213e72 · 2026-04-05T13:24:08.000Z
diff --git a/_pathways/WP127.md b/_pathways/WP127.md
@@ -43,6 +43,9 @@ citedin:
   title: Serum extracellular vesicle microRNAs as potential biomarkers to predict
     pembrolizumab response and prognosis in metastatic non-small cell lung cancer
     patients (2025)
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities:
 - ONTOX
 description: 'Interleukin 5 (IL-5) ligand belongs to the cytokine superfamily. IL-5
diff --git a/_pathways/WP1434.md b/_pathways/WP1434.md
@@ -30,6 +30,9 @@ citedin:
 - link: PMC12448840
   title: 'GNNenrich: a novel method for pathway enrichment analysis based on graph
     neural network (2025)'
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities: []
 description: Study of regulation of promatrix metalloproteinase-9 (MMP-9) by osteopontin
   (OPN) through IKK signaling pathway.   Proteins on this pathway have targeted assays
diff --git a/_pathways/WP1530.md b/_pathways/WP1530.md
@@ -40,6 +40,9 @@ citedin:
 - link: PMC7913660
   title: A Meta-Analysis of the Effects of High-LET Ionizing Radiations in Human Gene
     Expression (2021)
+- link: PMC12799884
+  title: Advances in genomic and pharmacokinetic profiling for clinical stratification
+    of metastatic breast cancer (2025)
 communities:
 - ExRNA
 description: 'This is the first of two pathways which deals with the DNA damage response.
diff --git a/_pathways/WP1531.md b/_pathways/WP1531.md
@@ -46,6 +46,9 @@ citedin:
 - link: PMC12532006
   title: 'Dysregulated vitamin D signaling in Hashimoto''s thyroiditis: an integrated
     transcriptomic study in a Korean cohort (2025)'
+- link: PMC10775474
+  title: Identifying patterns to uncover the importance of biological pathways on
+    known drug repurposing scenarios (2024)
 communities:
 - Micronutrients
 - ONTOX
diff --git a/_pathways/WP1533.md b/_pathways/WP1533.md
@@ -63,6 +63,12 @@ citedin:
 - link: PMC10545883
   title: 'Fluid flow shear stress and tissue remodeling-an orthodontic perspective:
     evidence synthesis and differential gene expression network analysis (2023)'
+- link: PMC10775474
+  title: Identifying patterns to uncover the importance of biological pathways on
+    known drug repurposing scenarios (2024)
+- link: PMC12799884
+  title: Advances in genomic and pharmacokinetic profiling for clinical stratification
+    of metastatic breast cancer (2025)
 communities:
 - ONTOX
 description: Vitamin B12 is a water soluble, organic compound and essential nutrient
diff --git a/_pathways/WP1584.md b/_pathways/WP1584.md
@@ -53,6 +53,9 @@ citedin:
 - link: PMC9473477
   title: 'Network-Based Data Analysis Reveals Ion Channel-Related Gene Features in
     COVID-19: A Bioinformatic Approach (2022)'
+- link: PMC11502557
+  title: MicroRNAs from edible plants reach the human gastrointestinal tract and may
+    act as potential regulators of gene expression (2024)
 communities:
 - Diseases
 description: 'Insulin resistance is strongly associated with type II diabetes. "Diabetogenic"
diff --git a/_pathways/WP195.md b/_pathways/WP195.md
@@ -37,6 +37,9 @@ citedin:
 - link: PMC12220957
   title: IL-1β signaling modulates T follicular helper and regulatory cells in human
     lymphoid tissues (2025)
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities:
 - ONTOX
 - PancCanNet
diff --git a/_pathways/WP1984.md b/_pathways/WP1984.md
@@ -54,6 +54,9 @@ citedin:
 - link: PMC10853805
   title: 'HetFCM: functional co-module discovery by heterogeneous network co-clustering
     (2024)'
+- link: PMC12799884
+  title: Advances in genomic and pharmacokinetic profiling for clinical stratification
+    of metastatic breast cancer (2025)
 communities: []
 description: This pathway incorporates the most important proteins for breast cancer.
   The Rp score from the Connectivity-Maps (C-Maps) webserver was used to determine
diff --git a/_pathways/WP2018.md b/_pathways/WP2018.md
@@ -32,6 +32,9 @@ citedin:
 - link: PMC11265978
   title: 'Large-scale proteomics in the first trimester of pregnancy predict psychopathology
     and temperament in preschool children: an exploratory study (2024)'
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities: []
 description: 'RANKL (Receptor activator of nuclear factor-kappa B ligand), RANK (Receptor
   activator of nuclear factor-kappa B) and the natural decoy receptor of RANKL, OPG
diff --git a/_pathways/WP205.md b/_pathways/WP205.md
@@ -35,6 +35,9 @@ citedin:
   title: Serum extracellular vesicle microRNAs as potential biomarkers to predict
     pembrolizumab response and prognosis in metastatic non-small cell lung cancer
     patients (2025)
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities: []
 description: 'Interleukin-7 (IL-7) was discovered in the year 1988 as a factor that
   enhanced the growth of murine B-cell precursors in bone marrow culture system. It
diff --git a/_pathways/WP2371.md b/_pathways/WP2371.md
@@ -52,6 +52,9 @@ citedin:
 - link: PMC12448840
   title: 'GNNenrich: a novel method for pathway enrichment analysis based on graph
     neural network (2025)'
+- link: PMC10775474
+  title: Identifying patterns to uncover the importance of biological pathways on
+    known drug repurposing scenarios (2024)
 communities:
 - Diseases
 - ExRNA
diff --git a/_pathways/WP2583.md b/_pathways/WP2583.md
@@ -32,6 +32,12 @@ citedin:
     survival (2021)
 - link: PMC12301734
   title: Investigating Transcriptional Age Acceleration in Inflammatory Skin Diseases
+- link: PMC10762913
+  title: The gene expression profile and cell of origin of canine peripheral T-cell
+    lymphoma (2024)
+- link: PMC12101853
+  title: Bioinformatics and system biology approach to discover the common pathogenetic
+    processes between COVID-19 and chronic hepatitis B (2025)
 communities:
 - ExRNA
 description: The activation and translocation of transcription factors NFAT, AP-1
diff --git a/_pathways/WP286.md b/_pathways/WP286.md
@@ -47,6 +47,9 @@ citedin:
 - link: PMC9524193
   title: Bioinformatics and systems biology approach to identify the pathogenetic
     link of Long COVID and Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (2022)
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities: []
 description: 'Interleukin 3 (IL-3) is a potent growth factor belonging to the super
   family of cytokines. IL-3 is a 20- 32kDa glycoprotein involved in the process of
diff --git a/_pathways/WP3303.md b/_pathways/WP3303.md
@@ -42,6 +42,9 @@ citedin:
 - link: PMC11265978
   title: 'Large-scale proteomics in the first trimester of pregnancy predict psychopathology
     and temperament in preschool children: an exploratory study (2024)'
+- link: PMC10775474
+  title: Identifying patterns to uncover the importance of biological pathways on
+    known drug repurposing scenarios (2024)
 communities:
 - CPTAC
 - ExRNA
diff --git a/_pathways/WP3599.md b/_pathways/WP3599.md
@@ -19,6 +19,9 @@ citedin:
 - link: PMC9646470
   title: Clinical improvement of DM1 patients reflected by reversal of disease-induced
     gene expression in blood (2022)
+- link: PMC11502557
+  title: MicroRNAs from edible plants reach the human gastrointestinal tract and may
+    act as potential regulators of gene expression (2024)
 communities:
 - ONTOX
 description: The transcription factors involved in adipogenesis are shown in the current
diff --git a/_pathways/WP363.md b/_pathways/WP363.md
@@ -34,6 +34,9 @@ citedin:
 - link: PMC8743585
   title: Clinical and Molecular Characteristics of PRKACA L206R Mutant Cortisol-Producing
     Adenomas in Korean Patients (2021)
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities:
 - ONTOX
 description: 'WNT signal, through the canonical pathway, controls cell fate determination
diff --git a/_pathways/WP3634.md b/_pathways/WP3634.md
@@ -23,6 +23,9 @@ citedin:
 - link: PMC7925531
   title: Identification of candidate genes and pathways in retinopathy of prematurity
     by whole exome sequencing of preterm infants enriched in phenotypic extremes (2021)
+- link: PMC11502557
+  title: MicroRNAs from edible plants reach the human gastrointestinal tract and may
+    act as potential regulators of gene expression (2024)
 communities: []
 description: The paper (1) describes insulin signalling in human adipocytes under
   normal and diabetic states using mathematical models based on experimental data.
diff --git a/_pathways/WP3635.md b/_pathways/WP3635.md
@@ -25,6 +25,9 @@ citedin:
 - link: PMC7925531
   title: Identification of candidate genes and pathways in retinopathy of prematurity
     by whole exome sequencing of preterm infants enriched in phenotypic extremes (2021)
+- link: PMC11502557
+  title: MicroRNAs from edible plants reach the human gastrointestinal tract and may
+    act as potential regulators of gene expression (2024)
 communities:
 - ONTOX
 description: The paper describes insulin signaling in human adipocytes under normal
diff --git a/_pathways/WP382.md b/_pathways/WP382.md
@@ -72,6 +72,9 @@ citedin:
 - link: PMC10545883
   title: 'Fluid flow shear stress and tissue remodeling-an orthodontic perspective:
     evidence synthesis and differential gene expression network analysis (2023)'
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities:
 - CPTAC
 - ONTOX
diff --git a/_pathways/WP3851.md b/_pathways/WP3851.md
@@ -24,6 +24,9 @@ citedin:
 - link: PMC12854766
   title: Hierarchical Mechanistic Modeling of Complex Toxicity Endpoints from Public
     Concentration-Response Data (2026)
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities: []
 description: 'Toll-like receptors (TLRs) are used by mammals to recognize pathogen-associated
   molecules such as cell wall components. TLR4 activation inhibits a cell''s ability
diff --git a/_pathways/WP3858.md b/_pathways/WP3858.md
@@ -38,6 +38,9 @@ citedin:
 - link: PMC9519890
   title: 'Tissue-specific pathway activities: A retrospective analysis in COVID-19
     patients (2022)'
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities: []
 description: 'TLR and NFkB are important in inflammation in the body and in the cancerous
   cells. TLR signaling pathways are usually connected with MyD88 dependent pathways
diff --git a/_pathways/WP3863.md b/_pathways/WP3863.md
@@ -43,6 +43,9 @@ citedin:
   title: 'Genetic insights into the connection between pulmonary TB and non-communicable
     diseases: An integrated analysis of shared genes and potential treatment targets
     (2024)'
+- link: PMC12101853
+  title: Bioinformatics and system biology approach to discover the common pathogenetic
+    processes between COVID-19 and chronic hepatitis B (2025)
 communities:
 - Diseases
 description: 'This pathway is based on Figure 4 of "A Model of an Integrated Immune
diff --git a/_pathways/WP3888.md b/_pathways/WP3888.md
@@ -83,6 +83,9 @@ citedin:
 - link: PMC11265978
   title: 'Large-scale proteomics in the first trimester of pregnancy predict psychopathology
     and temperament in preschool children: an exploratory study (2024)'
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities:
 - ONTOX
 description: 'Angiogenesis, the formation of new blood vessels from pre-existing vasculature,
diff --git a/_pathways/WP3893.md b/_pathways/WP3893.md
@@ -46,6 +46,9 @@ citedin:
   title: 'Genetic insights into the connection between pulmonary TB and non-communicable
     diseases: An integrated analysis of shared genes and potential treatment targets
     (2024)'
+- link: PMC12101853
+  title: Bioinformatics and system biology approach to discover the common pathogenetic
+    processes between COVID-19 and chronic hepatitis B (2025)
 communities: []
 description: Development and heterogeneity of the innate lymphoid cell (ILC) family.
   ILCs develop from distinct progenitors in the fetal liver or bone marrow and then
diff --git a/_pathways/WP3935.md b/_pathways/WP3935.md
@@ -29,6 +29,9 @@ citedin:
   title: Unraveling the genetic links between obesity or insulin resistance and breast
     cancer through the impact of CD295 and ITLN1 SNPs with DNA damage in a case-controlled
     study with bioinformatics analysis (2025)
+- link: PMC11502557
+  title: MicroRNAs from edible plants reach the human gastrointestinal tract and may
+    act as potential regulators of gene expression (2024)
 communities: []
 description: Overlap of cellular insulin and leptin signaling.  Proteins on this pathway
   have targeted assays available via the [CPTAC Assay Portal](https://assays.cancer.gov/available_assays?wp_id=WP3935).
diff --git a/_pathways/WP3941.md b/_pathways/WP3941.md
@@ -28,6 +28,9 @@ citedin:
 - link: PMC12470172
   title: Altered Neuroinflammatory Transcriptomic Profile in the Hippocampal Dentate
     Gyrus Three Weeks After Lateral Fluid Percussion Injury in Rats (2025)
+- link: PMC12101853
+  title: Bioinformatics and system biology approach to discover the common pathogenetic
+    processes between COVID-19 and chronic hepatitis B (2025)
 communities:
 - ONTOX
 description: This pathway shows how tissue is damaged when oxygen levels are not balanced
diff --git a/_pathways/WP395.md b/_pathways/WP395.md
@@ -48,6 +48,9 @@ citedin:
 - link: PMC3995708
   title: Separate and combined effects of DNMT and HDAC inhibitors in treating human
     multi-drug resistant osteosarcoma HosDXR150 cell line (2014)
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities:
 - ONTOX
 description: 'IL-4 is a glycoprotein which is composed of 129 amino acids and has
diff --git a/_pathways/WP4172.md b/_pathways/WP4172.md
@@ -106,6 +106,12 @@ citedin:
   title: 'Whole-Exome Screening and Analysis of Signaling Pathways in Multiple Endocrine
     Neoplasia Type 1 Patients with Different Outcomes: Insights into Cellular Mechanisms
     and Possible Functional Implications (2024)'
+- link: PMC10762913
+  title: The gene expression profile and cell of origin of canine peripheral T-cell
+    lymphoma (2024)
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities:
 - CPTAC
 - ONTOX
diff --git a/_pathways/WP422.md b/_pathways/WP422.md
@@ -29,6 +29,9 @@ citedin:
     Presymptomatic Ki91 SCA3/MJD Mouse (2019)
 - link: 10.1016/j.tiv.2016.03.009
   title: MicroRNAs as potential biomarkers for doxorubicin-induced cardiotoxicity
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities:
 - ONTOX
 description: The MAPK cascades are central signaling pathways that regulate a wide
diff --git a/_pathways/WP4462.md b/_pathways/WP4462.md
@@ -67,6 +67,9 @@ citedin:
 - link: PMC7665362
   title: Network-based identification genetic effect of SARS-CoV-2 infections to Idiopathic
     pulmonary fibrosis (IPF) patients (2020)
+- link: PMC12799884
+  title: Advances in genomic and pharmacokinetic profiling for clinical stratification
+    of metastatic breast cancer (2025)
 communities:
 - ExRNA
 description: 'This pathway describes platelet-mediated interactions with vascular
diff --git a/_pathways/WP4482.md b/_pathways/WP4482.md
@@ -24,6 +24,9 @@ citedin:
 - link: PMC12532006
   title: 'Dysregulated vitamin D signaling in Hashimoto''s thyroiditis: an integrated
     transcriptomic study in a Korean cohort (2025)'
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities:
 - ONTOX
 description: 'Vitamin D in inflammatory diseases.  Inhibition of the p38 MAP kinase
diff --git a/_pathways/WP4560.md b/_pathways/WP4560.md
@@ -24,7 +24,10 @@ authors:
 - Fehrhart
 - Egonw
 - Eweitz
-citedin: ''
+citedin:
+- link: PMC11502557
+  title: MicroRNAs from edible plants reach the human gastrointestinal tract and may
+    act as potential regulators of gene expression (2024)
 communities:
 - CPTAC
 - ExRNA
diff --git a/_pathways/WP4756.md b/_pathways/WP4756.md
@@ -25,7 +25,10 @@ authors:
 - Marvin M2
 - Egonw
 - Eweitz
-citedin: ''
+citedin:
+- link: PMC10775474
+  title: Identifying patterns to uncover the importance of biological pathways on
+    known drug repurposing scenarios (2024)
 communities:
 - ONTOX
 description: The pathway leading angiotensinogen to aldosterone
diff --git a/_pathways/WP4884.md b/_pathways/WP4884.md
@@ -39,6 +39,9 @@ citedin:
 - link: PMC12106470
   title: 'Glypican-3 regulated epithelial mesenchymal transformation-related genes
     in osteosarcoma: based on comprehensive tumor microenvironment profiling (2025)'
+- link: PMC12101853
+  title: Bioinformatics and system biology approach to discover the common pathogenetic
+    processes between COVID-19 and chronic hepatitis B (2025)
 communities:
 - COVID19
 description: Virus-host interactome and proteomic survey of PMBCs from COVID-19 patients
diff --git a/_pathways/WP49.md b/_pathways/WP49.md
@@ -37,6 +37,9 @@ citedin:
   title: Serum extracellular vesicle microRNAs as potential biomarkers to predict
     pembrolizumab response and prognosis in metastatic non-small cell lung cancer
     patients (2025)
+- link: PMC12593800
+  title: Jaw-specific differential kinase activity profiles in human periodontal ligament
+    stem cells under mechanical compression (2025)
 communities:
 - ONTOX
 description: IL-2 is a multifunctional cytokine with pleiotropic effects on several
diff --git a/_pathways/WP5066.md b/_pathways/WP5066.md
@@ -10,7 +10,10 @@ authors:
 - Fehrhart
 - Khanspers
 - Eweitz
-citedin: ''
+citedin:
+- link: PMC11502557
+  title: MicroRNAs from edible plants reach the human gastrointestinal tract and may
+    act as potential regulators of gene expression (2024)
 communities:
 - ONTOX
 description: Role of Foxa2 in homeostatis of metabolic processes.
diff --git a/_pathways/WP5072.md b/_pathways/WP5072.md
@@ -19,6 +19,9 @@ authors:
 citedin:
 - link: PMC12301734
   title: Investigating Transcriptional Age Acceleration in Inflammatory Skin Diseases
+- link: PMC12101853
+  title: Bioinformatics and system biology approach to discover the common pathogenetic
+    processes between COVID-19 and chronic hepatitis B (2025)
 communities: []
 description: Modulators of TCR signaling and T cell activation from a genome-wide
   screen, with positive regulators on the left and negative regulators on the right
diff --git a/_pathways/WP5087.md b/_pathways/WP5087.md
@@ -63,6 +63,9 @@ citedin:
 - link: PMC10401140
   title: Reliable Identification and Interpretation of Single-Cell Molecular Heterogeneity
     and Transcriptional Regulation using Dynamic Ensemble Pruning (2023)
+- link: PMC12799884
+  title: Advances in genomic and pharmacokinetic profiling for clinical stratification
+    of metastatic breast cancer (2025)
 communities:
 - CPTAC
 - RareDiseases
diff --git a/_pathways/WP5101.md b/_pathways/WP5101.md
diff --git a/_pathways/WP545.md b/_pathways/WP545.md
diff --git a/_pathways/WP554.md b/_pathways/WP554.md
diff --git a/_pathways/WP581.md b/_pathways/WP581.md
diff --git a/_pathways/WP673.md b/_pathways/WP673.md
diff --git a/_pathways/WP69.md b/_pathways/WP69.md
diff --git a/_pathways/WP707.md b/_pathways/WP707.md
diff --git a/_pathways/WP75.md b/_pathways/WP75.md
