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601
High quality genome assembly of the brown hare (Lepus europaeus) with chromosome-level scaffolding
Published 2024-03-01“…This brown hare genome represents the first Finnish contribution to the European Reference Genome Atlas pilot effort to generate reference genomes for European biodiversity. …”
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602
Revisiting ABC Transporters and Their Clinical Significance in Glioblastoma
Published 2025-01-01“…Using the datasets in The Cancer Genome Atlas and Gene Expression Omnibus, we found upregulated ABC transporters that either negatively impacted survival in univariate analyses (ABCA1, ABCA13, ABCB9, ABCD4) or were independent negative prognosis factors for patients with GBM (ABCA13, ABCB9). …”
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603
Downregulated mRNA Expression of ZNF385B Is an Independent Predictor of Breast Cancer
Published 2021-01-01“…Furthermore, data of patients with BC were downloaded from The Cancer Genome Atlas (TCGA). The receiver operating characteristic (ROC) curve of ZNF385B expression was established to explore the diagnostic value of ZNF385B and to obtain the cut-off value of high or low ZNF385B expression in BC. …”
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604
SUMO modified ETV1 promotes M2-polarized tumor-associated macrophage infiltration and cancer progression by facilitating CCL2 transcription in esophageal squamous cell carcinoma ce...
Published 2025-02-01“…Methods Gene expression and immune infiltration in ESCC samples from the Cancer Genome Atlas (TCGA) were analyzed. The expression of ETV1 in clinical samples was detected by real-time PCR, western blot and immunohistochemistry staining. …”
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605
Therapeutic target genes and regulatory networks of gallic acid in cervical cancer
Published 2025-01-01“…By combining the results of the Gene Expression Omnibus (GEO) and the Cancer Genome Atlas (TCGA) analysis and RNA-seq, the differentially expressed genes (DEGs), including those upregulated and downregulated genes in CC compared with the normal cervix in the GEO and TCGA database, while expressed reversed after treatment with GA, were identified. …”
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606
Geographical distribution of eight neuromuscular disorders in the Netherlands based on a nationwide registry
Published 2025-01-01“…We provided the first neuromuscular atlas of the Netherlands with maps for eight disorders commonly seen in the neuromuscular practice. …”
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607
TOM40 as a prognostic oncogene for oral squamous cell carcinoma prognosis
Published 2025-01-01“…Methods TOM40 expression level in OSCC was evaluated using datasets downloaded from The Cancer Genome Atlas (TCGA), as well as clinical data. The correlation between TOM40 expression level and the clinicopathological parameters and survival were analyzed in TCGA. …”
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608
Identification of SETD4 as an Onco‐Immunological Biomarker Encompassing the Tumor Microenvironment, Prognoses, and Therapeutic Responses in Various Human Cancers
Published 2025-01-01“…Methods Utilizing The Cancer Genome Atlas database, and other publicly accessible platforms, we comprehensively analyzed SETD4 gene expression, methylation patterns, and prognostic significance. …”
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609
Integrated analysis of cell cycle and p53 signaling pathways related genes in breast, colorectal, lung, and pancreatic cancers: implications for prognosis and drug sensitivity for...
Published 2024-12-01“…Validation of hub genes at mRNA and protein levels was done via GEPIA2 and Human Protein Atlas. Survival analysis was conducted using TCGA data by GEPIA2 and LASSO, and drug sensitivity was analyzed with the GSCA drug bank database, highlighting potential therapeutic targets. …”
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610
Meteorological drought assessment using SPI and RDI indices in the Ourika Basin, Morocco
Published 2025-01-01“…The Ourika basin is located on the northern edge of the Marrakech High Atlas, within a semi-arid to sub-humid climate. Its fragile natural environment is exposed to extreme and harsh climatic conditions, such as droughts and floods. …”
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611
SHP2 promotes the epithelial-mesenchymal transition in triple negative breast cancer cells by regulating β-catenin
Published 2025-01-01“…Methods In this study, we conducted bioinformatics analysis of the Gene Expression Omnibus (GEO) and The Cancer Genome Atlas (TCGA) databases to examine PTPN11 (encoding SHP2) expression levels and perform survival analysis in TNBC. …”
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612
DOCK4 Is a Platinum-Chemosensitive and Prognostic-Related Biomarker in Ovarian Cancer
Published 2021-01-01“…The gene expression profiles were obtained from Gene Expression Omnibus (GEO) and The Cancer Genome Atlas (TCGA) database. A total of 4 genes (AP2A2, DOCK4, HSDL2, and PDK4) were the candidate differentially expressed genes (DEGs) of PPAR-TRGs with platinum chemosensitivity. …”
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613
Evaluation of a biomarker for amyotrophic lateral sclerosis derived from a hypomethylated DNA signature of human motor neurons
Published 2025-01-01“…By comparing MN methylation with an atlas of tissue methylation we have derived a MN-specific signature of hypomethylated genomic regions, which accords with genes important for MN function. …”
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614
Evaluating H2BC9 as a potential diagnostic and prognostic biomarker in head and neck squamous cell carcinoma
Published 2025-01-01“…H2BC9 expression was validated using the Human Protein Atlas database, qRT-PCR, and western blotting. Prognostic value was assessed using Kaplan–Meier curves, Cox regression analysis, and a nomogram. …”
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615
A prognostic signature of Glutathione metabolism-associated long non-coding RNAs for lung adenocarcinoma with immune microenvironment insights
Published 2025-02-01“…This study developed a prognostic model using GSH-related lncRNAs to predict LUAD outcomes and assess tumor immunity.MethodsThis study analyzed survival data from The Cancer Genome Atlas (TCGA) and identified GSH metabolism-related lncRNAs using Pearson correlation. …”
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616
Loss of Lkb1 cooperates with BrafV600E and ultraviolet radiation, increasing melanoma multiplicity and neural‐like dedifferentiation
Published 2025-02-01“…Analysis of human melanoma tumors [data from The Cancer Genome Atlas (TCGA)] revealed that 50% or more of the samples expressed no or low amounts of serine/threonine protein kinase STK11 (also known as LKB1) protein. …”
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617
Language and Culture in Health Literacy for People Living with HIV: Perspectives of Health Care Providers and Professional Care Team Members
Published 2016-01-01“…SPSS was used to analyze quantitative data while ATLAS.ti was used to analyze qualitative data. The findings from analyses of the perspectives of HCPs/PCTMs suggested that linguistic and cultural factors were important themes in the exchange of HIV information between health care providers and PLHIV. …”
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618
Immune regulatory genes impact the hot/cold tumor microenvironment, affecting cancer treatment and patient outcomes
Published 2025-01-01“…Nevertheless, as yet there is no consensus regarding the clinically relevant definition of hot/cold tumors, and the influence of immune genes on the formation of hot/cold tumors remains poorly understood.MethodsData for 33 different types of cancer were obtained from The Cancer Genome Atlas database, and their immune composition was assessed using the CIBERSORT algorithm. …”
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619
Lateralization study of the basal ganglia, thalamus and supplying arteries in healthy individuals based on structure and connectivity analysis using 7.0T MRI
Published 2025-02-01“…Additionally, we segmented the bilateral BG and thalami into 28 subregions based on the Brainnetome atlas and calculated their volumes using single-subject voxel-based morphometry (VBM) analysis. …”
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620
Men care too: a qualitative study examining women’s perceptions of fathers’ engagement in early childhood development (ECD) during an ECD program for HIV-positive mothers in Malawi...
Published 2022-07-01“…Data were coded using inductive and deductive strategies and analysed using constant comparison methods in Atlas.ti V.1.6.Setting Four health facilities in Malawi where PMTCT services were provided.Participants Study participants were mothers infected with HIV who were enrolled in the PMTCT–ECD programme for >6 months.Interventions The PMTCT–ECD intervention provided ECD education and counselling sessions during routine PMTCT visits for mothers infected with HIV and their infants (infant age 1.5–24 months). …”
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