Expression of CSTF2 in oral squamous cell carcinoma and its relationship with immune infiltration and poor prognosis by Zumulaiti Aierken, Muertiza Muhetaer, Zhang Lei, Ainiwaerjiang Abudourousuli, Ainiwaerjiang Abudourousuli

“…However, its specific association with patient prognosis and immune cell infiltration in OSCC remains insufficiently understood.MethodsTo assess the expression levels and prognostic implications of CSTF2 in OSCC, comprehensive data were acquired from The Cancer Genome Atlas (TCGA) and subsequently normalized. Immunohistochemical staining of tissue microarrays was performed to analyze CSTF2 expression in the OSCC samples. …”
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Identification of Survival Risk and Immune-Related Characteristics of Kidney Renal Clear Cell Carcinoma by Xiaobin Wu, Yonghui Liang, Xian Chen, Xiangyang Long, Wujun Xu, Li Liu, Binhui Wang, Xiong Zou

“…A series of information such as RNA sequence, clinical data, and tumor mutation burden (TMB) of KIRC patients were downloaded through The Cancer Genome Atlas (TCGA). Next, combining the survival information and gene expression data of TCGA and Gene Expression Omnibus (GEO), we established an immune gene-related prognosis model (IGRPM) and analyzed it. …”
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The role of cyclooxygenase-2 (COX-2) and inflammatory markers in the progress of Alport syndrome in Egyptian children by Moushira Zaki, Hisham A. Orban, Mohamed A. Shahba, Rehab S. I. Moustafa, Ahmed Adel, Fatina I. Fadel, Abeer Selim, Hala T. El-Bassyouni, Eman R. Youness

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Genetic Testing Distinguishes Multiple Chondroid Chordomas with Neuraxial Bone Metastases from Multicentric Tumors by Hiroshi Kobayashi, Masahiro Shin, Naohiro Makise, Aya Shinozaki-Ushiku, Masachika Ikegami, Yuki Taniguchi, Yusuke Shinoda, Shinji Kohsaka, Tetsuo Ushiku, Katsutoshi Oda, Kiyoshi Miyagawa, Hiroyuki Aburatani, Hiroyuki Mano, Sakae Tanaka

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Dose-response risks of all-cause, cancer, and cardiovascular disease mortality according to sex-specific cigarette smoking pack-year quantiles by Jieun Hwang, Suyoung Jo, Heewon Kang, Eunsil Cheon, Sung-il Cho

“…Methods The integrated Korean Genome and Epidemiology Study provided data for 209770 individuals who were classified as never, former, or current smokers, based on their current smoking status. …”
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Integrating E-cadherin expression levels with TNM staging for enhanced prognostic prediction in colorectal cancer patients by Jae-Ghi Lee, Ilkyu Park, Hannah Lee, Seungyoon Nam, Jisup Kim, Won-Suk Lee, Myunghee Kang, Jung Ho Kim

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Exercise-induced methylation of the Serhl2 promoter and implication for lipid metabolism in rat skeletal muscle by Mutsumi Katayama, Kazuhiro Nomura, Jonathan M. Mudry, Alexander V. Chibalin, Anna Krook, Juleen R. Zierath

“…To determine the skeletal muscle DNA methylation signature of endurance swim training, we used whole-genome methylated DNA immunoprecipitation (MeDIP) sequencing. …”
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Genotypic and phenotypic characterization of antimicrobial resistance in Salmonella strains isolated from both No-Antibiotics-Ever (NAE) and conventional broiler complexes by Yagya Adhikari, Dianna V. Bourassa, Sabin Poudel, Matthew A. Bailey, Richard J. Buhr, Kenneth S. Macklin

“…ResFinder was used to identify AMR genes from whole genome sequences while the phenotypic resistance of 14 different antibiotics was determined using broth microdilution method. …”
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Molecular Identification and Antimicrobial Potential of Streptomyces Species from Nepalese Soil by Karan Khadayat, Dawa Dindu Sherpa, Krishna Prakash Malla, Sunil Shrestha, Nabin Rana, Bishnu P. Marasini, Santosh Khanal, Binod Rayamajhee, Bibek Raj Bhattarai, Niranjan Parajuli

“…Here, we have also analyzed 16S rRNA in 27 Streptomyces species whose whole-genome sequence is available, which has revealed that some species have multiple copies of the 16S gene (∼1.5 kb) with significant variation in nucleotides. …”
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Phenotypic and genotypic drug susceptibility patterns of Mycobacterium tuberculosis isolates from pulmonary tuberculosis patients in Central and Southern Ethiopia. by Melaku Tilahun, Teklu Wegayehu, Biniam Wondale, Tewdros Tariku Gebresilase, Tesfaye Gebreyohannes, Abraham Tekola, Mekdes Alemu, Sebsib Neway, Bethlehem Adnew, Maeruf Fetu Nassir, Yonas Kassahun, Abraham Aseffa, Kidist Bobosha

“…<h4>Conclusion</h4>This study reveals a higher prevalence of phenotypic and genotypic discordant INH-resistant M. tuberculosis isolates in the study area. The use of whole-genome sequencing (WGS) is essential for gaining a comprehensive understanding of these discrepancies within INH-resistant M. tuberculosis strains.…”
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The O-glycosyltransferase C1GALT1 promotes EWSR1::FLI1 expression and is a therapeutic target for Ewing sarcoma by Shahid Banday, Alok K. Mishra, Romana Rashid, Tianyi Ye, Amjad Ali, Junhui Li, Jason T. Yustein, Michelle A. Kelliher, Lihua Julie Zhu, Sara K. Deibler, Sunil K. Malonia, Michael R. Green

“…Factors that promote EWSR1::FLI1 expression, and thus whose inhibition would reduce EWSR1::FLI1 protein levels and function, are potential drug targets. Here, using genome-scale CRISPR/Cas9 knockout screening, we identify C1GALT1, a galactosyltransferase required for the biosynthesis of many O-glycoproteins, as a factor that promotes EWSR1::FLI1 expression. …”
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Predicting Outcomes in Esophageal Squamous Cell Carcinoma Using scRNA‐Seq and Bulk RNA‐Seq: A Model Development and Validation Study by Jiaqi Zhang, Shunzhe Song, Yuqing Li, Aixia Gong

“…Methods A total of 8, 99, and 140 individuals from The Gene Expression Omnibus database, The Cancer Genome Atlas database, and the Memorial Sloan Kettering Cancer Center, respectively, were encompassed in the investigation. …”
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Tumour DNA methylation markers associated with breast cancer survival: a replication study by Elaheh Zarean, Shuai Li, Ee Ming Wong, Enes Makalic, Roger L. Milne, Graham G. Giles, Catriona McLean, Melissa C. Southey, Pierre-Antoine Dugué

“…Candidate methylation sites (N = 22) and signatures (N = 3) potentially associated with breast cancer survival were identified from five prior studies that used The Cancer Genome Atlas (TCGA) methylation dataset, which shares key characteristics with the MCCS: comparable sample size, tissue type (formalin-fixed paraffin-embedded; FFPE), technology (Illumina HumanMethylation450 array), and participant characteristics (age, ancestry, and disease subtype and severity). …”
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Cell-free DNA release following psychosocial and physical stress in women and men by A. S. Limberg, F. Berg, E. Köper, C. Lindgraf, C. Gevers, R. Kumsta, E. M. Hummel, D. A. Moser

“…To overcome this, a multiplex quantitative polymerase chain reaction (qPCR) protocol targeting L1PA2 elements, which are prevalent in the human genome, was utilized. The analysis indicated significantly elevated levels of cf-nDNA in both plasma and saliva in all participants, irrespective of gender, following psychosocial and physical stress. …”
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Comparison of miRNA expressions among benign, premalignant and malignant lesions of the larynx: could they be transformation biomarkers? by Fatma Ruya Tuncturk, Ibrahim Akalin, Lokman Uzun, Tulay Zenginkinet

“…Finding a biomarker to overcome these concerns are ongoing challenges and recently microRNAs (miRNAs) are attributed as possible candidates since they can regulate gene expressions in the human genome. The objective of our study was to investigate their capability as a transformation biomarker for malignant laryngeal lesions. …”
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Proteome‐Wide Mendelian Randomization Identifies Therapeutic Targets for Abdominal Aortic Aneurysm by Ka Zhang, Yuan Liu, Aiqin Mao, Changzhu Li, Li Geng, Hao Kan

“…Genetic associations with AAA were sourced from the AAAgen consortium, a large‐scale genome‐wide association study meta‐analysis involving 37 214 cases and 1 086 107 controls, and the FinnGen study, which included 3869 cases and 381 977 controls. …”
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Apoptosis antagonizing transcription factor expression and its validation as a potential diagnostic and prognostic biomarker in oral squamous cell carcinoma by Ainiwaerjiang Abudourousuli, Zumulaiti Aierken, Hasiyati Mamuti, Tuxunayi Yimamu, Chengli Da

“…This study aimed to investigate the expression of apoptosis antagonizing transcription factor (AATF) in OSCC, examine its correlation with clinicopathological features, assess its prognostic implications, and explore its potential role in OSCC progression.MethodsExpression profiles and clinical data of OSCC patients were obtained from The Cancer Genome Atlas (TCGA). Immunohistochemical analysis on tissue microarrays was performed to assess AATF expression in OSCC. …”
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Causal associations between iron levels in subcortical brain regions and psychiatric disorders: a Mendelian randomization study by Wei Du, Biqiu Tang, Senhao Liu, Wenjing Zhang, Su Lui

“…The genetic instrumental variables linked to iron levels and psychiatric disorders were derived from the genome-wide association studies data of the UK Biobank Brain Imaging and Psychiatric Genomics Consortium. …”
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Hypoxia-induced CTCF mediates alternative splicing via coupling chromatin looping and RNA Pol II pause to promote EMT in breast cancer by Parik Kakani, Shruti Ganesh Dhamdhere, Deepak Pant, Rushikesh Joshi, Sachin Mishra, Anchala Pandey, Dimple Notani, Sanjeev Shukla

“…This further regulates the CTCF-mediated RNA polymerase II pause at COL5A1exon64A, leading to its inclusion in promoting the EMT under hypoxia. Genome-wide study indicates the association of gained CTCF occupancy with the alternative splicing of many cancer-related genes, similar to the proposed model. …”
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Altered O-Glycans in stimulated whole saliva from patients with primary Sjögren’s syndrome and non-pSS sicca by Sarah Kamounah, Kristina A. Thomsson, Christiane Elisabeth Sørensen, Eric Paul Bennett, Niclas G. Karlsson, Anne Marie Lynge Pedersen

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