Article
Immunology
Zongcai Yan, Meiling He, Lifeng He, Liuxia Wei, Yumei Zhang
Summary: This study established a six-gene prognostic model for HCC by analyzing DEGs, which could help determine prognosis and serve as biomarkers for personalized disease management in HCC patients.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Psychiatry
Zhijun Li, Xinwei Li, Mengdi Jin, Yang Liu, Yang He, Ningning Jia, Xingyao Cui, Yane Liu, Guoyan Hu, Qiong Yu
Summary: This study identified 15 key genes potentially associated with schizophrenia through analyzing multiple gene expression datasets using various bioinformatics algorithms. The study also found correlations between the expression of these hub genes and immune infiltrating cells. Furthermore, a risk prediction model based on these genes and immune cells achieved high accuracy in early diagnosis of schizophrenia.
PSYCHIATRY RESEARCH
(2022)
Review
Oncology
Claudia Campani, Jessica Zucman-Rossi, Jean-Charles Nault
Summary: In recent years, the genetic landscape of hepatocellular carcinoma (HCC) has been explored, identifying TERT promoter, CTNNB1, and TP53 as the most frequent mutated genes. Therapies directed against specific targetable genomic alterations are the basis of personalized medicine, but are not yet available in HCC. Tools such as liquid biopsy and ctDNA may help in identifying biomarkers of response or resistance to treatment in HCC.
Review
Pathology
Nurbubu T. Moldogazieva, Sergey P. Zavadskiy, Susanna S. Sologova, Innokenty M. Mokhosoev, Alexander A. Terentiev
Summary: This review discusses recent advancements in identifying proteomic/genomic/epigenomic/transcriptomic biomarkers for predicting HCC treatment efficacy with the use of multi-kinase inhibitors (MKIs), CDK4/6 inhibitors, and immune checkpoint inhibitors (ICIs). Various biomarkers such as alpha-fetoprotein, des-carboxyprothrombin, and vascular endothelial growth factor have the potential to predict the efficacy of sorafenib treatment.
EXPERT REVIEW OF MOLECULAR DIAGNOSTICS
(2021)
Review
Genetics & Heredity
Vipul Vilas Wagh, Parin Vyas, Suchita Agrawal, Tejaswini A. Pachpor, Vasudeo Paralikar, Satyajeet P. Khare
Summary: Schizophrenia is characterized by delusions, hallucinations, and impaired socio-occupational function. Identifying biomarkers through blood-based gene expression studies can aid in early diagnosis and effective treatment strategies. The overlap of genetic, epigenetic, and gene expression changes suggests an interplay of genetic and environmental factors in schizophrenia.
FRONTIERS IN GENETICS
(2021)
Article
Gastroenterology & Hepatology
Ming Ren Toh, Evelyn Yi Ting Wong, Sunny Hei Wong, Alvin Wei Tian Ng, Lit-Hsin Loo, Pierce Kah-Hoe Chow, Joanne Ngeow
Summary: Hepatocellular carcinoma (HCC) is a leading global cancer, primarily occurring in genetically susceptible individuals with liver cirrhosis and exposure to risk factors. Temporal and geographical variations exist in HCC, with a shift from viral to nonviral causes and a higher burden in regions with a high sociodemographic index. Hepatitis viruses are the predominant causes of HCC in Asia and Africa, while genetic conditions contributing to HCC risk are less recognized outside North America and Europe. This review evaluates the epidemiology, risk factors, and genetics of HCC, including monogenic diseases, single-nucleotide polymorphisms, gut microbiome, and somatic mutations.
Editorial Material
Biology
Matthias Weith, Andreas Beyer
Summary: Expanding Mendelian randomization to incorporate multiple variables can aid researchers in uncovering novel molecular causes for specific traits.
Review
Medicine, General & Internal
Miaomiao Hou
Summary: Using gene expression data analysis methods, this study identified SOCS2 and SERPINF2 as new independent prognostic genes for HCC, which may provide new approaches and measures for the diagnosis and treatment of HCC.
Review
Oncology
Chenbin Liu, Han Wu, Yinqi Mao, Wei Chen, Shuying Chen
Summary: Exosomal microRNAs play a crucial role in hepatocellular carcinoma, holding significant value in the early diagnosis and treatment of this disease.
CANCER CELL INTERNATIONAL
(2021)
Article
Cell Biology
Wanjing Ning, Miao Huang, Shengming Wu, Hong Wang, Jiali Yao, Yingying Ge, Yulu Tang, Kejian Sun, Xiaoxun Xie, Qiping Hu
Summary: This study revealed that downregulation of the CT23 gene in BEL-7404 cells can alter the expression of HCC-related genes by upregulating MT1 expression, thereby influencing cell proliferation, migration, and apoptosis in cancer cells.
CELL BIOLOGY INTERNATIONAL
(2021)
Article
Genetics & Heredity
Sherlyn Jemimah, Aamna Alshehhi, Alzheimers Dis Neuroimaging Initiat
Summary: In this study, a novel deep learning classifier, c-Diadem, was proposed to predict the disease status of Alzheimer's disease by using genotyping data, and pathway constraints were applied to interpret the model and identify potential blood-based genetic markers.
BMC MEDICAL GENOMICS
(2023)
Article
Biochemistry & Molecular Biology
Qing Zhu, Yarui Ma, Junbo Liang, Zhewen Wei, Mo Li, Ying Zhang, Mei Liu, Huan He, Chunfeng Qu, Jianqiang Cai, Xiaobing Wang, Yixin Zeng, Yuchen Jiao
Summary: The study found that the aryl hydrocarbon receptor (AHR) plays a crucial role in the toxicity of AFB1-associated HCC, and suggests that anti-PD-L1 therapy may be a therapeutic option for AFB1-related HCC.
SIGNAL TRANSDUCTION AND TARGETED THERAPY
(2021)
Article
Oncology
Adam B. B. Weiner, Yang Liu, Alex Hakansson, Xin Zhao, James A. A. Proudfoot, Julian Ho, J. J. H. H. Zhang, Eric V. V. Li, R. Jeffrey Karnes, Robert B. B. Den, Amar U. U. Kishan, Robert E. E. Reiter, Anis A. A. Hamid, Ashely E. E. Ross, Phuoc T. T. Tran, Elai Davicioni, Daniel E. E. Spratt, Gerhardt Attard, Tamara L. L. Lotan, Melvin Lee Kiang Chua, Christopher J. J. Sweeney, Edward M. M. Schaeffer
Summary: A prostate subtyping classifier (PSC) was created by analyzing expression profiles from over 100,000 prostate tumors, identifying four subtypes with distinct biological and clinical features.
Article
Multidisciplinary Sciences
Lu Huang, Zhou Songyang, Zhiming Dai, Yuanyan Xiong
Summary: This study established and validated two prognostic markers (gene expression score and immune score) based on field cancerization profiles for the diagnosis, treatment, and prognostic evaluation of hepatocellular carcinoma (HCC). The results showed that field cancerization profile-based models outperformed conventional models in risk evaluation, providing insights for further research on prognostic model construction. The findings regarding immune cells and immunotherapy may explain the diverse prognosis and clinical benefit of HCC, and contribute to molecular mechanism studies and therapeutic target development.
Article
Oncology
Ganji Purnachandra Nagaraju, Begum Dariya, Prameswari Kasa, Sujatha Peela, Sujatha Peela Bassel F. El-Rayes
Summary: HCC is the most common primary malignancy of the liver, with a high fatality rate. Genetic and epigenetic aberrations are commonly observed in HCC, including chromatin remodeling, histone alterations, DNA methylation, and ncRNA expression. In-depth understanding of the epigenetics of HCC is critical for developing rational clinical strategies, improving overall survival, and predicting therapeutic outcomes.
SEMINARS IN CANCER BIOLOGY
(2022)
Article
Hematology
Justin Sperlazza, Mohamed Rahmani, Jason Beckta, Mandy Aust, Elisa Hawkins, Shou Zhen Wang, Sheng Zu Zhu, Shreya Podder, Catherine Dumur, Kellie Archer, Steven Grant, Gordon D. Ginder
Article
Biochemical Research Methods
Umaporn Siangphoe, Kellie J. Archer
BRIEFINGS IN BIOINFORMATICS
(2017)
Editorial Material
Immunology
Valeria Mas, Kellie J. Archer, Daniel Maluf
Article
Immunology
Scott W. Walsh, Anuja A. Chumble, Sonya L. Washington, Kellie J. Archer, Sinem E. Sahingur, Jerome F. Strauss
JOURNAL OF REPRODUCTIVE IMMUNOLOGY
(2017)
Article
Developmental Biology
Bhavi P. Modi, Sonya Washington, Scott W. Walsh, Colleen Jackson-Cook, Kellie J. Archer, Jerome F. Strauss
Article
Multidisciplinary Sciences
Maren L. Smith, Marcelo F. Lopez, Kellie J. Archer, Aaron R. Wolen, Howard C. Becker, Michael F. Miles
Article
Multidisciplinary Sciences
Boxiao Ding, Anita Parmigiani, Ajit S. Divakaruni, Kellie Archer, Anne N. Murphy, Andrei V. Budanov
SCIENTIFIC REPORTS
(2016)
Article
Biochemical Research Methods
Uma Siangphoe, Kellie J. Archer, Nitai D. Mukhopadhyay
BMC BIOINFORMATICS
(2019)
Article
Multidisciplinary Sciences
Rebecca R. Lehman, Kellie J. Archer
Correction
Multidisciplinary Sciences
Maren L. Smith, Marcelo F. Lopez, Kellie J. Archer, Aaron R. Wolen, Howard C. Becker, Michael F. Miles
Article
Mathematics, Interdisciplinary Applications
Kellie J. Archer, Anna Eames Seffernick, Shuai Sun, Yiran Zhang
Summary: In this study, we developed an ordinalbayes package using the TCGA cervical cancer dataset, which can fit models to high-dimensional datasets and perform variable selection.
Article
Endocrinology & Metabolism
Jan M. McAllister, Angela X. Han, Bhavi P. Modi, Maria E. Teves, Grace R. Mavodza, Zachary L. Anderson, Tsaiwei Shen, Lane K. Christenson, Kellie J. Archer, Jerome F. Strauss
Article
Oncology
Sidrah Khan, Adrian Diaz, Kellie J. Archer, Rebecca R. Lehman, Tiffany Mullins, Gilda Cardenosa, Harry D. Bear
Article
Surgery
S. V. Bontha, D. G. Maluf, K. J. Archer, C. I. Dumur, M. G. Dozmorov, A. L. King, E. Akalin, T. F. Mueller, L. Gallon, V. R. Mas
AMERICAN JOURNAL OF TRANSPLANTATION
(2017)
Article
Oncology
Qing Zhou, Colleen Jackson-Cook, Debra Lyon, Robert Perera, Kellie J. Archer
CANCER INFORMATICS
(2015)
