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Topic Review
GATNNCDA
Circular RNAs (circRNAs) are a new class of endogenous non-coding RNAs with covalent closed loop structure. Researchers have revealed that circRNAs play an important role in human diseases. As experimental identification of interactions between circRNA and disease is time-consuming and expensive, effective computational methods are an urgent need for predicting potential circRNA–disease associations. In this study, we proposed a novel computational method named GATNNCDA, which combines Graph Attention Network (GAT) and multi-layer neural network (NN) to infer disease-related circRNAs. Specially, GATNNCDA first integrates disease semantic similarity, circRNA functional similarity and the respective Gaussian Interaction Profile (GIP) kernel similarities. The integrated similarities are used as initial node features, and then GAT is applied for further feature extraction in the heterogeneous circRNA–disease graph. Finally, the NN-based classifier is introduced for prediction. The results of fivefold cross validation demonstrated that GATNNCDA achieved an average AUC of 0.9613 and AUPR of 0.9433 on the CircR2Disease dataset, and outperformed other state-of-the-art methods.
  • 293
  • 20 Aug 2021
Topic Review
Gene 33
Gene 33 (also named Mig6, RALT, and ERRFI1) is an adapter/scaffold protein with a calculated molecular weight of about 50 kD. It contains multiple domains known to mediate protein–protein interaction, suggesting that it has the potential to interact with many cellular partners and have multiple cellular functions. The research over the last two decades has confirmed that it indeed regulates multiple cell signaling pathways and is involved in many pathophysiological processes. Gene 33 has long been viewed as an exclusively cytosolic protein. However, recent evidence suggests that it also has nuclear and chromatin-associated functions. These new findings highlight a significantly broader functional spectrum of this protein.
  • 345
  • 12 Jul 2021
Topic Review
Gene Conversion amongst Alu SINE
The process of non-allelic gene conversion acts on homologous sequences during recombination, replacing parts of one with the other to make them uniform. Such concerted evolution is best described as paralogous ribosomal RNA gene unification that serves to preserve the essential house-keeping functions of the converted genes. Transposed elements (TE), especially Alu short interspersed elements (SINE) that have more than a million copies in primate genomes, are a significant source of homologous units and a verified target of gene conversion. The consequences of such a recombination-based process are diverse, including multiplications of functional TE internal binding domains and, for evolutionists, confusing divergent annotations of orthologous transposable elements in related species. 
  • 407
  • 24 Jun 2021
Topic Review
Gene Expression Induced by Radiation
According to the Health Physics Society, radiation is defined as energy that travels from a source through space as waves or particles and it can penetrate different materials. The electromagnetic spectrum consists of different wavelengths and frequencies, in which non-ionizing (low frequency) and ionizing (high frequency) radiation are found. Gene expression will be changed due to radiation.
  • 512
  • 19 May 2022
Topic Review
Gene Expression Profile in Nucleocytoviricota
Nucleocytoviricota is a large group of double-stranded DNA viruses that fully or partially replicate in the host cytoplasm. Despite marked differences, including virion shape, genome length, and host range, viruses belonging to this phylum have some very conserved characteristics, including the gene expression profile. A temporal pattern of gene expression, also known as a transcription cascade model, is described for these viruses, and comparative transcriptome analysis can be used as a starting point for future transcriptomic investigations.
  • 679
  • 06 Aug 2021
Topic Review
General Classification of Spatial Profiling Technology
Spatial profiling technologies fill the gap left by the loss of spatial information in traditional single-cell sequencing, showing great application prospects. After just a few years of quick development, spatial profiling technologies have made great progress in resolution and simplicity.
  • 305
  • 19 Jul 2023
Topic Review
Generating Osteoclasts from Human Femoral Heads
Proper formation of the skeleton during development is crucial for the mobility of humans and the maintenance of essential organs. The production of bone is regulated by osteoblasts and osteoclasts. An imbalance of these cells can lead to a decrease in bone mineral density, which leads to fractures. The data demonstrated that isolated cells can be differentiated into functional osteoclasts, as indicated by the 92% and 83% of cells that stained positive for TRAP and Cathepsin K, respectively. Furthermore, isolated cells remain viable and terminally differentiate into osteoclasts when stimulated with RANKL. These data demonstrate that cells isolated from human femoral heads can be differentiated into osteoclasts to study bone disorders during development and adulthood.
  • 429
  • 19 Jan 2022
Topic Review
Generation of Liver Organoids
The liver represents the most important metabolic organ of the human body. It is evident that an imbalance of liver function can lead to several pathological conditions, known as liver failure. Orthotropic liver transplantation (OLT) is currently the most effective and established treatment for end-stage liver diseases and acute liver failure (ALF). Due to several limitations, stem-cell-based therapies are currently being developed as alternative solutions. Stem cells or progenitor cells derived from various sources have emerged as an alternative source of hepatic regeneration. Therefore, hematopoietic stem cells (HSCs), mesenchymal stromal cells (MSCs), endothelial progenitor cells (EPCs), embryonic stem cells (ESCs) and induced pluripotent stem cells (iPSCs) are also known to differentiate into hepatocyte-like cells (HPLCs) and liver progenitor cells (LPCs) that can be used in preclinical or clinical studies of liver disease. Furthermore, these cells have been shown to be effective in the development of liver organoids that can be used for disease modeling, drug testing and regenerative medicine.
  • 361
  • 13 May 2022
Topic Review
Genetic and Genomic Alterations in Glioblastoma Multiforme
Glioblastoma multiforme (GBM) is a brain tumor characterized by high heterogeneity, diffuse infiltration, aggressiveness, and formation of recurrences. Patients with this kind of tumor suffer from cognitive, emotional, and behavioral problems, beyond exhibiting dismal survival rates. Current treatment comprises surgery, radiotherapy, and chemotherapy with the methylating agent, temozolomide (TMZ). GBMs harbor intrinsic mutations involving major pathways that elicit the cells to evade cell death, adapt to the genotoxic stress, and regrow.
  • 1.0K
  • 23 May 2022
Topic Review
Genetics and Transcriptomics of Melanoma Metastasis
Melanoma is a deadly skin cancer with rapidly increasing incidence worldwide. The progression from melanomagenesis to metastasis is known to differ between the various subtypes of melanoma, which are defined by their disparate clinical, histopathologic, and genetic features.
  • 356
  • 11 Jan 2022
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