- Korea BioData Station (K-BDS)
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Park T
- KMID: 2543680
- Genomics Inform.
- 2023 Mar;21(1):e1.
- doi: 10.5808/gi.21.1.e1
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- PyOncoPrint: a python package for plotting OncoPrints
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Park J, Paramasivam N
- KMID: 2543693
- Genomics Inform.
- 2023 Mar;21(1):e14.
- doi: 10.5808/gi.22079
OncoPrint, the plot to visualize an overview of genetic variants in sequencing data, has been widely used in the field of cancer genomics. However, still, there have been no Python... -
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- A Python-based educational software tool for visualizing bioinformatics alignment algorithms
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Khatizah E, Nam HJ, Park HS
- KMID: 2543694
- Genomics Inform.
- 2023 Mar;21(1):e15.
- doi: 10.5808/gi.22055
Bioinformatics education can be defined as the teaching and learning of how to use software tools, along with mathematical and statistical analysis, to solve biological problems. Although many resources are... -
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- Generation and analysis of whole-genome sequencing data in human mammary epithelial cells
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Park JL, Kim JY, Kim SY, Lee YS
- KMID: 2543690
- Genomics Inform.
- 2023 Mar;21(1):e11.
- doi: 10.5808/gi.22044
Breast cancer is the most common cancer worldwide, and advanced breast cancer with metastases is incurable mainly with currently available therapies. Therefore, it is essential to understand molecular characteristics during... -
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- Antibiotic resistance in Neisseria gonorrhoeae: broad-spectrum drug target identification using subtractive genomics
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Omeershffudin UNM, Kumar S
- KMID: 2543684
- Genomics Inform.
- 2023 Mar;21(1):e5.
- doi: 10.5808/gi.22066
Neisseria gonorrhoeae is a Gram-negative aerobic diplococcus bacterium that primarily causes sexually transmitted infections through direct human sexual contact. It is a major public health threat due to its impact... -
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- Introduction of the Korea BioData Station (K-BDS) for sharing biological data
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Lee B, Hwang S, Kim PG, Ko G, Jang K, Kim S, Kim JH, Jeon J, Kim H, Jung J, Yoon BH, Byeon I, Jang I, Song W, Choi J, Kim SY
- KMID: 2543691
- Genomics Inform.
- 2023 Mar;21(1):e12.
- doi: 10.5808/gi.22073
A wave of new technologies has created opportunities for the cost-effective generation of high-throughput profiles of biological systems, foreshadowing a "data-driven science" era. The large variety of data available from... -
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- Characterization of six new complete mitochondrial genomes of Chiasmodontidae (Scombriformes, Percomorpha) and considerations about the phylogenetic relationships of the family
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Rodrigues-Oliveira IH, Pasa R, Menegidio FB, Kavalco KF
- KMID: 2543689
- Genomics Inform.
- 2023 Mar;21(1):e10.
- doi: 10.5808/gi.22041
The fishes of the Chiasmodontidae family, known as swallower fishes, are species adapted to live in deep seas. Several studies have shown the proximity of this family to Tetragonuridae and... -
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- A network pharmacology and molecular docking approach in the exploratory investigation of the biological mechanisms of lagundi (Vitex negundo L.) compounds against COVID-19
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Rivera RG, Regidor PJS, Ruamero Jr EC, Allanigue EJV, Salinas MV
- KMID: 2543683
- Genomics Inform.
- 2023 Mar;21(1):e4.
- doi: 10.5808/gi.22060
Coronavirus disease 2019 (COVID-19) is an inflammatory and infectious disease caused by severe acute respiratory syndrome coronavirus 2 virus with a complex pathophysiology. While COVID-19 vaccines and boosters are available,... -
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- In silico annotation of a hypothetical protein from Listeria monocytogenes EGD-e unfolds a toxin protein of the type II secretion system
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Tasneem M, Gupta SD, Momin MB, Hossain KM, Osman TB, Rabbi MF
- KMID: 2543686
- Genomics Inform.
- 2023 Mar;21(1):e7.
- doi: 10.5808/gi.22071
The gram-positive bacterium Listeria monocytogenes is an important foodborne intracellular pathogen that is widespread in the environment. The functions of hypothetical proteins (HP) from various pathogenic bacteria have been successfully... -
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- Novel potential drugs for the treatment of primary open-angle glaucoma using protein-protein interaction network analysis
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Zavarzadeh PG, Abedi Z
- KMID: 2543685
- Genomics Inform.
- 2023 Mar;21(1):e6.
- doi: 10.5808/gi.22070
Glaucoma is the second leading cause of irreversible blindness, and primary open-angle glaucoma (POAG) is the most common type. Due to inadequate diagnosis, treatment is often not administered until symptoms... -
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- Prognostic biomarkers and molecular pathways mediating Helicobacter pylori–induced gastric cancer: a network-biology approach
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Kamarehei F, Saidijam M, Taherkhani A
- KMID: 2543687
- Genomics Inform.
- 2023 Mar;21(1):e8.
- doi: 10.5808/gi.22072
Cancer of the stomach is the second most frequent cancer-related death worldwide. The survival rate of patients with gastric cancer (GC) remains fragile. There is a requirement to discover biomarkers... -
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- Comprehensive investigation of the expression profiles of common long noncoding RNAs during microglial activation
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Kim J, Lee B, Kim Y, Kim BC, Kim JT, Cho HH
- KMID: 2543681
- Genomics Inform.
- 2023 Mar;21(1):e2.
- doi: 10.5808/gi.22061
Microglia, similar to peripheral macrophages, are the primary immune cells of the central nervous system (CNS). Microglia exist in the resting state in the healthy CNS, but can be activated... -
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- Effective microbial molecular diagnosis of periodontitis-related pathogen Porphyromonas gingivalis from salivary samples using rgpA gene
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Jeong J, Oh Y, Jeon J, Baek DH, Kim DH, Srikulnath K, Han K
- KMID: 2543692
- Genomics Inform.
- 2023 Mar;21(1):e13.
- doi: 10.5808/gi.22076
Importance of accurate molecular diagnosis and quantification of particular disease-related pathogenic microorganisms is highlighted as an introductory step to prevent and care for diseases. In this study, we designed a... -
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- A bioinformatics approach to characterize a hypothetical protein Q6S8D9_SARS of SARS-CoV
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Rahman MF, Hasan R, Biswas MS, Shathi JH, Hossain MF, Yeasmin A, Abedin MZ, Hossain MT
- KMID: 2543682
- Genomics Inform.
- 2023 Mar;21(1):e3.
- doi: 10.5808/gi.22021
Characterization as well as prediction of the secondary and tertiary structure of hypothetical proteins from their amino acid sequences uploaded in databases by in silico approach are the critical issues... -
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- Cinnamic acid derivatives as potential matrix metalloproteinase-9 inhibitors: molecular docking and dynamics simulations
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Malekipour MH, Shirani F, Moradi S, Taherkhani A
- KMID: 2543688
- Genomics Inform.
- 2023 Mar;21(1):e9.
- doi: 10.5808/gi.22077
Matrix metalloproteinase-9 (MMP-9) is a zinc and calcium-dependent proteolytic enzyme involved in extracellular matrix degradation. Overexpression of MMP-9 has been confirmed in several disorders, including cancers, Alzheimer′s disease, autoimmune diseases,... -
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