- Editor's Introduction to This Issue (G&I 16:4, 2018)
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Park T
- KMID: 2439206
- Genomics Inform.
- 2018 Dec;16(4):e16.
- doi: 10.5808/GI.2018.16.4.e16
No abstract available. -
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- Opinion: Strategy of Semi-Automatically Annotating a Full-Text Corpus of Genomics & Informatics
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Park HS
- KMID: 2439230
- Genomics Inform.
- 2018 Dec;16(4):e40.
- doi: 10.5808/GI.2018.16.4.e40
There is a communal need for an annotated corpus consisting of the full texts of biomedical journal articles. In response to community needs, a prototype version of the full-text corpus... -
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- Genetic Hearing Loss and Gene Therapy
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Carpena NT, Lee MY
- KMID: 2439210
- Genomics Inform.
- 2018 Dec;16(4):e20.
- doi: 10.5808/GI.2018.16.4.e20
Genetic hearing loss crosses almost all the categories of hearing loss which includes the following: conductive, sensory, and neural; syndromic and nonsyndromic; congenital, progressive, and adult onset; high-frequency, low-frequency, or... -
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- A Short Report on the Markov Property of DNA Sequences on 200-bp Genomic Units of Roadmap Genomics ChromHMM Annotations: A Computational Perspective
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Park HS
- KMID: 2439217
- Genomics Inform.
- 2018 Dec;16(4):e27.
- doi: 10.5808/GI.2018.16.4.e27
The non-coding DNA in eukaryotic genomes encodes a language that programs chromatin accessibility, transcription factor binding, and various other activities. The objective of this study was to determine the effect... -
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- Single-Cell Sequencing in Cancer: Recent Applications to Immunogenomics and Multi-omics Tools
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Sierant MC, Choi J
- KMID: 2439207
- Genomics Inform.
- 2018 Dec;16(4):e17.
- doi: 10.5808/GI.2018.16.4.e17
Tumor heterogeneity, the cellular mosaic of multiple lineages arising from the process of clonal evolution, has continued to thwart multi-omics analyses using traditional bulk sequencing methods. The application of single-cell... -
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- Storing Digital Information in Long-Read DNA
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Ahn T, Ban H, Park H
- KMID: 2439220
- Genomics Inform.
- 2018 Dec;16(4):e30.
- doi: 10.5808/GI.2018.16.4.e30
There is urgent need for effective and cost-efficient data storage, as the worldwide requirement for data storage is rapidly growing. DNA has introduced a new tool for storing digital information.... -
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- Evaluation of 16S rRNA Databases for Taxonomic Assignments Using a Mock Community
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Park SC, Won S
- KMID: 2439214
- Genomics Inform.
- 2018 Dec;16(4):e24.
- doi: 10.5808/GI.2018.16.4.e24
Taxonomic identification is fundamental to all microbiology studies. Particularly in metagenomics, which identifies the composition of microorganisms using thousands of sequences, its importance is even greater. Identification is inevitably affected... -
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- EFMDR-Fast: An Application of Empirical Fuzzy Multifactor Dimensionality Reduction for Fast Execution
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Leem S, Park T
- KMID: 2439227
- Genomics Inform.
- 2018 Dec;16(4):e37.
- doi: 10.5808/GI.2018.16.4.e37
Gene-gene interaction is a key factor for explaining missing heritability. Many methods have been proposed to identify gene-gene interactions. Multifactor dimensionality reduction (MDR) is a well-known method for the detection... -
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- COEX-Seq: Convert a Variety of Measurements of Gene Expression in RNA-Seq
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Kim SC, Yu D, Cho SB
- KMID: 2439226
- Genomics Inform.
- 2018 Dec;16(4):e36.
- doi: 10.5808/GI.2018.16.4.e36
Next generation sequencing (NGS), a high-throughput DNA sequencing technology, is widely used for molecular biological studies. In NGS, RNA-sequencing (RNA-Seq), which is a short-read massively parallel sequencing, is a major... -
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- Multi-block Analysis of Genomic Data Using Generalized Canonical Correlation Analysis
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Jun I, Choi W, Park M
- KMID: 2439223
- Genomics Inform.
- 2018 Dec;16(4):e33.
- doi: 10.5808/GI.2018.16.4.e33
Recently, there have been many studies in medicine related to genetic analysis. Many genetic studies have been performed to find genes associated with complex diseases. To find out how genes... -
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- Somatic Mutations from Whole Exome Sequencing Analysis of the Patients with Biliary Tract Cancer
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Yoon KA, Woo SM, Kim YH, Kong SY, Han SS, Park SJ, Lee WJ
- KMID: 2439225
- Genomics Inform.
- 2018 Dec;16(4):e35.
- doi: 10.5808/GI.2018.16.4.e35
Biliary tract cancer (BTC) is a rare cancer and is associated with a poor prognosis. To understand the genetic characteristics of BTC, we analyzed whole-exome sequencing data and identified somatic... -
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- Integration of a Large-Scale Genetic Analysis Workbench Increases the Accessibility of a High-Performance Pathway-Based Analysis Method
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Lee S, Park T
- KMID: 2439229
- Genomics Inform.
- 2018 Dec;16(4):e39.
- doi: 10.5808/GI.2018.16.4.e39
The rapid increase in genetic dataset volume has demanded extensive adoption of biological knowledge to reduce the computational complexity, and the biological pathway is one well-known source of such knowledge.... -
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- Roles of Oncogenic Long Non-coding RNAs in Cancer Development
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Do H, Kim W
- KMID: 2439208
- Genomics Inform.
- 2018 Dec;16(4):e18.
- doi: 10.5808/GI.2018.16.4.e18
Long non-coding RNAs (lncRNAs) are classified as RNAs that are longer than 200 nucleotides and cannot be translated into protein. Several studies have demonstrated that lncRNAs are directly or indirectly... -
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- Ovarian Cancer Prognostic Prediction Model Using RNA Sequencing Data
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Jeong S, Mok L, Kim SI, Ahn T, Song YS, Park T
- KMID: 2439222
- Genomics Inform.
- 2018 Dec;16(4):e32.
- doi: 10.5808/GI.2018.16.4.e32
Ovarian cancer is one of the leading causes of cancer-related deaths in gynecological malignancies. Over 70% of ovarian cancer cases are high-grade serous ovarian cancers and have high death rates... -
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- RNA-Seq De Novo Assembly and Differential Transcriptome Analysis of Korean Medicinal Herb Cirsium japonicum var. spinossimum
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Roy NS, Kim JA, Choi AY, Ban YW, Park NI, Park KC, Yang HS, Choi IY, Kim S
- KMID: 2439224
- Genomics Inform.
- 2018 Dec;16(4):e34.
- doi: 10.5808/GI.2018.16.4.e34
Cirsium japonicum belongs to the Asteraceae or Compositae family and is a medicinal plant in Asia that has a variety of effects, including tumour inhibition, improved immunity with flavones, and... -
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- Genome-Based Virus Taxonomy with the ICTV Database Extension
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Kang S, Kim YC
- KMID: 2439212
- Genomics Inform.
- 2018 Dec;16(4):e22.
- doi: 10.5808/GI.2018.16.4.e22
In 1966, the International Classification of Viruses (ICNV) was established to standardize the naming of viruses. In 1975, the organization was renamed “International Committee on Taxonomy of Viruses (ICTV),†by... -
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- HisCoM-GGI: Software for Hierarchical Structural Component Analysis of Gene-Gene Interactions
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Choi S, Lee S, Park T
- KMID: 2439228
- Genomics Inform.
- 2018 Dec;16(4):e38.
- doi: 10.5808/GI.2018.16.4.e38
Gene-gene interaction (GGI) analysis is known to play an important role in explaining missing heritability. Many previous studies have already proposed software to analyze GGI, but most methods focus on... -
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- An Advanced Understanding of Uterine Microbial Ecology Associated with Metritis in Dairy Cows
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Jeon SJ, Galvão KN
- KMID: 2439211
- Genomics Inform.
- 2018 Dec;16(4):e21.
- doi: 10.5808/GI.2018.16.4.e21
Metritis, the inflammation of the uterus caused by polymicrobial infections, is a prevalent and costly disease to the dairy industry as it decreases milk yield, survival, and the welfare of... -
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- Circulating HOTAIR LncRNA Is Potentially Up-regulated in Coronary Artery Disease
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Avazpour N, Hajjari M, Yazdankhah S, Sahni A, Foroughmand AM
- KMID: 2439215
- Genomics Inform.
- 2018 Dec;16(4):e25.
- doi: 10.5808/GI.2018.16.4.e25
Coronary artery disease (CAD) is one of the leading causes of death and disability all around the world. Recent studies have revealed that aberrantly regulated long non-coding RNA (lncRNA) as... -
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- STADIUM: Species-Specific tRNA Adaptive Index Compendium
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Yoon J, Chung YJ, Lee M
- KMID: 2439218
- Genomics Inform.
- 2018 Dec;16(4):e28.
- doi: 10.5808/GI.2018.16.4.e28
Due to the increasing interest in synonymous codons, several codon bias-related terms were introduced. As one measure of them, the tRNA adaptation index (tAI) was invented about a decade ago.... -
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