Genomics & Informatics

Review article

November 13, 2019

Long non-coding RNA linc00152 acting as a promising oncogene in cancer progression

Danbi Seo, Dain Kim, Wanyeon Kim

Genomics Inform. 2019;17(4):e36.

The incidence and mortality rate of cancer continues to gradually increase, although considerable research effort has been directed at elucidating the molecular mechanisms underlying biomarkers responsible for tumorigenesis. Accumulated evidence...

Review article

November 13, 2019

Recent advances in Bayesian inference of isolation-with-migration models

Yujin Chung

Genomics Inform. 2019;17(4):e37.

Isolation-with-migration (IM) models have become popular for explaining population divergence in the presence of migrations. Bayesian methods are commonly used to estimate IM models, but they are limited to small...

Review

November 28, 2019

DNA methylation: a cause and consequence of type 2 diabetes

Mirang Kim

Genomics Inform. 2019;17(4):e38.

DNA methylation is a relatively stable epigenetic modification that can regulate and stabilize gene expression patterns and hence establish cell identity. Because metabolic intermediates are key factors of DNA methylation...

Original article

November 14, 2019

The extension of the largest generalized-eigenvalue based distance metric D_ij (γ_1 ) in arbitrary feature spaces to classify composite data points

Mosaab Daoud

Genomics Inform. 2019;17(4):e39.

Analyzing patterns in data points embedded in linear and non-linear feature spaces is considered as one of the common research problems among different research areas, for example: data mining, machine...

Original article

December 20, 2019

Analysis of unmapped regions associated with long deletions in Korean whole genome sequences based on short read data

Yuna Lee, Kiejung Park, Insong Koh

Genomics Inform. 2019;17(4):e40.

While studies aimed at detecting and analyzing indels or single nucleotide polymorphisms within human genomic sequences have been actively conducted, studies on detecting long insertions/deletions are not easy to orchestrate....

Review article

December 20, 2019

Review of statistical methods for survival analysis using genomic data

Seungyeoun Lee, Heeju Lim

Genomics Inform. 2019;17(4):e41.

Survival analysis mainly deals with the time to event, including death, onset of disease, and bankruptcy. The common characteristic of survival analysis is that it contains “censored” data, in which...

Clinical genomics

November 29, 2019

Detection of KRAS mutations in plasma cell-free DNA of colorectal cancer patients and comparison with cancer panel data for tissue samples of the same cancers

Suji Min, Sun Shin, Yeun-Jun Chung

Genomics Inform. 2019;17(4):e42.

Robust identification of genetic alterations is important for the diagnosis and subsequent treatment of tumors. Screening for genetic alterations using tumor tissue samples may lead to biased interpretations because of...

Genomic archive

November 7, 2019

High-quality draft genome and characterization of commercially potent probiotic Lactobacillus strains

Ayesha Sulthana, Suvarna G. Lakshmi, Ratna Sudha Madempudi

Genomics Inform. 2019;17(4):e43.

Lactobacillus acidophilus UBLA-34, L. paracasei UBLPC-35, L. plantarum UBLP-40, and L. reuteri UBLRU-87 were isolated from different varieties of fermented foods. To determine the probiotic safety at the strain level,...

Opinion

November 13, 2019

AI, big data, and robots for the evolution of biotechnology

Haseong Kim

Genomics Inform. 2019;17(4):e44.

Artificial intelligence (AI), big data, and ubiquitous robotic companions (URCs)—the three most notable technologies of the 4th Industrial Revolution—are receiving renewed attention each day. Technologies that can be experienced in...

Application note

December 23, 2019

HisCoM-PAGE: software for hierarchical structural component models for pathway analysis of gene expression data

Lydia Mok, Taesung Park

Genomics Inform. 2019;17(4):e45.

To identify pathways associated with survival phenotypes using gene expression data, we recently proposed the hierarchical structural component model for pathway analysis of gene expression data (HisCoM-PAGE) method. The HisCoM-PAGE...

Original article

December 23, 2019

Functional annotation of de novo variants from healthy individuals

Jean Lee, Sung Eun Hong

Genomics Inform. 2019;17(4):e46.

The implications of germline de novo variants (DNVs) in diseases are well documented. Despite extensive research, inconsistencies between studies remain a challenge, and the distribution and genetic characteristics of DNVs...

Original article

December 23, 2019

Pure additive contribution of genetic variants to a risk prediction model using propensity score matching: application to type 2 diabetes

Chanwoo Park, Nan Jiang, Taesung Park

Genomics Inform. 2019;17(4):e47.

The achievements of genome-wide association studies have suggested ways to predict diseases, such as type 2 diabetes (T2D), using single-nucleotide polymorphisms (SNPs). Most T2D risk prediction models have used SNPs...

Original article

December 20, 2019

Recapitulation of previously reported associations for type 2 diabetes and metabolic traits in the 126K East Asians

Ji-Young Choi, Hye-Mi Jang, Sohee Han, Mi Yeong Hwang, Bong-Jo Kim, Young Jin Kim

Genomics Inform. 2019;17(4):e48.

Over the last decade, genome-wide association studies (GWASs) have provided an unprecedented amount of genetic variations that are associated with various phenotypes. However, previous GWAS were mostly conducted in European...

Editor’s introduction to this issue (G&I 17:4, 2019) Taesung Park Genomics Inform. 2019;17(4):e35. Editorial December 20, 2019 Full text PubReader ePub PDF	Long non-coding RNA linc00152 acting as a promising oncogene in cancer progression Danbi Seo, Dain Kim, Wanyeon Kim Genomics Inform. 2019;17(4):e36. Review article December 20, 2019 Full text PubReader ePub PDF
Recent advances in Bayesian inference of isolation-with-migration models Yujin Chung Genomics Inform. 2019;17(4):e37. Review article December 20, 2019 Full text PubReader ePub PDF	DNA methylation: a cause and consequence of type 2 diabetes Mirang Kim Genomics Inform. 2019;17(4):e38. Review December 20, 2019 Full text PubReader ePub PDF
The extension of the largest generalized-eigenvalue based distance metric D_ij (γ_1 ) in arbitrary feature spaces to classify composite data points Mosaab Daoud Genomics Inform. 2019;17(4):e39. Original article December 20, 2019 Full text PubReader ePub PDF	Analysis of unmapped regions associated with long deletions in Korean whole genome sequences based on short read data Yuna Lee, Kiejung Park, Insong Koh Genomics Inform. 2019;17(4):e40. Original article December 20, 2019 Full text PubReader ePub PDF
Review of statistical methods for survival analysis using genomic data Seungyeoun Lee, Heeju Lim Genomics Inform. 2019;17(4):e41. Review article December 20, 2019 Full text PubReader ePub PDF	Detection of KRAS mutations in plasma cell-free DNA of colorectal cancer patients and comparison with cancer panel data for tissue samples of the same cancers Suji Min, Sun Shin, Yeun-Jun Chung Genomics Inform. 2019;17(4):e42. Clinical genomics December 20, 2019 Full text PubReader ePub PDF Supplementary Material
High-quality draft genome and characterization of commercially potent probiotic Lactobacillus strains Ayesha Sulthana, Suvarna G. Lakshmi, Ratna Sudha Madempudi Genomics Inform. 2019;17(4):e43. Genomic archive December 20, 2019 Full text PubReader ePub PDF	AI, big data, and robots for the evolution of biotechnology Haseong Kim Genomics Inform. 2019;17(4):e44. Opinion December 20, 2019 Full text PubReader ePub PDF
HisCoM-PAGE: software for hierarchical structural component models for pathway analysis of gene expression data Lydia Mok, Taesung Park Genomics Inform. 2019;17(4):e45. Application note December 20, 2019 Full text PubReader ePub PDF	Functional annotation of de novo variants from healthy individuals Jean Lee, Sung Eun Hong Genomics Inform. 2019;17(4):e46. Original article December 20, 2019 Full text PubReader ePub PDF
Pure additive contribution of genetic variants to a risk prediction model using propensity score matching: application to type 2 diabetes Chanwoo Park, Nan Jiang, Taesung Park Genomics Inform. 2019;17(4):e47. Original article December 20, 2019 Full text PubReader ePub PDF	Recapitulation of previously reported associations for type 2 diabetes and metabolic traits in the 126K East Asians Ji-Young Choi, Hye-Mi Jang, Sohee Han, Mi Yeong Hwang, Bong-Jo Kim, Young Jin Kim Genomics Inform. 2019;17(4):e48. Original article December 20, 2019 Full text PubReader ePub PDF Supplementary Material

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