Proteogenomic Characterization Reveals Estrogen Signaling as a Target for Never-Smoker Lung Adenocarcinoma Patients without EGFR or ALK Alterations.

Unlabelled: Never-smoker lung adenocarcinoma (NSLA) is prevalent in Asian populations, particularly in women. EGFR mutations and anaplastic lymphoma kinase (ALK) fusions are major genetic alterations observed in NSLA, and NSLA with these alterations have been well studied and can be treated with targeted therapies. To provide insights into the molecular profile of NSLA without EGFR and ALK alterations (NENA), we selected 141 NSLA tissues and performed proteogenomic characterization, including whole genome sequencing (WGS), transcriptomic, methylation EPIC array, total proteomic, and phosphoproteomic analyses.

The complete chloroplast genome of Mitt. (Porellaceae) and phylogenetic relationships to other bryophytes.

Mitt. (Jungermanniidae, Porellaceae), a bryophyte is widespread in temperate Asia and North America. In Korea, is mainly observed in shaded and dried rocks or tree trunks on mountains.

The Liverwort and Hornwort Flora of Jeju Island, Republic of Korea: A Volcanic Island with a Unique Mixture of Subtropical, Temperate, Boreal, and Arctomontane Taxa.

Jeju Island, due to its position at the southern tip of the Korean Peninsula in Northeast Asia, is a on the unique enclave of the many southern elements in the area and features a mixture of subtropical, temperate, boreal, and arctomontane taxa. Among the arctomontane species recorded in this study was ; among the temperate species was , and subtropical species were , , , and . A valuable species as first recorded for the Jeju Island is .

Ultrasonography of intrascrotal torsed appendages: size and interval between symptom onset and the ultrasonographic examination according to echogenicity.

Purpose: This study investigated the size of torsed appendages and the interval between symptom onset and the ultrasonographic examination according to the echogenicity of the torsed appendages.

Methods: This was a retrospective analysis of 54 cases in 46 patients with torsion of the testicular appendages between December 2008 and July 2021. Eight patients received follow-up ultrasonography 7-48 days after initial ultrasonography.

Downregulation of SETD5 Suppresses the Tumorigenicity of Hepatocellular Carcinoma Cells.

Hepatocellular carcinoma (HCC) is an aggressive and incurable cancer. Although understanding of the molecular pathogenesis of HCC has greatly advanced, therapeutic options for the disease remain limited. In this study, we demonstrated that SETD5 expression is positively associated with poor prognosis of HCC and that SETD5 depletion decreased HCC cell proliferation and invasion while inducing cell death.

Transcriptomic Analysis of Papillary Thyroid Cancer: A Focus on Immune-Subtyping, Oncogenic Fusion, and Recurrence.

Objectives: Thyroid cancer is the most common endocrine tumor, with rapidly increasing incidence worldwide. However, its transcriptomic characteristics associated with immunological signatures, driver fusions, and recurrence markers remain unclear. We aimed to investigate the transcriptomic characteristics of advanced papillary thyroid cancer.

Laryngopharyngeal reflux in chronic rhinosinusitis patients and the role of endoscopic sinus surgery.

Objectives: Latest literature proposes laryngopharyngeal reflux (LPR) as the underlying contributory factor for chronic inflammation in both upper and lower airways. In this study, we investigated LPR symptoms and signs of CRS patients and the various factors on their LPR symptoms and signs. We also evaluated the effect of the LPR symptoms and signs of CRS patients after endoscopic sinus surgery (ESS).

Integrating continental mainland and islands in temperate East Asia: liverworts and hornworts of the Korean Peninsula.

The liverwort and hornwort flora of the Korean Peninsula possesses some unique traits arising from the geographic position of the Peninsula, where the mainland flora meets insular flora. This flora is still not exhaustively studied, due not only to political reasons, but also because much less attention has been paid than to adjacent lands by hepaticologists. A checklist presented is based on a study of ca.

Revision of Gymnomitriaceae (Marchantiophyta) in the Korean Peninsula.

This paper provides a revision of and in the Korean Peninsula based on a study of the collections housed in the herbaria of Jeonbuk National University (JNU) and the Botanical Garden-Institute in Vladivostok (VBGI). In total, 12 species were recorded (six in and seven in ), including four taxa whose identity was not confirmed with the available materials and suspected to be recorded wrongly. Each confirmed species is annotated by morphological descriptions based on available Korean material, data on ecology, distribution, specimens examined as well as illustrations.

Comparison between MGI and Illumina sequencing platforms for whole genome sequencing.

Background: Illumina next generation sequencing (NGS) systems are the major sequencing platform in worldwide next-generation sequencing market. On the other hand, MGI Tech launched a series of new NGS equipment that promises to deliver high-quality sequencing data faster and at lower prices than Illumina's sequencing instruments.

Objective: In this study, we compared the performance of the two platform's major sequencing instruments-Illumina's NovaSeq 6000 and MGI's MGISEQ-2000 and DNBSEQ-T7-to test whether the MGISEQ-2000 and DNBSEQ-T7 sequencing instruments are also suitable for whole genome sequencing.

The complete chloroplast genome of the moss, (Schwägr.) Schimp. (Bryidae, Pterigynandraceae).

Here, we report the complete chloroplast (cp) genome of the moss (Schwägr.) Schimp. We found that the total length of the complete cp genome was 124,457 base pairs (bp) long, comprising 82 protein-coding genes, 36 tRNA genes, and 8 rRNA genes.

BaSDAS: a web-based pooled CRISPR-Cas9 knockout screening data analysis system.

We developed the BaSDAS (Barcode-Seq Data Analysis System), a GUI-based pooled knockout screening data analysis system, to facilitate the analysis of pooled knockout screen data easily and effectively by researchers with limited bioinformatics skills. The BaSDAS supports the analysis of various pooled screening libraries, including yeast, human, and mouse libraries, and provides many useful statistical and visualization functions with a user-friendly web interface for convenience. We expect that BaSDAS will be a useful tool for the analysis of genome-wide screening data and will support the development of novel drugs based on functional genomics information.

The complete chloroplast genome of a moss Korea (Hedw.) F. Weber & D. Mohr.

The complete chloroplast (cp) genome sequence of , determined using Illumina sequencing data, is presented herein. The DNA sequence of is 124,957 bp in length and has an overall CG content of 29.0%, including 82 protein-coding genes, 36 transfer RNA genes, and 8 ribosomal RNA genes.

Ethacrynic acid inhibits STAT3 activity through the modulation of SHP2 and PTP1B tyrosine phosphatases in DU145 prostate carcinoma cells.

To identify signal transducer and activator of transcription factor 3 (STAT3) inhibitors, we generated STAT3-dependent gene expression signature by analyzing gene expression profiles of DU145 cancer cells treated with STAT3 inhibitor, piperlongumine and 2-hydroxycinnamaldehyde. Then we explored gene expression signature-based strategies using a connectivity map database and identified several STAT3 inhibitors, including ethacrynic acid (EA). EA is currently used as a diuretic drug.

Pimozide suppresses cancer cell migration and tumor metastasis through binding to ARPC2, a subunit of the Arp2/3 complex.

ARPC2 is a subunit of the Arp2/3 complex, which is essential for lamellipodia, invadopodia and filopodia, and ARPC2 has been identified as a migrastatic target molecule. To identify ARPC2 inhibitors, we generated an ARPC2 knockout DLD-1 human colon cancer cell line using the clustered regularly interspaced short palindromic repeats/CRISPR-associated protein 9 (CRISPR/Cas9) system and explored gene signature-based strategies, such as a connectivity map (CMap) using the gene expression profiling data of ARPC2 knockout and knockdown cells. From the CMap-based drug discovery strategy, we identified pimozide (a clinically used antipsychotic drug) as a migrastatic drug and ARPC2 inhibitor.

GENT2: an updated gene expression database for normal and tumor tissues.

Background: Gene Expression database of Normal and Tumor tissues 2 (GENT2) is an updated version of GENT, which has provided a user-friendly search platform for gene expression patterns across different normal and tumor tissues compiled from public gene expression data sets.

Results: We refactored GENT2 with recent technologies such as Apache Lucene indexing for fast search and Google Web Toolkit (GWT) framework for a user-friendly web interface. Now, GENT2 contains more than 68,000 samples and has several new useful functions.

Lactate Activates the E2F Pathway to Promote Cell Motility by Up-Regulating Microtubule Modulating Genes.

Excess lactate production due to enhanced aerobic glycolysis is characteristic of malignant cancers, which is also intimately associated with poor cancer prognoses. Although tumor-associated lactate contributes to all major steps in carcinogenesis, its action mechanism remains obscure. To understand the molecular mechanism of the lactate-induced tumor metastatic process, we identified an array of lactate-responsive genes via transcriptome analysis of a metformin-induced hyper-glycolytic liver cancer model.

Comparison of Clinical Presentation and Surgical Outcomes Between Recurrent Acute Rhinosinusitis and Chronic Rhinosinusitis.

Introduction: The authors assessed clinical presentations and anatomic variants among patients with recurrent acute rhinosinusitis (RARS), chronic rhinosinusitis (CRS) without nasal polyps (CRSsNP), and CRS with nasal polyps (CRSwNP). Additionally, differences in the postoperative improvement of each category were evaluated.

Methods: The authors performed an analysis of 304 patients who underwent endoscopic sinus surgery.

A ChIP-Seq Data Analysis Pipeline Based on Bioconductor Packages.

Nowadays, huge volumes of chromatin immunoprecipitation-sequencing (ChIP-Seq) data are generated to increase the knowledge on DNA-protein interactions in the cell, and accordingly, many tools have been developed for ChIP-Seq analysis. Here, we provide an example of a streamlined workflow for ChIP-Seq data analysis composed of only four packages in Bioconductor: dada2, QuasR, mosaics, and ChIPseeker. 'dada2' performs trimming of the high-throughput sequencing data.

Comparisons of Subthreshold Versus Full Posttraumatic Stress Disorder Distinguished by Subjective Functional Impairment Among Train Drivers: A Population-Based Nationwide Study in South Korea.

Objective: Subthreshold posttraumatic stress disorder (SPTSD), a condition that meets the full symptomatic criteria of posttraumatic stress disorder (PTSD) without subjective functional impairment, has yet to be fully investigated. In this study, we aimed to determine the prevalence and characteristics of SPTSD.

Methods: The web-based survey including psychiatric diagnosis and experience of human error was conducted in actively working train drivers in South Korea.

The change of pain and lumbosacral sagittal alignment after sling exercise therapy for patients with chronic low back pain.

[Purpose] This study was conducted to quantify the effect of sling exercise therapy in the recovery of lumbosacral sagittal alignment (LSA) and in the control of low back pain. [Subjects and Methods] A total of 102 chronic low back pain patients were divided into two groups, a physical therapy group and a sling exercise group. In both groups, programs were conducted thrice a week for twelve weeks.