54 Works

Data from: Screening of cytotoxic or cytostatic flavonoids with quantitative FUCCI-based cell cycle assay

Young-Hyun Go, Hyo-Ju Lee, Hyeon-Joon Kong, Ho-Chang Jeong, Dong Young Lee, Soon-Ki Hong, Sang Hyun Sung, Ok-Seon Kwon & Hyuk-Jin Cha
The Fluorescence-Ubiquitin Cell Cycle Indicator (FUCCI) system can be used not only to study gene expression at a specific cell cycle stage, but also to monitor cell cycle transitions in real time. In this study, we used a single clone of FUCCI-expressing HeLa cells (FUCCI-HeLa cells) and monitored the cell cycle in individual live cells over time by determining the ratios between red fluorescence (RF) of RFP-Cdt1 and green fluorescence (GF) of GFP-Geminin. Cytotoxic and...

Data from: The impact of tropical forest logging and oil palm agriculture on the soil microbiome

Binu M. Tripathi, David P. Edwards, Lucas William Mendes, Mincheol Kim, Ke Dong, Hyoki Kim & Jonathan M. Adams
Selective logging and forest conversion to oil palm agriculture are rapidly altering tropical forests. However, functional responses of the soil microbiome to these land-use changes are poorly understood. Using 16S rRNA gene and shotgun metagenomic sequencing, we compared composition and functional attributes of soil biota between unlogged, once-logged and twice-logged rainforest, and areas converted to oil palm plantations in Sabah, Borneo. Although there was no significant effect of logging history, we found a significant difference...

Data from: Long-term safety and effectiveness of growth hormone therapy in Korean children with growth disorders: 5-year results of LG Growth Study

Young-Jun Rhie, Jae-Ho Yoo, Jin-Ho Choi, Hyun-Wook Chae, Jae Hyun Kim, Sochung Chung, , Choong Ho Shin, Eun Young Kim & Ho-Seong Kim
Purpose The aim of this registry study was to analyze the long-term safety and effectiveness of recombinant human growth hormone (rhGH) in South Korean pediatric patients (≥2 years of age) with growth hormone deficiency GHD) of idiopathic or organic etiology, idiopathic short stature, Turner syndrome, small for gestational age and chronic renal failure. Methods The study patients were followed-up till two years after the epiphyseal closure, with visits scheduled every six months. The outcome measures...

Data from: Size, shape, and systematics of the Silurian trilobite Aulacopleura koninckii

Paul S. Hong, Nigel C. Hughes & H. David Sheets
A new dataset of the highest quality specimens of fully articulated, juvenile and mature exoskeletons of the Czech middle Silurian trilobite Aulacopleura koninckii offers improved resolution of original morphology by all measures considered. The degree of variation in both size and shape among later meraspid instars was constant, and suggesting targeted growth in both attributes. Size-related changes in the shape of the dorsal exoskeleton and of the segment-invariant cephalon were detected in the meraspid stage,...

Data from: Susceptibility of amphibians to chytridiomycosis is associated with MHC class II conformation

Arnaud Bataille, Scott D. Cashins, Laura Grogan, Lee F. Skerratt, David Hunter, Michael McFaddan, Benjamin Scheele, Laura A. Brannelly, Amy Macris, Peter S. Harlow, Sara Bell, Lee Berger & Bruce Waldman
The pathogenic chytrid fungus Batrachochytrium dendrobatidis (Bd) can cause precipitous population declines in its amphibian hosts. Responses of individuals to infection vary greatly with the capacity of their immune system to respond to the pathogen. We used a combination of comparative and experimental approaches to identify major histocompatibility complex class II (MHC-II) alleles encoding molecules that foster the survival of Bd-infected amphibians. We found that Bd-resistant amphibians across four continents share common amino acids in...

Data from: Major histocompatibility complex selection dynamics in pathogen-infected túngara frog (Physalaemus pustulosus) populations

Tiffany A. Kosch, Arnaud Bataille, Chelsea Didinger, John A. Eimes, Sofia Rodríguez-Brenes, Michael J. Ryan & Bruce Waldman
Pathogen-driven selection can favour major histocompatibility complex (MHC) alleles that confer immunological resistance to specific diseases. However, strong directional selection should deplete genetic variation necessary for robust immune function in the absence of balancing selection or challenges presented by other pathogens. We examined selection dynamics at one MHC class II (MHC-II) locus across Panamanian populations of the túngara frog, Physalaemus pustulosus, infected by the amphibian chytrid fungus Batrachochytrium dendrobatidis (Bd). We compared MHC-II diversity in...

Data from: Trichobaris weevils distinguish amongst toxic host plants by sensing volatiles that do not affect larval performance

Gisuk Lee, Youngsung Joo, Celia Diezel, Eun Ju Lee, Ian T. Baldwin & Sang-Gyu Kim
Herbivorous insects use plant metabolites to inform their host plant selection for oviposition. These host-selection behaviours are often consistent with the preference–performance hypothesis; females oviposit on hosts that maximize the performance of their offspring. However, the metabolites used for these oviposition choices and those responsible for differences in offspring performance remain unknown for ecologically relevant interactions. Here, we examined the host-selection behaviours of two sympatric weevils, the Datura (Trichobaris compacta) and tobacco (T. mucorea) weevils...

Structural implications of traditional agricultural landscapes on the functional diversity of birds near the Korean Demilitarized Zone

Jae Hyun Kim, Shinyeong Park, Seung Ho Kim, Keunwon Kang, Bruce Waldman, Myung Hwa Lee, Minhye Yu, Hyunyoung Yang, Hyun Yong Chung & Eun Ju Lee
Bird assemblages are sensitive to changes in landscape composition and the environment, such as those that result from drought. In this study, the relationship between landscape composition and avian functional diversity in traditional agricultural ecosystems in the Civilian Control Zone (CCZ) of Korea was examined. In addition, the resilience of biodiversity to changes in landscape elements resulting from drought conditions was investigated. The traditional agricultural landscape (TAL) of the sites studied was divided into three...

Dataset: Direct determination of structural heterogeneity in metallic glasses using four-dimensional scanning transmission electron microscopy

Soohyun Im, Zhen Chen, Jared M. Johnson, Pengyang Zhao, Geun Hee Yoo, Eun Soo Park, Yunzhi Wang, David Muller & Jinwoo Hwang

Competing controls of fluid overpressurization and chloritization on strength and instability of faults in granite: Implications for seismicity triggered by fluid-injection

Fengshou Zhang, Rui Huang, Mengke An, Ki-Bok Min, Derek Elsworth, Hannes Hofmann & Xiaoguang Wang
Fluids injection for hydraulic stimulation and fracturing, typical in the development of enhanced geothermal systems (EGS) in granites, can reactivate deep faults and induce seismicity. Such faults typically contain chlorite coatings as an alteration product that may impact styles of deformation – aseismic through seismic. We performed shear experiments on simulated granite fault gouges under conditions typifying a geothermal reservoir at ~4 km depth with a confining pressure of 110 MPa, a temperature of 150℃,...

Data from: Automatic segmentation of multiple cardiovascular structures from cardiac computed tomography angiography images using deep learning

Lohendran Baskaran, Subhi J. Al’Aref, Gabriel Maliakal, Benjamin C. Lee, Zhuoran Xu, Jeong W. Choi, Sang-Eun Lee, Ji Min Sung, Fay Y. Lin, Simon Dunham, Bobak Mosadegh, Yong-Jin Kim, Ilan Gottlieb, Byoung Kwon Lee, Eun Ju Chun, Filippo Cademartiri, Erica Maffei, Hugo Marques, Sanghoon Shin, Jung Hyun Choi, Kavitha Chinnaiyan, Martin Hadamitzky, Edoardo Conte, Daniele Andreini, Gianluca Pontone … & Leslee J. Shaw
Objectives: To develop, demonstrate and evaluate an automated deep learning method for multiple cardiovascular structure segmentation. Background: Segmentation of cardiovascular images is resource-intensive. We design an automated deep learning method for the segmentation of multiple structures from Coronary Computed Tomography Angiography (CCTA) images. Methods: Images from a multicenter registry of patients that underwent clinically-indicated CCTA were used. The proximal ascending and descending aorta (PAA, DA), superior and inferior vena cavae (SVC, IVC), pulmonary artery (PA),...

The potential for low-grade metamorphism to facilitate fault instability in a geothermal reservoir

Mengke An, Fengshou Zhang, Ki-Bok Min, Derek Elsworth, Chris Marone & Changrong He
Swarms of earthquakes during shale gas exploitation in the Changning area of the Sichuan Basin indicate that hydraulic fracturing induces seismicity both within the target reservoir formation but also to depths of several kilometers below the horizontal well. These remote earthquakes are possibly triggered by total stress perturbations resulting from the hydraulic fracturing. We use a dislocation-based analytical model to simulate multistage hydraulic fracturing of three horizontal wells at a single well pad to explore...

Data from: In vivo tracking of dendritic cell using MRI reporter gene, ferritin

Hoe Suk Kim, Jisu Woo, Jae Hoon Lee, Hyun Jung Joo, YoonSeok Choi, Hyeonjin Kim, Woo Kyung Moon & Seung Ja Kim
The noninvasive imaging of dendritic cells (DCs) migrated into lymph nodes (LNs) can provide helpful information on designing DCs-based immunotherapeutic strategies. This study is to investigate the influence of transduction of human ferritin heavy chain (FTH) and green fluorescence protein (GFP) genes on inherent properties of DCs, and the feasibility of FTH as a magnetic resonance imaging (MRI) reporter gene to track DCs migration into LNs. FTH-DCs were established by the introduction of FTH and...

Data from: Assimilating MODIS data-derived minimum input data set and water stress factors into CERES-Maize model improves regional corn yield predictions

Ho-Young Ban, Joong-Bae Ahn & Byun-Woo Lee
Crop growth models and remote sensing are useful tools for predicting crop growth and yield, but each tool has inherent drawbacks when predicting crop growth and yield at a regional scale. To improve the accuracy and precision of regional corn yield predictions, a simple approach for assimilating Moderate Resolution Imaging Spectroradiometer (MODIS) products into a crop growth model was developed, and regional yield prediction performance was evaluated in a major corn-producing state, Illinois, USA. Corn...

Data from: Using the generalized index of dissimilarity to detect gene-gene interactions in multi-class phenotypes

Jaeyong Yee, Yongkang Kim, Taesung Park & Mira Park
To find genetic association between complex diseases and phenotypic traits, one important procedure is conducting a joint analysis. Multifactor dimensionality reduction (MDR) is an efficient method of examining the interactions between genes in genetic association studies. It commonly assumes a dichotomous classification of the binary phenotypes. Its usual approach to determining the genomic association is to construct a confusion matrix to estimate a classification error, where a binary risk status is determined and assigned to...

Data from: Human circulating antibody-producing B cell as a predictive measure of mucosal immunity to poliovirus

Ayan Dey, Natalie A. Molodecky, Harish Verma, Prashant Sharma, Jae Seung Yang, Giulietta Saletti, Mohammad Ahmad, Sunil K. Bahl, Thomas F. Wierzba, Ranjan K. Nandy, Jagadish M. Deshpande, Roland W. Sutter & Cecil Czerkinsky
Background: The "gold standard" for assessing mucosal immunity after vaccination with poliovirus vaccines consists in measuring virus excretion in stool after challenge with oral poliovirus vaccine (OPV). This testing is time and resource intensive, and development of alternative methods is a priority for accelerating polio eradication. We therefore evaluated circulating antibody-secreting cells (ASCs) as a potential means to evaluate mucosal immunity to poliovirus vaccine. Methods: 199 subjects, aged 10 years, and previously immunized repeatedly with...

Data from: Pulmonary nodule detection in patients with a primary malignancy using hybrid PET/MRI: is there value in adding contrast-enhanced MR imaging?

Kyung Hee Lee, Chang Min Park, Sang Min Lee, Jeong Min Lee, Jeong Yeon Cho, Jin Chul Paeng, Su Yeon Ahn & Jin Mo Goo
Purpose: To investigate the added value of post-contrast VIBE (volumetric-interpolated breath-hold examination) to PET/MR imaging for pulmonary nodule detection in patients with primary malignancies. Materials and Methods: This retrospective institutional review board–approved study, with waiver of informed consent, included 51 consecutive patients who underwent 18F-fluorodeoxyglucose (FDG) PET/MR followed by PET/CT for cancer staging. In all patients, the thorax was examined with pre-and post-contrast VIBE MR with simultaneous PET acquisition. Two readers blinded to the patients’...

Data from: Sublingual immunotherapy (SLIT) for house dust mites does not prevent new allergen sensitization and bronchial hyper-responsiveness in allergic rhinitis children

Jae Hyun Lim, Jin Youp Kim, Doo Hee Han, Chul Hee Lee, Seung-No Hong, Jee Hye Wee, Sue K. Park & Chae-Seo Rhee
Introduction: The aim of this study is to identify the effects of sublingual immunotherapy (SLIT) on immunologic parameters and bronchial-hyper-responsiveness in children with allergic rhinitis to house-dust mite (HDM), through long-term follow-up cohort. Methods: Among the Allergic Rhinitis Cohort Study for Kids, pediatric patients who visited the hospital for rhinitis symptoms and proven allergy to HDM through skin prick test were studied. In this cohort, 37 patients received SLIT more than 3-years (SLIT group), and...

Data from: Alternative reproductive tactics shape within-species variation in behavioural syndromes

Chang S. Han & Piotr G. Jablonski
Multiple behaviours can correlate with each other at the individual level (behavioural syndrome), and behavioural syndromes can vary in their direction between populations within a species. Within-species variation in behavioural syndromes is predicted to be associated with alternative reproductive tactics (ARTs) which evolve under different selection regimes. Here we tested this using a water strider species, Gerris gracilicornis, in which males employ two ARTs that are fixed for life: signalling males (producing courtship ripples) versus...

Data from: Systematic revision of Symbiodiniaceae highlights the antiquity and diversity of coral endosymbionts

Todd C. LaJeunesse, John Everett Parkinson, Paul W. Gabrielson, Hae Jin Jeong, James Davis Reimer, Christian R. Voolstra & Scott R. Santos
The advent of molecular data has transformed the science of organizing and studying life on Earth. Genetics-based evidence provides fundamental insights into the diversity, ecology, and origins of many biological systems, including the mutualisms between metazoan hosts and their micro-algal partners. A well-known example is the dinoflagellate endosymbionts (“zooxanthellae”) that power the growth of stony corals and coral reef ecosystems. Once assumed to encompass a single panmictic species, genetic evidence has revealed a divergent and...

Data from: Bisphenol A promotes the invasive and metastatic potential of ductal carcinoma in situ and pro-tumorigenic polarization of macrophages

Hyelim Kim, Hoe Suk Kim, Yin Ji Piao & Woo Kyung Moon
Increased cancer risk and immune disorders linked with exposure to environmental endocrine disruptors like bisphenol A (BPA) have been steadily reported. Nevertheless, the impacts of BPA on the breast ductal carcinoma in situ (DCIS) progression and macrophage polarization remain to be elucidated. Here, we analyzed the differentially expressed genes in BPA-exposed DCIS cells and explored BPA effects on DCIS progression and macrophage polarization in vitro and in vivo. 291 genes were differentially expressed in 10-8...

Data from: A phylogenomic approach to vertebrate phylogeny supports a turtle-archosaur affinity and a possible paraphyletic Lissamphibia

Jonathan J. Fong, Jeremy M. Brown, Matthew K. Fujita & Bastien Boussau
In resolving the vertebrate tree of life, two fundamental questions remain: 1) what is the phylogenetic position of turtles within amniotes, and 2) what are the relationships between the three major lissamphibian (extant amphibian) groups? These relationships have historically been difficult to resolve, with five different hypotheses proposed for turtle placement, and four proposed branching patterns within Lissamphibia. We compiled a large cDNA/EST dataset for vertebrates (75 genes for 129 taxa) to address these outstanding...

Data from: Cambrian series 3 agnostoid trilobites Ptychagnostus sinicus and Ptychagnostus atavus from the Machari Formation, Yeongwol Group, Taebaeksan Basin, Korea

Paul S. Hong & Duck K. Choi
This paper reports the successive occurrence of Ptychagnostus sinicus Lu, 1957 and Ptychagnostus atavus (Tullberg, 1880) from the lower part of the Machari Formation, Yeongwol Group, Korea. Morphometric approaches of using the landmark and principal component analyses make it possible to differentiate P. sinicus from P. atavus with clarity: pygidia of P. sinicus have a relatively narrow M1, a transverse F2, and a weakly developed M2 tubercle, whereas those of P. atavus are characterized by...

Data from: Electron backscatter diffraction (EBSD) analysis of maniraptoran eggshells with important implications for microstructural and taphonomic interpretations

Seung Choi, Seokyoung Han & Yuong-Nam Lee
Electron backscatter diffraction (EBSD) is a useful tool for gathering crystallographic information from carbonate biominerals because it maps out the orientation of crystal grains very precisely. EBSD has become popular in invertebrate palaeontology but its application in vertebrate palaeontology remains limited. However, the study of fossil eggshells is a field where EBSD has wide potential applicability and provides a quantitative approach to fossil eggshell research as well as new qualitative data. Here we analyse fossil...

Data from: Pathology in repeated transurethral resection of a bladder tumor as a risk factor for prognosis of high-risk non-muscle-invasive bladder cancer

Bum Sik Tae, Chang Wook Jeong, Cheol Kwak, Hyeon Hoe Kim, Kyung Chul Moon & Ja Hyeon Ku
The prognostic value of repeat transurethral resection of bladder tumor (TURBT) in patients with diagnosed high-risk, non-muscle-invasive bladder cancer (NMIBC) was investigated. We retrospectively reviewed the medical records of patients treated from October 2004 to December 2013 at Seoul National University who underwent repeated TURBT within 2–6 weeks after an initial resection. The study enrolled patients who had been diagnosed with NMIBC at both the initial and repeat TURBT; patients with muscle-invasive tumors on repeat...

Registration Year

  • 2022
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  • 2012

Resource Types

  • Dataset


  • Seoul National University
  • Seoul National University Hospital
  • Seoul National University Bundang Hospital
  • Yonsei University
  • Korea University
  • Pennsylvania State University
  • Konkuk University
  • Tongji University
  • Universidade Nova de Lisboa
  • Louisiana State University of Alexandria