71 Works

Data from: Comparing two classes of alpha diversities and their corresponding beta and (dis)similarity measures, with an application to the Formosan sika deer (Cervus nippon taiouanus) reintroduction program

Anne Chao, Chun-Huo Chiu, Shu-Hui Wu, Chun-Lin Huang & Yiching Lin
1. Diversity partitioning, which decomposes gamma diversity into alpha and beta components, is commonly used to obtain measures that quantify spatial/temporal diversity and compositional similarity or dissimilarity among assemblages. We focus on the decomposition of diversity as measured by Hill numbers (parameterized by a diversity order q≧0). 2. At least three diversity-partitioning schemes based on Hill numbers have been proposed. These schemes differ in the way they formulate alpha diversity. We focus on comparing two...

Genome-centric insight into metabolically active microbial population in shallow-sea hydrothermal vents

Xiaofeng Chen, Kai Tang, Mu Zhang, Shujing Liu, Mingming Chen, Peiwen Zhan, Wei Fan, Chen-Tung Arthur Chen & Yao Zhang
Abstract Background Geothermal systems have contributed greatly to both our understanding of the functions of extreme life and the evolutionary history of life itself. Shallow-sea hydrothermal systems are ecological intermediates of deep-sea systems and terrestrial springs, harboring unique and complexed ecosystems, which are well-lit and present physicochemical gradients. The microbial communities of deep-sea and terrestrial geothermal systems have been well-studied at the population genome level, yet little is known about the communities inhabiting the shallow-sea...

Use of multimodal dataset in AI for detecting glaucoma based on fundus photographs assessed with OCT: focus group study on high prevalence of myopia

Wee Shin Lim, Heng-Yen Ho, Heng-Chen Ho, Yan-Wu Chen, Chih-Kuo Lee, Pao-Ju Chen, Feipei Lai, Jyh-Shing Roger Jang & Mei-Lan Ko
Abstract Background Glaucoma is one of the major causes of blindness; it is estimated that over 110 million people will be affected by glaucoma worldwide by 2040. Research on glaucoma detection using deep learning technology has been increasing, but the diagnosis of glaucoma in a large population with high incidence of myopia remains a challenge. This study aimed to provide a decision support system for the automatic detection of glaucoma using fundus images, which can...

Use of multimodal dataset in AI for detecting glaucoma based on fundus photographs assessed with OCT: focus group study on high prevalence of myopia

Wee Shin Lim, Heng-Yen Ho, Heng-Chen Ho, Yan-Wu Chen, Chih-Kuo Lee, Pao-Ju Chen, Feipei Lai, Jyh-Shing Roger Jang & Mei-Lan Ko
Abstract Background Glaucoma is one of the major causes of blindness; it is estimated that over 110 million people will be affected by glaucoma worldwide by 2040. Research on glaucoma detection using deep learning technology has been increasing, but the diagnosis of glaucoma in a large population with high incidence of myopia remains a challenge. This study aimed to provide a decision support system for the automatic detection of glaucoma using fundus images, which can...

Additional file 1 of Use of multimodal dataset in AI for detecting glaucoma based on fundus photographs assessed with OCT: focus group study on high prevalence of myopia

Wee Shin Lim, Heng-Yen Ho, Heng-Chen Ho, Yan-Wu Chen, Chih-Kuo Lee, Pao-Ju Chen, Feipei Lai, Jyh-Shing Roger Jang & Mei-Lan Ko
Additional file 1. Images preprocessing procedure.

Additional file 3 of Use of multimodal dataset in AI for detecting glaucoma based on fundus photographs assessed with OCT: focus group study on high prevalence of myopia

Wee Shin Lim, Heng-Yen Ho, Heng-Chen Ho, Yan-Wu Chen, Chih-Kuo Lee, Pao-Ju Chen, Feipei Lai, Jyh-Shing Roger Jang & Mei-Lan Ko
Additional file 3. Evaluation metrics equations.

Additional file 1 of Case report: novel PCDH15 variant causes usher syndrome type 1F with congenital hearing loss and syndromic retinitis pigmentosa

Nelson Chen, Hane Lee, Angela H. Kim, Pei-Kang Liu, Eugene Yu-Chuan Kang, Yun-Ju Tseng, Go Hun Seo, Rin Khang, Laura Liu, Kuan-Jen Chen, We-Chi Wu, Meng-Chang Hsiao & Nan-Kai Wang
Additional file 1: Supplementary Fig. 1. Full-field electroretinography (ffERG) at presentation shows extinguished rod response, combined rod-cone response, cone response and 30 Hz flicker response in both eyes.

Data from: Biogeography of the Phalaenopsis amabilis species complex inferred from nuclear and plastid DNAs

Chi-Chu Tsai, Chang-Hung Chou, Hao-Ven Wang, Ya-Zhu Ko, Tzen-Yuh Chiang & Yu-Chung Chiang
Background: Phalaenopsis is one of the important commercial orchids in the world. Members of the P. amabilis species complex represent invaluable germplasm for the breeding program. However, the phylogeny of the P. amabilis species complex is still uncertain. The Phalaenopsis amabilis species complex (Orchidaceae) consists of subspecies amabilis, moluccana, and rosenstromii of P. amabilis, as well as P. aphrodite ssp. aphrodite, P. ap. ssp. formosana, and P. sanderiana. The aims of this study were to...

Species packing and the latitudinal gradient in local beta-diversity

Ke Cao, Richard Condit, Xiangcheng Mi, Lei Chen, Wubing Xu, David F. R. P. Burslem, Chunrong Cai, Min Cao, Li-Wan Chang, Chengjin Chu, Hu Du, Sisira Ediriweera, C. S. V. Gunatilleke, I. U. A. N. Gunatilleke, Zhanqing Hao, Jinbo Li, Guangze Jin, Buhang Li, Yankun Liu, Yide Li, Michael J. O'Brien, Xiujuan Qiao, Hongwei Ni, Guochun Shen, Xihua Wang … & Jens-Christian Svenning
The decline in species richness at higher latitudes is among the most fundamental patterns in ecology. Whether changes in species composition across space (beta-diversity) contribute to this gradient of overall local species richness (gamma diversity) remains hotly debated. Previous studies that failed to resolve the issue suffered from a well-known tendency for small samples in areas with high gamma-diversity to have inflated measures of beta-diversity. We provide here a novel analytical test, using beta-diversity metrics...

Additional file 5 of Genome-centric insight into metabolically active microbial population in shallow-sea hydrothermal vents

Xiaofeng Chen, Kai Tang, Mu Zhang, Shujing Liu, Mingming Chen, Peiwen Zhan, Wei Fan, Chen-Tung Arthur Chen & Yao Zhang
Additional file 5: Table S4. Relative abundance (reads per kilobase per million mapped reads, RPKM) of selected key genes in metagenomic datasets.

Additional file 7 of Genome-centric insight into metabolically active microbial population in shallow-sea hydrothermal vents

Xiaofeng Chen, Kai Tang, Mu Zhang, Shujing Liu, Mingming Chen, Peiwen Zhan, Wei Fan, Chen-Tung Arthur Chen & Yao Zhang
Additional file 7: Table S6. Proteins identified from microbes at shallow-vents and their functional annotations and abundances.

Additional file 7 of Genome-centric insight into metabolically active microbial population in shallow-sea hydrothermal vents

Xiaofeng Chen, Kai Tang, Mu Zhang, Shujing Liu, Mingming Chen, Peiwen Zhan, Wei Fan, Chen-Tung Arthur Chen & Yao Zhang
Additional file 7: Table S6. Proteins identified from microbes at shallow-vents and their functional annotations and abundances.

Additional file 8 of Genome-centric insight into metabolically active microbial population in shallow-sea hydrothermal vents

Xiaofeng Chen, Kai Tang, Mu Zhang, Shujing Liu, Mingming Chen, Peiwen Zhan, Wei Fan, Chen-Tung Arthur Chen & Yao Zhang
Additional file 8: Table S7. Genomic and proteomic information of 20 MAGs recovered in this study.

Additional file 2 of Genome-centric insight into metabolically active microbial population in shallow-sea hydrothermal vents

Xiaofeng Chen, Kai Tang, Mu Zhang, Shujing Liu, Mingming Chen, Peiwen Zhan, Wei Fan, Chen-Tung Arthur Chen & Yao Zhang
Additional file 2: Table S1. Genome statistics for MAGs.

Additional file 1 of Comparing efficacy of a single intraarticular injection of platelet-rich plasma (PRP) combined with different hyaluronans for knee osteoarthritis: a randomized-controlled clinical trial

Hung-Ya Huang, Chien-Wei Hsu, Guan-Chyun Lin, Huey-Shyan Lin, Yi-Jiun Chou, I-Hsiu Liou & Shu-Fen Sun
Additional file 1.

Comparing efficacy of a single intraarticular injection of platelet-rich plasma (PRP) combined with different hyaluronans for knee osteoarthritis: a randomized-controlled clinical trial

Hung-Ya Huang, Chien-Wei Hsu, Guan-Chyun Lin, Huey-Shyan Lin, Yi-Jiun Chou, I-Hsiu Liou & Shu-Fen Sun
Abstract Background Intraarticular plasma-rich platelet (PRP) and hyaluronic acid (HA) have each been shown to be effective for treating knee osteoarthritis (OA). Evidence supporting the combination therapy is controversial. This study aimed to investigate the efficacy of a single intraarticular PRP injection combined with different HAs in patients with knee OA. Methods In this prospective randomized-controlled trial, 99 patients with Kellgren-Lawrence grade 2 knee OA with average knee pain ≥ 30 mm on a 0-100...

Additional file 11 of Use of multimodal dataset in AI for detecting glaucoma based on fundus photographs assessed with OCT: focus group study on high prevalence of myopia

Wee Shin Lim, Heng-Yen Ho, Heng-Chen Ho, Yan-Wu Chen, Chih-Kuo Lee, Pao-Ju Chen, Feipei Lai, Jyh-Shing Roger Jang & Mei-Lan Ko
Additional file 11. Publics dataset testing results and error analysis. Additional File Table 8. The test results of different Kaggle datasets with different models.

Additional file 9 of Use of multimodal dataset in AI for detecting glaucoma based on fundus photographs assessed with OCT: focus group study on high prevalence of myopia

Wee Shin Lim, Heng-Yen Ho, Heng-Chen Ho, Yan-Wu Chen, Chih-Kuo Lee, Pao-Ju Chen, Feipei Lai, Jyh-Shing Roger Jang & Mei-Lan Ko
Additional file 9. Comparison with currently used methods. Additional File Table 6, Comparison with currently used methods.

Extra high superoxide dismutase in host tissue upgrades bleaching resistance in the “thermal adapted” and Durusdinium trenchii-associating coral

Jih-Terng Wang, Yu-Ting Wang, Allen Chen, Pei-Jei Meng, Kwee Siong Tew, Pei-Wen Chiang & Sen-Lin Tang
Global warming threatens reef-building corals with large scale bleaching events. Before being too late, uncovering potential adaptive capabilities to increasing temperature becomes one of the major thinking of saving corals. This study presents two coral species (Platygyra verweyi and Isopora palifera) surviving from a reef with regular hot water influx via a nearby nuclear power plant exhibited completely different bleaching susceptibility to acute thermal stress, even though both species shared several so-called “winner” characteristics (e.g.,...

Closing the life cycle of forest trees: The difficult dynamics of seedling-to-sapling transitions in a subtropical rain forest

Chia-Hao Chang-Yang, Jessica Needham, Chia-Ling Lu, Chang-Fu Hsieh, I-Fang Sun & Sean McMahon
1. Experimental and observational studies on seedling dynamics posit mechanisms that can influence forest diversity, structure, and function. However, high mortality and slow growth of seedlings make it difficult to evaluate the importance of this life-history filter to total tree life history. Quantifying the duration and transition of the seedling phase would help us understand this ‘black box’ in tree population biology. 2. We used a 16-year dataset of comprehensive seedling-to-sapling demography from a subtropical...

Demographic rates and stature of tree species in 13 sub-tropical forests: annual growth, annual survival, annual recruitment >( 1 cm dbh), stature (max dbh)

Stephan Kambach, Richard Condit, Salomón Aguilar, Helge Bruelheide, Sarayudh Bunyavejchewin, Chia-Hao Chang-Yang, Yu-Yun Chen, George Chuyong, Stuart J. Davies, Sisira Ediriweera, Corneille E. N. Ewango, Edwino S. Fernando, Nimal Gunatilleke, Savitri Gunatilleke, Stephen P Hubbell, Akira Itoh, David Kenfack, Somboon Kiratiprayoon, Yi-Ching Lin, Jean-Remy Makana, Mohizah Bt. Mohamad, Nantachai Pongpattananurak, Rolando Pérez, Lillian Jennifer V. Rodriguez, I-Fang Sun … & Nadja Rüger
Organisms of all species must balance their allocation to growth, survival and recruitment. Among tree species, evolution has resulted in different life-history strategies for partitioning resources to these key demographic processes. Life-history strategies in tropical forests have often been shown to align along a trade-off between fast growth and high survival, i.e. the well-known fast-slow continuum. In addition, an orthogonal trade-off has been proposed between tall stature – resulting from fast growth and high survival...

Additional file 5 of Genome-centric insight into metabolically active microbial population in shallow-sea hydrothermal vents

Xiaofeng Chen, Kai Tang, Mu Zhang, Shujing Liu, Mingming Chen, Peiwen Zhan, Wei Fan, Chen-Tung Arthur Chen & Yao Zhang
Additional file 5: Table S4. Relative abundance (reads per kilobase per million mapped reads, RPKM) of selected key genes in metagenomic datasets.

Additional file 1 of Genome-centric insight into metabolically active microbial population in shallow-sea hydrothermal vents

Xiaofeng Chen, Kai Tang, Mu Zhang, Shujing Liu, Mingming Chen, Peiwen Zhan, Wei Fan, Chen-Tung Arthur Chen & Yao Zhang
Additional file 1: Fig. S1. Fragment recruitment analysis. Fig. S2. The relative abundance of transporter proteins in metaproteome. Fig. S3. Profiles of transporter genes in the assembled MAGs within Epsilonbacteraeota and Gammaproteobacteria.

Genome-centric insight into metabolically active microbial population in shallow-sea hydrothermal vents

Xiaofeng Chen, Kai Tang, Mu Zhang, Shujing Liu, Mingming Chen, Peiwen Zhan, Wei Fan, Chen-Tung Arthur Chen & Yao Zhang
Abstract Background Geothermal systems have contributed greatly to both our understanding of the functions of extreme life and the evolutionary history of life itself. Shallow-sea hydrothermal systems are ecological intermediates of deep-sea systems and terrestrial springs, harboring unique and complexed ecosystems, which are well-lit and present physicochemical gradients. The microbial communities of deep-sea and terrestrial geothermal systems have been well-studied at the population genome level, yet little is known about the communities inhabiting the shallow-sea...

Case report: novel PCDH15 variant causes usher syndrome type 1F with congenital hearing loss and syndromic retinitis pigmentosa

Nelson Chen, Hane Lee, Angela H. Kim, Pei-Kang Liu, Eugene Yu-Chuan Kang, Yun-Ju Tseng, Go Hun Seo, Rin Khang, Laura Liu, Kuan-Jen Chen, We-Chi Wu, Meng-Chang Hsiao & Nan-Kai Wang
Abstract Background Usher syndrome (USH) is an autosomal recessive disorder primarily responsible for deaf-blindness. Patients with subtype Usher syndrome type 1 (USH1) typically experience congenital sensorineural hearing loss, abnormal vestibular function, and retinitis pigmentosa (RP). Here we present a case of Usher syndrome type 1F (USH1F) with a novel homozygous variant in the calcium-dependent cell-cell adhesion protocadherin-15 (PCDH15) gene. Case presentation Ophthalmic examinations were evaluated over a course of 10 years and the disease-causing variant...

Registration Year

  • 2022
    65
  • 2021
    3
  • 2019
    2
  • 2015
    1

Resource Types

  • Text
    30
  • Dataset
    27
  • Collection
    10
  • Image
    4

Affiliations

  • National Sun Yat-sen University
    71
  • Zhejiang University
    25
  • Affiliated Hospital of Southwest Medical University
    24
  • Agricultural University of Hebei
    24
  • Southwest Medical University
    24
  • Xiamen University
    24
  • Huazhong University of Science and Technology
    24
  • Fudan University
    24
  • North China University of Technology
    24
  • Shanghai Jiao Tong University
    24