ZenoFishDb v1.1: A Database for Xenotransplantation Studies in Zebrafish

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Targen S., Kaya T., Avci M. E., Gunes D., Keskus A. G., KONU KARAKAYALI Ö.

ZEBRAFISH, cilt.17, sa.5, ss.305-318, 2020 (SCI-Expanded, Scopus) identifier identifier identifier

  • Yayın Türü: Makale / Tam Makale
  • Cilt numarası: 17 Sayı: 5
  • Basım Tarihi: 2020
  • Doi Numarası: 10.1089/zeb.2020.1869
  • Dergi Adı: ZEBRAFISH
  • Derginin Tarandığı İndeksler: Science Citation Index Expanded (SCI-EXPANDED), Scopus, Agricultural & Environmental Science Database, Animal Behavior Abstracts, Aquatic Science & Fisheries Abstracts (ASFA), BIOSIS, CAB Abstracts, EMBASE, MEDLINE, Veterinary Science Database
  • Sayfa Sayıları: ss.305-318
  • Anahtar Kelimeler: zebrafish, xenograft, cancer, database, R shiny, patient-derived xenograft, PATIENT-DERIVED XENOGRAFT, ACUTE MYELOID-LEUKEMIA, HUMAN CANCER, IN-VIVO, TRANSLATIONAL RESEARCH, TUMOR-CELLS, METASTASIS, MODELS, MOUSE, EMBRYOS
  • Açık Arşiv Koleksiyonu: AVESİS Açık Erişim Koleksiyonu
  • Dokuz Eylül Üniversitesi Adresli: Evet

Özet

Rapidly accumulating literature has proven feasibility of the zebrafish xenograft models in cancer research. Nevertheless, online databases for searching the current zebrafish xenograft literature are in great demand. Herein, we have developed a manually curated database, called ZenoFishDb v1.1 (https://konulab.shinyapps.io/zenofishdb), based on R Shiny platform aiming to provide searchable information on ever increasing collection of zebrafish studies for cancer cell line transplantation and patient-derived xenografts (PDXs). ZenoFishDb v1.1 user interface contains four modules:DataTable,Visualization,PDX Details, andPDX Charts. TheDataTable andVisualizationpages represent xenograft study details, including injected cell lines, PDX injections, molecular modifications of cell lines, zebrafish strains, as well as technical aspects of the xenotransplantation procedures in table, bar, and/or pie chart formats. ThePDX Detailsmodule provides comprehensive information on the patient details in table format and can be searched and visualized. Overall, ZenoFishDb v1.1 enables researchers to effectively search, list, and visualize different technical and biological attributes of zebrafish xenotransplantation studies particularly focusing on the new trends that make use of reporters, RNA interference, overexpression, or mutant gene constructs of transplanted cancer cells, stem cells, and PDXs, as well as distinguished host modifications.