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Database: the Journal of Biological Databases and Curation

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https://www.readbyqxmd.com/read/29762652/solcyc-a-database-hub-at-the-sol-genomics-network-sgn-for-the-manual-curation-of-metabolic-networks-in-solanum-and-nicotiana-specific-databases
#1
Hartmut Foerster, Aureliano Bombarely, James N D Battey, Nicolas Sierro, Nikolai V Ivanov, Lukas A Mueller
https://solgenomics.net/tools/solcyc/.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29741596/circr2disease-a-manually-curated-database-for-experimentally-supported-circular-rnas-associated-with-various-diseases
#2
Chunyan Fan, Xiujuan Lei, Zengqiang Fang, Qinghua Jiang, Fang-Xiang Wu
http://bioinfo.snnu.edu.cn/CircR2Disease/.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29726944/gemiccl-mining-genotype-and-expression-data-of-cancer-cell-lines-with-elaborate-visualization
#3
Inhae Jeong, Namhee Yu, Insu Jang, Yukyung Jun, Min-Seo Kim, Jinhyuk Choi, Byungwook Lee, Sanghyuk Lee
GEMiCCL is available at https://www.kobic.kr/GEMICCL/.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29718141/pvcbase-an-integrated-web-resource-for-the-pvc-bacterial-proteomes
#4
Nicola Bordin, Juan Carlos González-Sánchez, Damien P Devos
Interest in the Planctomycetes-Verrucomicrobia-Chlamydiae (PVC) bacterial superphylum is growing within the microbiology community. These organisms do not have a specialized web resource that gathers in silico predictions in an integrated fashion. Hence, we are providing the PVC community with PVCbase, a specialized web resource that gathers in silico predictions in an integrated fashion. PVCbase integrates protein function annotations obtained through sequence analysis and tertiary structure prediction for 39 representative PVC proteomes (PVCdb), a protein feature visualizer (Foundation) and a custom BLAST webserver (PVCBlast) that allows to retrieve the annotation of a hit directly from the DataTables...
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29718130/abdb-antibody-structure-database-a-database-of-pdb-derived-antibody-structures
#5
Saba Ferdous, Andrew C R Martin
www.bioinf.org.uk/abs/abdb/.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688387/snpversity-a-web-based-tool-for-visualizing-diversity
#6
David A Schott, Abhinav G Vinnakota, John L Portwood, Carson M Andorf, Taner Z Sen
https://www.maizegdb.org/snpversity.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688386/strapep-a-structure-database-of-bioactive-peptides
#7
Jian Wang, Tailang Yin, Xuwen Xiao, Dan He, Zhidong Xue, Xinnong Jiang, Yan Wang
http://isyslab.info/StraPep.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688385/maser-one-stop-platform-for-ngs-big-data-from-analysis-to-visualization
#8
Sonoko Kinjo, Norikazu Monma, Sadahiko Misu, Norikazu Kitamura, Junichi Imoto, Kazutoshi Yoshitake, Takashi Gojobori, Kazuho Ikeo
http://cell-innovation.nig.ac.jp/maser/.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688384/the-tragedy-of-the-biodiversity-data-commons-a-data-impediment-creeping-nigher
#9
Nora Escribano, David Galicia, Arturo H Ariño
Researchers are embracing the open access movement to facilitate unrestricted availability of scientific results. One sign of this willingness is the steady increase in data freely shared online, which has prompted a corresponding increase in the number of papers using such data. Publishing datasets is a time-consuming process that is often seen as a courtesy, rather than a necessary step in the research process. Making data accessible allows further research, provides basic information for decision-making and contributes to transparency in science...
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688383/signalling-maps-in-cancer-research-construction-and-data-analysis
#10
Maria Kondratova, Nicolas Sompairac, Emmanuel Barillot, Andrei Zinovyev, Inna Kuperstein
Generation and usage of high-quality molecular signalling network maps can be augmented by standardizing notations, establishing curation workflows and application of computational biology methods to exploit the knowledge contained in the maps. In this manuscript, we summarize the major aims and challenges of assembling information in the form of comprehensive maps of molecular interactions. Mainly, we share our experience gained while creating the Atlas of Cancer Signalling Network. In the step-by-step procedure, we describe the map construction process and suggest solutions for map complexity management by introducing a hierarchical modular map structure...
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688382/an-entropy-reducing-data-representation-approach-for-bioinformatic-data
#11
Alan F McCulloch, Ruy Jauregui, Paul H Maclean, Rachael L Ashby, Roger A Moraga, Aurelie Laugraud, Rudiger Brauning, Ken G Dodds, John C McEwan
https://github.com/AgResearch/data_prism.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688381/expert-curation-for-building-network-based-dynamical-models-a-case-study-on-atherosclerotic-plaque-formation
#12
Amel Bekkar, Anne Estreicher, Anne Niknejad, Cristina Casals-Casas, Alan Bridge, Ioannis Xenarios, Julien Dorier, Isaac Crespo
http://biomodels.caltech.edu.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688380/dbamepni-a-database-of-alanine-mutagenic-effects-for-protein-nucleic-acid-interactions
#13
Ling Liu, Yi Xiong, Hongyun Gao, Dong-Qing Wei, Julie C Mitchell, Xiaolei Zhu
http://zhulab.ahu.edu.cn/dbAMEPNI.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688379/probabilistic-and-machine-learning-based-retrieval-approaches-for-biomedical-dataset-retrieval
#14
Payam Karisani, Zhaohui S Qin, Eugene Agichtein
https://github.com/emory-irlab/biocaddie.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688378/biopanning-data-bank-2018-hugging-next-generation-phage-display
#15
Bifang He, Lixu Jiang, Yaocong Duan, Guoshi Chai, Yewei Fang, Juanjuan Kang, Min Yu, Ning Li, Zhongjie Tang, Pengcheng Yao, Pengcheng Wu, Ratmir Derda, Jian Huang
The BDB database is available at http://immunet.cn/bdb.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688377/improved-ontology-based-similarity-calculations-using-a-study-wise-annotation-model
#16
Sebastian Köhler
https://phenomics.github.io/.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688376/geometacuration-a-web-based-application-for-accurate-manual-curation-of-gene-expression-omnibus-metadata
#17
Zhao Li, Jin Li, Peng Yu
https://bitbucket.com/yubiolab/GEOMetaCuration.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688375/citgenedb-a-comprehensive-database-of-human-and-mouse-genes-enhancing-or-suppressing-cold-induced-thermogenesis-validated-by-perturbation-experiments-in-mice
#18
Jin Li, Su-Ping Deng, Gang Wei, Peng Yu
http://citgenedb.yubiolab.org.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688374/finding-relevant-biomedical-datasets-the-uc-san-diego-solution-for-the-biocaddie-retrieval-challenge
#19
Wei Wei, Zhanglong Ji, Yupeng He, Kai Zhang, Yuanchi Ha, Qi Li, Lucila Ohno-Machado
https://github.com/w2wei/dataset_retrieval_pipeline.
January 1, 2018: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/29688373/pvaxdb-a-comprehensive-structural-repository-of-plasmodium-vivax-proteome
#20
Ankita Singh, Rahul Kaushik, Himani Kuntal, B Jayaram
http://www.scfbio-iitd.res.in/PvaxDB.
January 1, 2018: Database: the Journal of Biological Databases and Curation
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