共查询到20条相似文献,搜索用时 31 毫秒
1.
Ashish Kumar Tewari Rashi Gulshan Wadhwa Sanjeev Kumar Sharma Chakresh Kumar Jain 《Bioinformation》2013,9(2):112-115
Bioterrorism is the intended use of pathogenic strains of microbes to widen terror in a population. There is a definite need to
promote research for development of vaccines, therapeutics and diagnostic methods as a part of preparedness to any bioterror
attack in the future. BIRS is an open-access database of collective information on the organisms related to bioterrorism. The
architecture of database utilizes the current open-source technology viz PHP ver 5.3.19, MySQL and IIS server under windows
platform for database designing. Database stores information on literature, generic- information and unique pathways of about 10
microorganisms involved in bioterrorism. This may serve as a collective repository to accelerate the drug discovery and vaccines
designing process against such bioterrorist agents (microbes). The available data has been validated from various online resources
and literature mining in order to provide the user with a comprehensive information system.
Availability
The database is freely available at http://www.bioterrorism.biowaves.org 相似文献2.
Rupal Chauhan Yogesh Jasrai Himanshu Pandya Suman Chaudhari Chand Mal Samota 《Bioinformation》2014,10(9):595-598
Fruit Crops Diseases Database (FCDD) requires a number of biotechnology and bioinformatics tools. The FCDD is a unique
bioinformatics resource that compiles information about 162 details on fruit crops diseases, diseases type, its causal organism,
images, symptoms and their control. The FCDD contains 171 phytochemicals from 25 fruits, their 2D images and their 20 possible
sequences. This information has been manually extracted and manually verified from numerous sources, including other electronic
databases, textbooks and scientific journals. FCDD is fully searchable and supports extensive text search. The main focus of the
FCDD is on providing possible information of fruit crops diseases, which will help in discovery of potential drugs from one of the
common bioresource-fruits. The database was developed using MySQL. The database interface is developed in PHP, HTML and
JAVA. FCDD is freely available.
Availability
http://www.fruitcropsdd.com/ 相似文献3.
4.
Hürlimann E Schur N Boutsika K Stensgaard AS Laserna de Himpsl M Ziegelbauer K Laizer N Camenzind L Di Pasquale A Ekpo UF Simoonga C Mushinge G Saarnak CF Utzinger J Kristensen TK Vounatsou P 《PLoS neglected tropical diseases》2011,5(12):e1404
Background
After many years of general neglect, interest has grown and efforts came under way for the mapping, control, surveillance, and eventual elimination of neglected tropical diseases (NTDs). Disease risk estimates are a key feature to target control interventions, and serve as a benchmark for monitoring and evaluation. What is currently missing is a georeferenced global database for NTDs providing open-access to the available survey data that is constantly updated and can be utilized by researchers and disease control managers to support other relevant stakeholders. We describe the steps taken toward the development of such a database that can be employed for spatial disease risk modeling and control of NTDs.Methodology
With an emphasis on schistosomiasis in Africa, we systematically searched the literature (peer-reviewed journals and ‘grey literature’), contacted Ministries of Health and research institutions in schistosomiasis-endemic countries for location-specific prevalence data and survey details (e.g., study population, year of survey and diagnostic techniques). The data were extracted, georeferenced, and stored in a MySQL database with a web interface allowing free database access and data management.Principal Findings
At the beginning of 2011, our database contained more than 12,000 georeferenced schistosomiasis survey locations from 35 African countries available under http://www.gntd.org. Currently, the database is expanded to a global repository, including a host of other NTDs, e.g. soil-transmitted helminthiasis and leishmaniasis.Conclusions
An open-access, spatially explicit NTD database offers unique opportunities for disease risk modeling, targeting control interventions, disease monitoring, and surveillance. Moreover, it allows for detailed geostatistical analyses of disease distribution in space and time. With an initial focus on schistosomiasis in Africa, we demonstrate the proof-of-concept that the establishment and running of a global NTD database is feasible and should be expanded without delay. 相似文献5.
PHProteomicDB is a PHP-written module to help researchers in proteomics to share two-dimenslonal gel electrophoresis data using personal web sites. No technical or PHP knowledge is necessary except a few basics about web site management. PHProteomicDB has a user-friendly administration interface to enter and update data. It creates web pages on the fly displaying gel characteristics, gel pictures, and numbered gel spots with their related identifications pointing to their reference pages in protein databanks. The module is freely available at http://www.huvec.com/index.php3?rub=Download. 相似文献
6.
Screening of ligand molecules to target proteins using computer-aided docking is a critical step in rational drug discovery. Based on this circumstance, we
attempted to develop a virtual screening application system, named VSDK Virtual Screening by Docking, which can function under the Windows platform. This is
a user-friendly, flexible, and versatile tool which can be used by users who are familiar with Windows OS. The virtual screening performance was tested for an
arbitrarily-selected receptor, FGFR tyrosine kinase (pdb code: 1agw), by using ligands downloaded from ZINC database with its grid size of x,y,z = 30,30,30 and
run number of 10. It took 90 minutes for 100 molecules for this virtual screening. VSDK is freely available at the designated URL, and a simplified manual can be
downloaded from VSDK home page. This tool will have a more challenging scope and achievement as the computer speed and accuracy are increased and secured
in the future.
Availability
The database is available for free at http://www.pharm.kobegakuin.ac.jp/˜akaho/english_top.html 相似文献7.
The majority of the Earth''s microbes remain unknown, and that their potential utility cannot be exploited until they are discovered and characterized. They provide wide scope for the development of new strains as well as biotechnological uses. The documentation and bioprospection of microorganisms carry enormous significance considering their relevance to human welfare. This calls for an urgent need to develop a database with emphasis on the microbial diversity of the largest untapped reservoirs in the biosphere. The data annotated in the North-East India Microbial database (NEMiD) were obtained by the isolation and characterization of microbes from different parts of the Eastern Himalayan region. The database was constructed as a relational database management system (RDBMS) for data storage in MySQL in the back-end on a Linux server and implemented in an Apache/PHP environment. This database provides a base for understanding the soil microbial diversity pattern in this megabiodiversity hotspot and indicates the distribution patterns of various organisms along with identification. The NEMiD database is freely available at www.mblabnehu.info/nemid/. 相似文献
8.
Salmonellosis is one of the most common and widely distributed food borne diseases caused by Salmonella serovars. The
emergence of multi drug resistant strains has become a threatening public health problem and targeting unique effectors of this
pathogen can be considered as a powerful strategy for drug design. SalmonellaBase is an online web portal serving as an integrated
source of information about Salmonella serovars with the data required for the structural and functional studies and the analysis of
druggable targets in Salmonella. We have identified several target proteins, which helps in the pathogenicity of the organism and
predicted their structures. The database will have the information on completely sequenced genomes of Salmonella species with
the complete set of protein sequences of the respective strains, determined structures, predicted protein structures and biochemical
pathways of the respective strains. In addition, we have provided information about name and source of the protein, Uniprot and
Protein Data Bank codes and literature information. Furthermore, SalmonellaBase is linked to related databases and other
resources. We have set up a web interface with different search and display options so that users have the ability to get the data in
several ways. SalmonellaBase is a freely available database.
Availability
http://www.salmonellabase.com/ 相似文献9.
Maria Pratheepa Sushil Kumar Jalali Robinson Silvester Arokiaraj Thiruvengadam Venkatesan Mandadi Nagesh Madhusmita Panda Sharath Pattar 《Bioinformation》2014,10(2):98-100
Insect Barcode Information System called as Insect Barcode Informática (IBIn) is an online database resource developed by the
National Bureau of Agriculturally Important Insects, Bangalore. This database provides acquisition, storage, analysis and
publication of DNA barcode records of agriculturally important insects, for researchers specifically in India and other countries. It
bridges a gap in bioinformatics by integrating molecular, morphological and distribution details of agriculturally important insects.
IBIn was developed using PHP/My SQL by using relational database management concept. This database is based on the client–
server architecture, where many clients can access data simultaneously. IBIn is freely available on-line and is user-friendly. IBIn
allows the registered users to input new information, search and view information related to DNA barcode of agriculturally
important insects.This paper provides a current status of insect barcode in India and brief introduction about the database IBIn.
Availability
http://www.nabg-nbaii.res.in/barcode 相似文献10.
Shanmugam Anandakumar Saravanan Vijayakumar Nagarajan Arumugam M Michael Gromiha 《Bioinformation》2015,11(11):512-513
Mammalian Mitochondrial ncRNA is a web-based database, which provides specific information on non-coding RNA in mammals.
This database includes easy searching, comparing with BLAST and retrieving information on predicted structure and its function
about mammalian ncRNAs.
Availability
The database is available for free at http://www.iitm.ac.in/bioinfo/mmndb/ 相似文献11.
Seed storage proteins, the major food proteins, possess unique physicochemical characteristics which determine their nutritional
importance and influence their utilization by humans. Here, we describe a database driven tool named Seed Pro-Nutra Care which
comprises a systematic compendium of seed storage proteins and their bioactive peptides influencing several vital organ systems
for maintenance of health. Seed Pro-Nutra Careis an integrated resource on seed storage protein. This resource help in the (I)
Characterization of proteins whether they belong to seed storage protein group or not. (II) Identification the bioactive peptides
with their sequences using peptide name (III) Determination of physico chemical properties of seed storage proteins. (IV) Epitope
identification and mapping (V) Allergenicity prediction and characterization. Seed Pro-Nutra Care is a compilation of data on
bioactive peptides present in seed storage proteins from our own collections and other published and unpublished sources. The
database provides an information resource of a variety of seed related biological information and its use for nutritional and
biomedical application.
Availability
http://www.gbpuat-cbsh.ac.in/departments/bi/database/seed_pro_nutra_care/ 相似文献12.
13.
Rajagopal V Manimekalai R Devakumar K Rajesh Karun A Niral V Gopal M Aziz S Gunasekaran M Kumar MR Chandrasekar A 《Bioinformation》2005,1(2):75-77
Coconut crop improvement requires a number of biotechnology and bioinformatics tools. A database containing information on CG (coconut germplasm), CCI (coconut cultivar identification), CD (coconut disease), MIFSPC (microbial information systems in plantation crops) and VO (vegetable oils) is described. The database was developed using MySQL and PostgreSQL running in Linux operating system. The database interface is developed in PHP, HTML and JAVA.
Availability 相似文献
14.
15.
16.
17.
ChangKug Kim DongSuk Park YoungJoo Seol UngHan Yoon GangSeob Lee JangHo Hahn 《Bioinformation》2012,8(21):1059-1061
The integration-based genome database provides useful information through a user-friendly web interface that allows analysis of
comparative genome for agricultural plants. We have concentrated on the functional bioinformatics of major agricultural resources,
such as rice, Chinese cabbage, rice mutant lines, and microorganisms. The major functions are focused on functional genome
analysis, including genome projects, gene expression analysis, gene markers with genetic map, analysis tools for comparative
genome structure, and genome annotation in agricultural plants.
Availability
The database is available for free at http://nabic.naas.go.kr/ 相似文献18.
19.
Edward G. Hawkins Ian Martin Lindsay M. Kondo Meredith E. Judy Victoria E. Brings Chung-Lung Chan GinaMari G. Blackwell Jill C. Bettinger Andrew G. Davies 《Genetics》2015,199(1):135-149
The Prp43 DExD/H-box protein is required for progression of the biochemically distinct pre-messenger RNA and ribosomal RNA (rRNA) maturation pathways. In Saccharomyces cerevisiae, the Spp382/Ntr1, Sqs1/Pfa1, and Pxr1/Gno1 proteins are implicated as cofactors necessary for Prp43 helicase activation during spliceosome dissociation (Spp382) and rRNA processing (Sqs1 and Pxr1). While otherwise dissimilar in primary sequence, these Prp43-binding proteins each contain a short glycine-rich G-patch motif required for function and thought to act in protein or nucleic acid recognition. Here yeast two-hybrid, domain-swap, and site-directed mutagenesis approaches are used to investigate G-patch domain activity and portability. Our results reveal that the Spp382, Sqs1, and Pxr1 G-patches differ in Prp43 two-hybrid response and in the ability to reconstitute the Spp382 and Pxr1 RNA processing factors. G-patch protein reconstitution did not correlate with the apparent strength of the Prp43 two-hybrid response, suggesting that this domain has function beyond that of a Prp43 tether. Indeed, while critical for Pxr1 activity, the Pxr1 G-patch appears to contribute little to the yeast two-hybrid interaction. Conversely, deletion of the primary Prp43 binding site within Pxr1 (amino acids 102–149) does not impede rRNA processing but affects small nucleolar RNA (snoRNA) biogenesis, resulting in the accumulation of slightly extended forms of select snoRNAs, a phenotype unexpectedly shared by the prp43 loss-of-function mutant. These and related observations reveal differences in how the Spp382, Sqs1, and Pxr1 proteins interact with Prp43 and provide evidence linking G-patch identity with pathway-specific DExD/H-box helicase activity. 相似文献
20.
Competing endogenous RNA database 总被引:1,自引:0,他引:1
A given mRNA can be regulated by interactions with miRNAs and in turn the availability of these miRNAs can be regulated by
their interactions with alternate mRNAs. The concept of regulation of a given mRNA by alternate mRNA (competing endogenous
mRNA) by virtue of interactions with miRNAs through shared miRNA response elements is poised to become a fundamental
genetic regulatory mechanism. The molecular basis of the mRNA-mRNA cross talks is via miRNA response elements, which can
be predicted based on both molecular interaction and evolutionary conservation. By examining the co-occurrence of miRNA
response elements in the mRNAs on a genome-wide basis we predict competing endogenous RNA for specific mRNAs targeted by
miRNAs. Comparison of the mRNAs predicted to regulate PTEN with recently published work, indicate that the results presented
within the competing endogenous RNA database (ceRDB) have biological relevance.