共查询到20条相似文献,搜索用时 31 毫秒
1.
Sushil Kumar Middha Yashoda Mittal Talembedu Ushal Dharmendra Kumar Ranjani Srinivasan Laxmikant Vashisth Biplab Bhattacahrgae Madhugiri Bhojangarao Nagaveni 《Bioinformation》2009,4(2):78-79
Herbs are the base used for treatment in Ayurveda. We describe a database named Phyto-Mellitus with information on plants traditionally used
for diabetes with their chemical constituents. The active principles of these plants are antioxidant and free radical scavenging.
Availability
http://www.bicmlacw.org/bt/ 相似文献2.
Saravanan Thavamanikumar Luke J. McManus Peter K. Ades Gerd Bossinger Desmond J. Stackpole Richard Kerr Sara Hadjigol Jules S. Freeman René E. Vaillancourt Peng Zhu Josquin F. G. Tibbits 《Tree Genetics & Genomes》2014,10(6):1661-1678
The moderate to high levels of nucleotide diversity and low linkage disequilibrium found in many forest tree species make them ideal candidates for association mapping. Here, we report candidate gene-based association mapping results for complex wood quality and growth traits in Eucalyptus globulus Labill. ssp. globulus, the most widely grown eucalypt in temperate regions of the world. Ninety-eight single nucleotide polymorphisms (SNPs) from 20 wood quality candidate genes were assayed in a discovery population consisting of 385 trees sourced from a provenance-progeny trial. Twenty-five selected SNPs with significant associations (P?0.05) in the discovery population were assayed for validation in 296 trees sourced from an independent second-generation breeding trial. To account for background genetic structure, mixed models were used in the association analyses. Two associations identified in the discovery population were independently supported in the validation testing. However, combining the discovery and validation results in a combined analysis, we discovered nine stable marker-trait associations for seven traits. These associations link underlying complex wood and growth phenotypes to earlier putative selection signatures opening new avenues to accelerate the dissection of these traits. 相似文献
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Cry‐Bt identifier: A biological database for PCR detection of Cry genes present in transgenic plants
We describe the development of a user friendly tool that would assist in the retrieval of information relating to Cry genes in transgenic
crops. The tool also helps in detection of transformed Cry genes from Bacillus thuringiensis present in transgenic plants by providing
suitable designed primers for PCR identification of these genes. The tool designed based on relational database model enables easy retrieval
of information from the database with simple user queries. The tool also enables users to access related information about Cry genes present
in various databases by interacting with different sources (nucleotide sequences, protein sequence, sequence comparison tools, published
literature, conserved domains, evolutionary and structural data).
Availability
http://insilicogenomics.in/Cry-btIdentifier/welcome.html 相似文献5.
Padavala Ajay Babu Palakeerthi Srinivas Kumar Polumati Padmaja T Khageswara Roa Sashikanth Chitti 《Bioinformation》2009,4(2):75-77
We describe a database named MIC database containing 2-dimensional structures of synthesized compounds/antibiotics, IUPAC name, smiles
notation and the MIC values / zone of inhibition against a particular organism, strain and culture conditions. The data was collected from various
literature sources such as Arkivoc, Bioorganic Medicinal Chemistry Letters, Antimicrobial Agents and Chemotherapy, Journal of Clinical
Microbiology and Journal of Bacteriology. MIC Database can be accessed at www.trimslabs.com/mic/index.htm. 相似文献
6.
Drug development from natural sources is an important and fast developing area. Natural sources (plants) have been used to cure
a range of diseases for Thousands of years. Different online medicinal plant databases provide information about classifications,
activities, phytochemicals and structure of phytochemicals in different formats. These databases do not cover all aspects of
medicinal plants. MAPS (Medicinal plant Activities, Phytochemicals & structural database) has been constructed with uniqueness
that it combines all information in one web resource and additionally provides test targets on which particular plant found to be
effective with reference to the original paper as well. MAPS database is user friendly information resource, including the data of >
500 medicinal plants. This database includes phytochemical constituents, their structure in mol format, different activities
possessed by the medicinal plant with the targets reported in literature.
Availability
http://www.mapsdatabase.com 相似文献7.
Background
Linkage studies often yield intervals containing several hundred positional candidate genes. Different manual or automatic approaches exist for the determination of the gene most likely to cause the disease. While the manual search is very flexible and takes advantage of the researchers'' background knowledge and intuition, it may be very cumbersome to collect and study the relevant data. Automatic solutions on the other hand usually focus on certain models, remain “black boxes” and do not offer the same degree of flexibility.Methodology
We have developed a web-based application that combines the advantages of both approaches. Information from various data sources such as gene-phenotype associations, gene expression patterns and protein-protein interactions was integrated into a central database. Researchers can select which information for the genes within a candidate interval or for single genes shall be displayed. Genes can also interactively be filtered, sorted and prioritised according to criteria derived from the background knowledge and preconception of the disease under scrutiny.Conclusions
GeneDistiller provides knowledge-driven, fully interactive and intuitive access to multiple data sources. It displays maximum relevant information, while saving the user from drowning in the flood of data. A typical query takes less than two seconds, thus allowing an interactive and explorative approach to the hunt for the candidate gene.Access
GeneDistiller can be freely accessed at http://www.genedistiller.org 相似文献8.
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9.
Verena Schm?kel Nadin Memar Anne Wiekenberg Martin Trotzmüller Ralf Schnabel Frank D?ring 《Genetics》2016,202(3):1071-1083
Lipids play a pivotal role in embryogenesis as structural components of cellular membranes, as a source of energy, and as signaling molecules. On the basis of a collection of temperature-sensitive embryonic lethal mutants, a systematic database search, and a subsequent microscopic analysis of >300 interference RNA (RNAi)–treated/mutant worms, we identified a couple of evolutionary conserved genes associated with lipid storage in Caenorhabditis elegans embryos. The genes include cpl-1 (cathepsin L–like cysteine protease), ccz-1 (guanine nucleotide exchange factor subunit), and asm-3 (acid sphingomyelinase), which is closely related to the human Niemann-Pick disease–causing gene SMPD1. The respective mutant embryos accumulate enlarged droplets of neutral lipids (cpl-1) and yolk-containing lipid droplets (ccz-1) or have larger genuine lipid droplets (asm-3). The asm-3 mutant embryos additionally showed an enhanced resistance against C band ultraviolet (UV-C) light. Herein we propose that cpl-1, ccz-1, and asm-3 are genes required for the processing of lipid-containing droplets in C. elegans embryos. Owing to the high levels of conservation, the identified genes are also useful in studies of embryonic lipid storage in other organisms. 相似文献
10.
The par genes of Caenorhabditis elegans are essential for establishment and maintenance of early embryo polarity and their homologs in other organisms are crucial polarity regulators in diverse cell types. Forward genetic screens and simple RNAi depletion screens have identified additional conserved regulators of polarity in C. elegans; genes with redundant functions, however, will be missed by these approaches. To identify such genes, we have performed a genome-wide RNAi screen for enhancers of lethality in conditional par-1 and par-4 mutants. We have identified 18 genes for which depletion is synthetically lethal with par-1 or par-4, or both, but produces little embryo lethality in wild type. Fifteen of the 18 genes identified in our screen are not previously known to function in C. elegans embryo polarity and 11 of them also increase lethality in a par-2 mutant. Among the strongest synthetic lethal genes, polarity defects are more apparent in par-2 early embryos than in par-1 or par-4, except for strd-1(RNAi), which enhances early polarity phenotypes in all three mutants. One strong enhancer of par-1 and par-2 lethality, F25B5.2, corresponds to nop-1, a regulator of actomyosin contractility for which the molecular identity was previously unknown. Other putative polarity enhancers identified in our screen encode cytoskeletal and membrane proteins, kinases, chaperones, and sumoylation and deubiquitylation proteins. Further studies of these genes should give mechanistic insight into pathways regulating establishment and maintenance of cell polarity. 相似文献
11.
ChangKug Kim SooJin Kwon GangSeob Lee HwanKi Lee JiWeon Choi YongHwan Kim JangHo Hahn 《Bioinformation》2009,3(8):344-345
The AllergenPro database has developed a web-based system that will provide information about allergen in microbes, animals and plants. The database has three major parts and
functions:(i) database list; (ii) allergen search; and (iii) allergenicity prediction. The database contains 2,434 allergens related information readily available in the database
such as on allergens in rice microbes (712 records), animals (617 records) and plants (1,105 records). Furthermore, this database provides bioinformatics tools for allergenicity
prediction. Users can search for specific allergens by various methods and can run tools for allergenicity prediction using three different methods.
Availability
The database is available for free at http://www.niab.go.kr/nabic/ 相似文献12.
Laura Tatjer Almudena Sacristán-Reviriego Carlos Casado Asier González Boris Rodríguez-Porrata Lorena Palacios David Canadell Albert Serra-Cardona Humberto Martín María Molina Joaquín Ari?o 《Genetics》2016,202(1):141-156
The Saccharomyces cerevisiae type 2C protein phosphatase Ptc1 is required for a wide variety of cellular functions, although only a few cellular targets have been identified. A genetic screen in search of mutations in protein kinase–encoding genes able to suppress multiple phenotypic traits caused by the ptc1 deletion yielded a single gene, MKK1, coding for a MAPK kinase (MAPKK) known to activate the cell-wall integrity (CWI) Slt2 MAPK. In contrast, mutation of the MKK1 paralog, MKK2, had a less significant effect. Deletion of MKK1 abolished the increased phosphorylation of Slt2 induced by the absence of Ptc1 both under basal and CWI pathway stimulatory conditions. We demonstrate that Ptc1 acts at the level of the MAPKKs of the CWI pathway, but only the Mkk1 kinase activity is essential for ptc1 mutants to display high Slt2 activation. We also show that Ptc1 is able to dephosphorylate Mkk1
in vitro. Our results reveal the preeminent role of Mkk1 in signaling through the CWI pathway and strongly suggest that hyperactivation of Slt2 caused by upregulation of Mkk1 is at the basis of most of the phenotypic defects associated with lack of Ptc1 function. 相似文献
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Dineshwaran Asaithambi Senthil Natesan Vinothkumar Venkatesan Raveendran Muthuraja Kumar Muthusamy Ponnuswami Vinayagam 《Bioinformation》2013,9(16):838-839
MAGICdb is a unique database that integrates the morphological, fruit quality and the marker data of most popular and widely
cultivated commercially important mango cultivars. The main objective of MAGICdb is to provide the end users with an integrated
dataset of each mango variety cultivated widely in Tamil Nadu. MAGICdb structure is categorized in to three domains namely
Morphological Data Search, Fruit Quality Search and Marker Search which in further contains details on Tree Character, Bearing
Habit, Season of fruiting, Number of inflorescence/Sq.m, Percentage of hermaphrodite flower(%), Fruit set percentage(%), Number
of fruits/ tree, Fruit weight (g) and, Yield (Kg/ tree). This database is equipped with a user friendly interface enabling the users to
retrieve the information with ease. Database is available at http://www.tnaugenomics.com/mango/index.php 相似文献
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Padavala Ajay Babu Suma Sree Puppala Satyavarapu Lakshmi Aswini Metta Ramya Vani Chinta Narasimha Kumar Tallapragada Prasanna 《Bioinformation》2008,3(3):142-143
Marine compound database consists of marine natural products and chemical entities, collected from various literature sources,
which are known to possess bioactivity against human diseases. The database is constructed using html code. The 12 categories
of 182 compounds are provided with the source, compound name, 2-dimensional structure, bioactivity and clinical trial
information. The database is freely available online and can be accessed at
http://www.progenebio.in/mcdb/index.htm 相似文献
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Rhonda R. McCartney Dakshayini G. Chandrashekarappa Bob B. Zhang Martin C. Schmidt 《Genetics》2014,198(2):635-646
Aerobic glycolysis is a metabolic pathway utilized by human cancer cells and also by yeast cells when they ferment glucose to ethanol. Both cancer cells and yeast cells are inhibited by the presence of low concentrations of 2-deoxyglucose (2DG). Genetic screens in yeast used resistance to 2-deoxyglucose to identify a small set of genes that function in regulating glucose metabolism. A recent high throughput screen for 2-deoxyglucose resistance identified a much larger set of seemingly unrelated genes. Here, we demonstrate that these newly identified genes do not in fact confer significant resistance to 2-deoxyglucose. Further, we show that the relative toxicity of 2-deoxyglucose is carbon source dependent, as is the resistance conferred by gene deletions. Snf1 kinase, the AMP-activated protein kinase of yeast, is required for 2-deoxyglucose resistance in cells growing on glucose. Mutations in the SNF1 gene that reduce kinase activity render cells hypersensitive to 2-deoxyglucose, while an activating mutation in SNF1 confers 2-deoxyglucose resistance. Snf1 kinase activated by 2-deoxyglucose does not phosphorylate the Mig1 protein, a known Snf1 substrate during glucose limitation. Thus, different stimuli elicit distinct responses from the Snf1 kinase. 相似文献
19.
An organism''s survival strategy under the constantly changing environment depends on its ability to sense and respond to
changes in its environment. Archaea, being capable to grow under various extreme environmental conditions, provide valuable
model for exploring how single-celled organisms respond to environmental stresses. However, no such approach has ever been
made to make an integrated classification of various archaeal stress responses.Archaeal Stress Response Database (ASRDb) is a web accessible (http://121.241.218.70/ASRDb) database that represents the first
online available resource providing a comprehensive overview of stress response genes of 66 archaeal genomes. This database
currently contains almost 6000 stress specific genes of 66 archaeal genomes. All the stress specific genes are grouped into 17
different stress categories. A user-friendly interface has been designed to examine data using query tools. This database provides
an efficient search engine for random and advanced database search operations. We have incorporated BLAST search options to
the resulting sequences retrieved from database search operations. A site map page representing the schematic diagram will enable
user to understand the logic behind the construction of the database. We have also provided a very rich and informative help page
to make user familiar with the database. We sincerely believe that ASRDb will be of particular interest to the life science
community and facilitates the biologists to unravel the role of stress specific genes in the adaptation of microorganisms under
various extreme environmental conditions. 相似文献