scholarly journals Conserved unique peptide patterns (CUPP) online platform: peptide-based functional annotation of carbohydrate active enzymes

2020 ◽  
Vol 48 (W1) ◽  
pp. W110-W115 ◽  
Author(s):  
Kristian Barrett ◽  
Cameron J Hunt ◽  
Lene Lange ◽  
Anne S Meyer
Keyword(s):  
Functional Annotation ◽  
Web Server ◽  
Amino Acid Sequences ◽  
Carbohydrate Active Enzymes ◽  
Online Platform ◽  
Unique Peptide ◽  
Peptide Motifs ◽  
The Individual ◽  
Eukaryotic Organisms ◽  
The Web

Abstract The CUPP platform includes a web server for functional annotation and sub-grouping of carbohydrate active enzymes (CAZymes) based on a novel peptide-based similarity assessment algorithm, i.e. protein grouping according to Conserved Unique Peptide Patterns (CUPP). This online platform is open to all users and there is no login requirement. The web server allows the user to perform genome-based annotation of carbohydrate active enzymes to CAZy families, CAZy subfamilies, CUPP groups and EC numbers (function) via assessment of peptide-motifs by CUPP. The web server is intended for functional annotation assessment of the CAZy inventory of prokaryotic and eukaryotic organisms from genomic DNA (up to 30MB compressed) or directly from amino acid sequences (up to 10MB compressed). The custom query sequences are assessed using the CUPP annotation algorithm, and the outcome is displayed in interactive summary result pages of CAZymes. The results displayed allow for inspection of members of the individual CUPP groups and include information about experimentally characterized members. The web server and the other resources on the CUPP platform can be accessed from https://cupp.info.

APLIKASI PENCARI INFORMASI PERMINTAAN LAYANAN WEB YANG ERROR MENGGUNAKAN ALGORITMA BOYER-MOORE

2016 ◽  
Vol 1 (1) ◽  
pp. 001
Author(s):  
Harry Setya Hadi
Keyword(s):  
Data Storage ◽  
Computer Network ◽  
Web Server ◽  
Access Methods ◽  
Ip Address ◽  
String Searching ◽  
Common Process ◽  
Web Server Logs ◽  
Different Parts ◽  
The Web

String searching is a common process in the processes that made the computer because the text is the main form of data storage. Boyer-Moore is the search string from right to left is considered the most efficient methods in practice, and matching string from the specified direction specifically an algorithm that has the best results theoretically. A system that is connected to a computer network that literally pick a web server that is accessed by multiple users in different parts of both good and bad aim. Any activity performed by the user, will be stored in Web server logs. With a log report contained in the web server can help a web server administrator to search the web request error. Web server log is a record of the activities of a web site that contains the data associated with the IP address, time of access, the page is opened, activities, and access methods. The amount of data contained in the resulting log is a log shed useful information.

Assessing the Demand for Online Integration Platforms in the Real Estate Business

2020 ◽  
Vol 26 (1) ◽  
pp. 46-54
Author(s):  
N. S. Alekseeva ◽  
A. E. Druzhinin
Keyword(s):  
Real Estate ◽  
Real Estate Market ◽  
Passenger Transport ◽  
Integration Platform ◽  
Online Platform ◽  
The Real ◽  
The Real Estate ◽  
The Real Estate Market ◽  
Hospitality Sector ◽  
The Individual

Examination of the real estate market shows that implementing innovations in this field is a very difficult task. This prompts the question of the necessity of digitalizing the real estate business and of the demand for online integration platforms in this field.Aim. The presented study aims to assess the demand for online integration platforms in the real estate business.Tasks. The authors compare the online integration platforms in the real estate market with the online integration platforms in the hospitality sector and the individual passenger transport market in terms of the share of user profits that integrators receive for their services on the online platform; compare the share of user profits that integrators receive for their services on the online platform with the equivalent indicator in various other global economic activities; assess the value of the services provided by an online integration platform using the methodology proposed by G. G. Azgaldov and N. N. Karpova.Methods. The data were acquired from public Internet sources and personal interviews with the directors of companies that represent or employ the services of online integration platforms in St. Petersburg. The interviews and work with Internet sources were conducted in November 2019.Results. An integrator in the real estate market receives a share of profits of their service users that is comparable to that of the integrators in the hospitality sector and the individual passenger transport market. The share of profits of a Russian integrator in the real estate market is significantly higher than that in such industries as entertainment, fashion, or sports. The value of an online integration platform can be defined as highly valuable, since the expected value of this indicator is 1.5 times higher than the maximum table value.Conclusions. The performed analysis shows a high demand for online integration platforms in the real estate business. Market participants are willing to pay for the ability to use new digital technologies.

A cross-sectional survey among physicians on Internet use for epilepsy-related information (Preprint)

2019 ◽  
Author(s):  
Francesco Brigo ◽  
Simona Lattanzi ◽  
Giorgia Giussani ◽  
Laura Tassi ◽  
Nicola Pietrafusa ◽  
...  
Keyword(s):  
Internet Use ◽  
The Internet ◽  
Online Information ◽  
Cross Sectional Survey ◽  
Cross Sectional ◽  
Related Information ◽  
Internet Users ◽  
Therapeutic Decisions ◽  
The Individual ◽  
The Web

BACKGROUND The Internet has become one of the most important sources of health information, accessed daily by an ever-growing number of both patients and physicians, seeking medical advice and clinical guidance. A deeper insight into the current use of the Web as source of information on epilepsy would help in clarifying the individual attitude towards this medium by Internet users. OBJECTIVE We investigated views towards the Internet in a sample of Italian healthcare specialists involved in epilepsy field, to explore factors which explained the influence of information found on the internet. METHODS This study was a self-administered survey conducted in a group of members of the Italian Chapter of the International League Against Epilepsy (ILAE) in January 2018. RESULTS 184 questionnaires were analyzed. 97.8% of responders reported to seek online information on epilepsy. The Internet was most frequently searched to obtain new information (69.9%) or to confirm a diagnostic or therapeutic decision (37.3%). The influence of consulting the Internet on clinical practice was associated with registration to social network(s) (OR: 2.94; 95%CI: 1.28-6.76; p=0.011), higher frequency of Internet use (OR: 3.66; 95%CI: 1.56-9.21; p=0.006) and higher confidence in reliability of online information (OR: 2.61; 95%CI: 1.09-6.26; p=0.031). No association was found with age, sex, years in epilepsy practice or easiness to find online information. CONCLUSIONS Internet is frequently used among healthcare professionals involved in the epilepsy to obtain information about this disease. The attitude of being influenced by the Internet for diagnostic and/or therapeutic decisions in epilepsy is independent on age and years of experience in epilepsy, and probably reflects an individual approach towards the Web.

SSMBS: a web server to locate sequentially separated motifs in biological sequences

2009 ◽  
Vol 43 (1) ◽  
pp. 203-205 ◽  
Author(s):  
Chetan Kumar ◽  
K. Sekar
Keyword(s):  
Amino Acids ◽  
Web Server ◽  
Nucleotide Sequences ◽  
Regular Expressions ◽  
Biological Sequences ◽  
Sequence Motifs ◽  
Specific Order ◽  
The Web

The identification of sequence (amino acids or nucleotides) motifs in a particular order in biological sequences has proved to be of interest. This paper describes a computing server,SSMBS, which can locate and display the occurrences of user-defined biologically important sequence motifs (a maximum of five) present in a specific order in protein and nucleotide sequences. While the server can efficiently locate motifs specified using regular expressions, it can also find occurrences of long and complex motifs. The computation is carried out by an algorithm developed using the concepts of quantifiers in regular expressions. The web server is available to users around the clock at http://dicsoft1.physics.iisc.ernet.in/ssmbs/.

scholarly journals Squalene-Hopene Cyclases

2011 ◽  
Vol 77 (12) ◽  
pp. 3905-3915 ◽  
Author(s):  
Gabriele Siedenburg ◽  
Dieter Jendrossek
Keyword(s):  
Common Ancestor ◽  
Amino Acid Sequences ◽  
Enzymatic Reactions ◽  
Covalent Bonds ◽  
Content Type ◽  
Oxidosqualene Cyclase ◽  
Ring Structures ◽  
One Step ◽  
Alicyclobacillus Acidocaldarius ◽  
Eukaryotic Organisms

ABSTRACTHopanoids and sterols are members of a large group of cyclic triterpenoic compounds that have important functions in many prokaryotic and eukaryotic organisms. They are biochemically synthesized from linear precursors (squalene, 2,3-oxidosqualene) in only one enzymatic step that is catalyzed by squalene-hopene cyclase (SHC) or oxidosqualene cyclase (OSC). SHCs and OSCs are related in amino acid sequences and probably are derived from a common ancestor. The SHC reaction requires the formation of five ring structures, 13 covalent bonds, and nine stereo centers and therefore is one of the most complex one-step enzymatic reactions. We summarize the knowledge of the properties of triterpene cyclases and details of the reaction mechanism ofAlicyclobacillus acidocaldariusSHC. Properties of other SHCs are included.

scholarly journals InsectOR – webserver for sensitive identification of insect olfactory receptor genes from non-model genomes

2020 ◽  
Author(s):  
Snehal D. Karpe ◽  
Vikas Tiwari ◽  
Sowdhamini Ramanathan
Keyword(s):  
Genome Annotation ◽  
Gene Prediction ◽  
Web Server ◽  
Olfactory Receptors ◽  
Rapid Prediction ◽  
Protein Receptors ◽  
Olfactory Receptor Genes ◽  
Or Gene ◽  
Or Genes ◽  
The Web

AbstractInsect Olfactory Receptors (ORs) are diverse family of membrane protein receptors responsible for most of the insect olfactory perception and communication, and hence they are of utmost importance for developing repellents or pesticides. Hence, accurate gene prediction of insect ORs from newly sequenced genomes is an important but challenging task. We have developed a dedicated web-server, ‘insectOR’, to predict and validate insect OR genes using multiple gene prediction algorithms, accompanied by relevant validations. It is possible to employ this sever nearly automatically and perform rapid prediction of the OR gene loci from thousands of OR-protein-to-genome alignments, resolve gene boundaries for tandem OR genes and refine them further to provide more complete OR gene models. InsectOR outperformed the popular genome annotation pipelines (MAKER and NCBI eukaryotic genome annotation) in terms of overall sensitivity at base, exon and locus level, when tested on two distantly related insect genomes. It displayed more than 95% nucleotide level precision in both tests. Finally, given the same input data and parameters, InsectOR missed less than 2% gene loci, in contrast to 55% loci missed by MAKER for Drosophila melanogaster. The web-server is freely available on the web at http://caps.ncbs.res.in/insectOR/. All major browsers are supported. Website is implemented in Python with Jinja2 for templating and bootstrap framework which uses HTML, CSS and JavaScript/Ajax. The core pipeline is written in Perl.

scholarly journals User’s Behaviour inside a Digital Library

Data Mining ◽  
2013 ◽  
pp. 1312-1319
Author(s):  
Marco Scarnò
Keyword(s):  
Data Mining ◽  
Digital Library ◽  
Web Mining ◽  
Dynamic Change ◽  
Web Server ◽  
Scientific Field ◽  
Data Mining Techniques ◽  
Log File ◽  
The Web ◽  
The Way

CASPUR allows many academic Italian institutions located in the Centre-South of Italy to access more than 7 million articles through a digital library platform. The behaviour of its users were analyzed by considering their “traces”, which are stored in the web server log file. Using several web mining and data mining techniques the author discovered a gradual and dynamic change in the way articles are accessed. In particular there is evidence of a journal browsing increase in comparison to the searching mode. Such phenomenon were interpreted using the idea that browsing better meets the needs of users when they want to keep abreast about the latest advances in their scientific field, in comparison to a more generic searching inside the digital library.

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