scholarly journals JASPAR RESTful API: accessing JASPAR data from any programming language

2017 ◽  
Author(s):  
Aziz Khan ◽  
Anthony Mathelier
Keyword(s):  
Programming Languages ◽  
Programming Language ◽  
Application Programming Interface ◽  
Representational State Transfer ◽  
Link Type ◽  
State Transfer ◽  
Open Access Database ◽  
Application Programming ◽  
Rest Api ◽  
Programmatic Access

AbstractJASPAR is a widely used open-access database of curated, non-redundant transcription factor binding profiles. Currently, data from JASPAR can be retrieved as flat files or by using programming language-specific interfaces. Here, we present a programming language-independent application programming interface (API) to access JASPAR data using the Representational State Transfer (REST) architecture. The REST API enables programmatic access to JASPAR by most programming languages and returns data in seven widely used formats. Further, it provides an endpoint to infer the TF binding profile(s) likely bound by a given DNA binding domain protein sequence. Additionaly, it provides an interactive browsable interface for bioinformatics tool developers. The REST API is implemented in Python using the Django REST Framework. It is accessible at http://jaspar.genereg.net/api/ and the source code is freeiy available at https://bitbucket.org/CBGR/jaspar under GPL v3 iicense.

Pemantauan dan Pengendalian Parameter Akuaponik Menggunakan Representational State Transfer Application Programming Interface

2020 ◽  
Vol 9 (4) ◽  
pp. 394-402
Author(s):  
Helmy ◽  
Athadhia Febyana ◽  
Agung Al Rasyid ◽  
Arif Nursyahid ◽  
Thomas Agung Setyawan ◽  
...  
Keyword(s):  
Application Programming Interface ◽  
Total Dissolved Solids ◽  
Data Loss ◽  
Representational State Transfer ◽  
State Transfer ◽  
Application Programming ◽  
Representational State ◽  
Rest Api ◽  
E Mail ◽  
Programming Interface

Akuaponik merupakan penggabungan antara akuakultur dengan hidroponik. Salah satu sistem hidroponik yaitu sistem drip (tetes). Parameter yang perlu diperhatikan dalam budidaya akuaponik antara lain keasaman larutan nutrisi yaitu pH, suhu air, dan larutan nutrisi yang ditunjukkan oleh kepekatan zat padat terlarut dalam air (Total Dissolved Solids, TDS). Nutrisi tanaman diperoleh dari kotoran ikan yang mengandung nitrogen. Oleh karena itu, diperlukan pemantauan pH, TDS, dan suhu secara realtime dan pengendalian kelembapan tanah pada tanaman akuaponik agar tanaman tidak kekurangan nutrisi. Proses pengendalian menggunakan Representational State Transfer Application Programming Interface (REST API) dalam menerima nilai batas ambang yang ditentukan petani akuaponik melalui situs web dan mengirimkan nilai kelembapan tanah dan parameter kolam ikan berupa pH, suhu dan TDS ke server. Pengujian data loss dan delay pada sistem pemantauan dan pengendalian ini diperlukan untuk mengetahui keandalan alat dalam pengiriman dan penerimaan data. Selain itu, diperlukan notifikasi berupa e-mail kepada petani apabila nilai kelembapan tanah kurang dari batas ambang. Hasil pengujian menunjukkan sistem dapat mengirimkan notifikasi berupa e-mail kepada petani apabila nilai kelembapan tanah kurang dari batas ambang, rerata delay pemantauan node-gateway sebesar 6,01 detik, sedangkan rerata delay pemantauan gateway–server sebesar 10,02 detik, dan rerata delay pengendalian server–gateway sebesar 92,55 detik.

scholarly journals Participation Reports help Crossref members drive research further

2021 ◽  
Vol 8 (2) ◽  
pp. 180-185
Author(s):  
Anna Tolwinska
Keyword(s):  
Text Mining ◽  
Full Text ◽  
Application Programming Interface ◽  
Representational State Transfer ◽  
State Transfer ◽  
Application Programming ◽  
Funding Information ◽  
Rest Api ◽  
Machine Readable ◽  
Programming Interface

This article aims to explain the key metadata elements listed in Participation Reports, why it’s important to check them regularly, and how Crossref members can improve their scores. Crossref members register a lot of metadata in Crossref. That metadata is machine-readable, standardized, and then shared across discovery services and author tools. This is important because richer metadata makes content more discoverable and useful to the scholarly community. It’s not always easy to know what metadata Crossref members register in Crossref. This is why Crossref created an easy-to-use tool called Participation Reports to show editors, and researchers the key metadata elements Crossref members register to make their content more useful. The key metadata elements include references and whether they are set to open, ORCID iDs, funding information, Crossmark metadata, licenses, full-text URLs for text-mining, and Similarity Check indexing, as well as abstracts. ROR IDs (Research Organization Registry Identifiers), that identify institutions will be added in the future. This data was always available through the Crossref ’s REST API (Representational State Transfer Application Programming Interface) but is now visualized in Participation Reports. To improve scores, editors should encourage authors to submit ORCIDs in their manuscripts and publishers should register as much metadata as possible to help drive research further.

scholarly journals Rancang Bangun Web Service Aptimas Dengan Arsitektur Representational State Transfer (REST) API

Competitive ◽  
2021 ◽  
Vol 16 (2) ◽  
pp. 87-94
Author(s):  
Supono Syafiq ◽  
Sari Armiati
Keyword(s):  
Web Service ◽  
Application Programming Interface ◽  
Representational State Transfer ◽  
State Transfer ◽  
Application Programming ◽  
Representational State ◽  
Rest Api ◽  
Programming Interface

Saat ini data merupakan bagian yang penting di era transformasi teknologi informasi, proses komunikasi pun tidak dibatasi oleh perbedaan jenis perangkat yang digunakan membuat informasi dapat diakses degan mudah. Saat ini Lembaga Penelitian dan Pengabdian kepada Masyarakat (LPPM) Politeknik Pos Indonesia sudah memiliki pangkalan data dalam proses pengelolaan data penelitian, pengabdian, publikasi dan HaKI berbasis web. Saat ini akses data APTIMAS masih terpusat dan tidak bisa diakses dengan menggunakan aplikasi selain aplikasi APTIMAS, sehingga dibutuhkan sebuah media middle ware atau web service yang memberikan solusi bagaiman aplikasi lain dapat mengkases data APTIMAS seperti untuk pengembangan aplikasi Mobile, dashboard di aplikasi lain, kebutuhan data lainnya. Oleh karena itu dibangunlah sebuah Web Service dengan arsitektur Representational State Transfer (REST) Application Programming Interface (API) yang berfungsi jembatan dalam memberikan layanan untuk komunikasi data. Dengan dibangunnya aplikasi middleware web service ini, diharapkan APTIMAS sebagai penyedia data penelitian, pengabdian, publikasi dan HaKI di lingkungan internal perguruan tinggi Politeknik Pos Inodoneisa dapat digunakan sebagai rujukan pengambilan data untuk pengembangan aplikasi lain dan kebutuhan data di lingkungan kampus Politeknik Pos Indonesia, tanpa harus mengakses langsung ke database APTIMAS

scholarly journals NaijaCovidAPI: an application programming interface for retrieval of COVID19 data from the Nigerian Center for Disease Control web platform

F1000Research ◽  
2021 ◽  
Vol 10 ◽  
pp. 1227
Author(s):  
Emmanuel Baldwin Mbaya ◽  
Babatunde Alao ◽  
Philip Ewejobi ◽  
Innocent Nwokolo ◽  
Victoria Oguntosin ◽  
...  
Keyword(s):  
Disease Control ◽  
Application Programming Interface ◽  
The Body ◽  
Development Environment ◽  
Representational State Transfer ◽  
Body Of Knowledge ◽  
State Transfer ◽  
Application Programming ◽  
Rest Api ◽  
Programming Interface

Background: In this work, a COVID19 Application Programming Interface (API) was built using the Representational State Transfer (REST) API architecture and it is designed to fetch data daily from the Nigerian Center for Disease Control (NCDC) website. Methods: The API is developed using ASP.NET Core Web API framework using C# programming language and Visual Studio 2019 as the Integrated Development Environment (IDE). The application has been deployed to Microsoft Azure as the cloud hosting platform and to successfully get new data from the NCDC website using Hangfire where a job has been scheduled to run every 12:30 pm (GMT + 1) and load the fetched data into our database. Various API Endpoints are defined to interact with the system and get data as needed, data can be fetched from a single state by name, all states on a particular day or over a range of days, etc. Results: The results from the data showed that Lagos and Abuja FCT in Nigeria were the hardest-hit states in terms of Total Confirmed cases while Lagos and Edo states had the highest death causalities with 465 and 186 as of August 2020. This analysis and many more can be easily made as a result of this API we have created that warehouses all COVID19 Data as presented by the NCDC since the first contracted case on February 29, 2020. This system was tested on the BlazeMeter platform, and it had an average of 11Hits/s with a response time of 2905milliseconds. Conclusions: The extension of NaijaCovidAPI over existing COVID19 APIs for Nigeria is the access and retrieval of previous data. Our contribution to the body of knowledge is the creation of a data hub for Nigeria's COVID-19 incidence from February 29, 2020, to date

scholarly journals Knowledge Beacons: Web Service Workflow for FAIR Data Harvesting of Distributed Biomedical Knowledge

2020 ◽  
Author(s):  
Lance M. Hannestad ◽  
Vlado Dančík ◽  
Meera Godden ◽  
Imelda W. Suen ◽  
Kenneth C. Huellas-Bruskiewicz ◽  
...  
Keyword(s):  
Application Programming Interface ◽  
Biomedical Science ◽  
Supporting Evidence ◽  
Biomedical Knowledge ◽  
Representational State Transfer ◽  
Management Platform ◽  
Link Type ◽  
State Transfer ◽  
Application Programming ◽  
Automated Tools

AbstractThe continually expanding distributed global compendium of biomedical knowledge is diffuse, heterogeneous and huge, posing a serious challenge for biomedical researchers in knowledge harvesting: accessing, compiling, integrating and interpreting data, information and knowledge. In order to accelerate research towards effective medical treatments and optimizing health, it is critical that efficient and automated tools for identifying key research concepts and their experimentally discovered interrelationships are developed.As an activity within the feasibility phase of a project called “Translator” (https://ncats.nih.gov/translator) funded by the National Center for Advancing Translational Sciences (NCATS) to develop a biomedical science knowledge management platform, we designed a Representational State Transfer (REST) web services Application Programming Interface (API) specification, which we call a Knowledge Beacon. Knowledge Beacons provide a standardized basic workflow for the discovery of concepts, their relationships and associated supporting evidence from distributed online repositories of biomedical knowledge. This specification also enforces the annotation of knowledge concepts and statements to the NCATS endorsed the Biolink Model data model and semantic encoding standards (https://biolink.github.io/biolink-model/). Implementation of this API on top of diverse knowledge sources potentially enables their uniform integration behind client software which will facilitate research access and integration of biomedical knowledge.AvailabilityThe API and associated software is open source and currently available for access at https://github.com/NCATS-Tangerine/translator-knowledge-beacon.

scholarly journals API Features Individualizing of Web Services: REST and SOAP

2019 ◽  
Vol 8 (9S) ◽  
pp. 664-671 ◽  
Keyword(s):  
Web Services ◽  
Response Time ◽  
Research Work ◽  
Application Programming Interface ◽  
Memory Usage ◽  
Representational State Transfer ◽  
State Transfer ◽  
Execution Speed ◽  
Application Programming ◽  
Rest Api

Web Services are combination of open protocols and standards to allow communication between client and server. It provides an interoperability between contrasting applications. Representational state Transfer (REST) and Simple Object Access Protocol (SOAP) are the two main popular used web services now-a-days. REST is an architectural style based, whereas SOAP is a underlying protocol. Both services are used to handle the communication on the world wide web (www). Both services have some advantages and drawbacks and it is the decision of web developer to decide which service is best to use according to its requirements. The aim of this research work is to design a REST API and SOAP API by JAX-RS and JAX-WS, respectively and gives a comparative analysis of Application Programming Interface (API) features (in terms of response time, memory usage, execution speed and so on) of these services by using API testing tool like Postman. This gives insight view of which service is better to use as per requirements. The result of experiments shows that the response time of SOAP is approximate takes 4ms to 7ms more than REST. It has been observed that as number of API increases, SOAP takes approximate 1MB to 2MB more memory usage than REST

As-RaD System as a Design Model of the Network Automation Configuration System Based on the REST-API and Django Framework

2020 ◽  
pp. 291-298
Author(s):  
Adian Fatchur Rochim ◽  
Abda Rafi ◽  
Adnan Fauzi ◽  
Kurniawan Teguh Martono
Keyword(s):  
Information Technology ◽  
Application Programming Interface ◽  
Design Model ◽  
Automation System ◽  
Network Configuration ◽  
Web Based ◽  
Representational State Transfer ◽  
Application Programming ◽  
Rest Api ◽  
Python Programming

The use of information technology these days are very high. From business through education activities tend to use this technology most of the time. Information technology uses computer networks for integration and management data. To avoid business problems, the number of network devices installed requires a manageable network configuration for easier maintenance. Traditionally, each of network devices has to be manually configured by network administrators. This process takes time and inefficient. Network automation methods exist to overcome the repetitive process. Design model uses a web-based application for maintenance and automates networking tasks. In this research, the network automation system implemented and built a controller application that used REST API (Representational State Transfer Application Programming Interface) architecture and built by Django framework with Python programming language. The design modeled namely As-RaD System. The network devices used in this research are Cisco CSR1000V because it supports REST API communication to manage its network configuration and could be placed on the server either. The As-RaD System provides 75% faster performance than Paramiko and 92% than NAPALM.

Leveraging Web 2.0 technologies to add value to the IUPAC Solubility Data Series: development of a REST style website and application programming interface (API)

2015 ◽  
Vol 87 (11-12) ◽  
pp. 1127-1137
Author(s):  
Stuart J. Chalk
Keyword(s):  
Application Programming Interface ◽  
Scientific Data ◽  
Lessons Learned ◽  
Data Series ◽  
Representational State Transfer ◽  
Database Construction ◽  
Series Development ◽  
Application Programming ◽  
Rest Api ◽  
Program Interface

AbstractThis paper details an approach to re-purposing scientific data as presented on a web page for the sole purpose of making the data more available for searching and integration into other websites. Data ‘scraping’ is used to extract metadata from a set of pages on the National Institute of Standards and Technology (NIST) website, clean, organize and store the metadata in a MySQL database. The metadata is then used to create a new website at the authors institution using the CakePHP framework to create a representational state transfer (REST) style application program interface (API). The processes used for website analysis, schema development, database construction, metadata scraping, REST API development, and remote data integration are discussed. Lessons learned and tips and tricks on how to get the most out of the process are also included.

scholarly journals Knowledge Beacons: Web services for data harvesting of distributed biomedical knowledge

PLoS ONE ◽  
2021 ◽  
Vol 16 (3) ◽  
pp. e0231916
Author(s):  
Lance M. Hannestad ◽  
Vlado Dančík ◽  
Meera Godden ◽  
Imelda W. Suen ◽  
Kenneth C. Huellas-Bruskiewicz ◽  
...  
Keyword(s):  
Web Services ◽  
Application Programming Interface ◽  
Biomedical Science ◽  
Supporting Evidence ◽  
Biomedical Knowledge ◽  
Representational State Transfer ◽  
Management Platform ◽  
Link Type ◽  
Application Programming ◽  
Automated Tools

The continually expanding distributed global compendium of biomedical knowledge is diffuse, heterogeneous and huge, posing a serious challenge for biomedical researchers in knowledge harvesting: accessing, compiling, integrating and interpreting data, information and knowledge. In order to accelerate research towards effective medical treatments and optimizing health, it is critical that efficient and automated tools for identifying key research concepts and their experimentally discovered interrelationships are developed. As an activity within the feasibility phase of a project called “Translator” (https://ncats.nih.gov/translator) funded by the National Center for Advancing Translational Sciences (NCATS) to develop a biomedical science knowledge management platform, we designed a Representational State Transfer (REST) web services Application Programming Interface (API) specification, which we call a Knowledge Beacon. Knowledge Beacons provide a standardized basic API for the discovery of concepts, their relationships and associated supporting evidence from distributed online repositories of biomedical knowledge. This specification also enforces the annotation of knowledge concepts and statements to the NCATS endorsed the Biolink Model data model and semantic encoding standards (https://biolink.github.io/biolink-model/). Implementation of this API on top of diverse knowledge sources potentially enables their uniform integration behind client software which will facilitate research access and integration of biomedical knowledge. Availability The API and associated software is open source and currently available for access at https://github.com/NCATS-Tangerine/translator-knowledge-beacon.

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