scholarly journals C-State: an interactive web app for simultaneous multi-gene visualization and comparative epigenetic pattern search

2017 ◽  
Vol 18 (S10) ◽  
Author(s):  
Divya Tej Sowpati ◽  
Surabhi Srivastava ◽  
Jyotsna Dhawan ◽  
Rakesh K Mishra
2017 ◽  
Author(s):  
Divya Tej Sowpati ◽  
Surabhi Srivastava ◽  
Jyotsna Dhawan ◽  
Rakesh K Mishra

AbstractBackgroundComparative epigenomic analysis across multiple genes presents a bottleneck for bench biologists working with NGS data. Despite the development of standardized peak analysis algorithms, the identification of novel epigenetic patterns and their visualization across gene subsets remains a challenge.ResultsWe developed a fast and interactive web app, C-State (Chromatin-State), to query and plot chromatin landscapes across multiple loci and cell types. C-State has an interactive, JavaScript- based graphical user interface and runs locally in modern web browsers that are pre-installed on all computers, thus eliminating the need for cumbersome data transfer, pre-processing and prior programming knowledge.ConclusionsC-State is unique in its ability to extract and analyze multi-gene epigenetic information. It allows for powerful GUI-based pattern searching and visualization. We include a case study to demonstrate its potential for identifying user-defined epigenetic trends in context of gene expression profiles.


Author(s):  
Albert Panjaitan ◽  
Hairul Amren ◽  
Darmeli Nasution ◽  
Rizaldy Khair ◽  
Iswandi Idris

Perkembangan yang sangat pesat terjadi pada bidang teknologi informasi dan telekomunikasi saat ini mendorong masyarakta dunia memasuki era revolusi industri 4.0 yang serba cepat, sekaligus menjadikan informasi sentral dalam dunia industri maupun dunia usaha hingga dunia pendidikan. Akademi Teknik dan Keselamatan Penerbangan (ATKP) Medan merupakan institusi pendidikan di bawah naungan pemerintah yang sudah mulai menggunakan berbagai hal teknologi informasi dan telekomunikasi. Dengan adanya perkembangan tersebut berdampak memeberikan fasilitas yang dapat digunakan oleh pengguna layanan komunikasi, dan informasi, seperti Short Message Service (SMS) hingga sistem berbasis aplikasi menggunakan smartphone android maupun iOS. Layanan aplikasi sms hingga sistem aplikasi tersebut adalah teknologi yang memungkinkan manusia untuk mendapatkan atau mengirimkankan informasi kapanpun dan dimanapun dibutuhkan. Penelitian ini bertujuan untuk membuat sistem aplikasi monitoring evaluasi pelaporan kegiatan taruna di ATKP medan berbasis web app. Dalam pembuatannya, aplikasi ini disesuaikan dengan kenutuhan user/orang tua taruna dan institusi ATKP secara umum. Sistem aplikasi ini akan memberikan kemudahan kepada orang tua taruna dalam memonitoring, kegiatan hingga prilaku taruna selama pendidikan di ATKP Medan serta  kemudahan mengakses nilai dengan cepat. Sistem aplikasi ini dibuat dengan menggunakan bahasa pemrograman php (web).


2003 ◽  
Author(s):  
Mark A. Abramson ◽  
Olga A. Brezhneva ◽  
Jr Dennis ◽  
J. E.

2014 ◽  
Vol 33 (3) ◽  
pp. 45 ◽  
Author(s):  
David Ward ◽  
James Hahn ◽  
Lori Mestre

<p>This article presents a case study exploring the use of a student Coding Camp as a bottom-up mobile design process to generate library mobile apps. A code camp sources student programmer talent and ideas for designing software services and features.  This case study reviews process, outcomes, and next steps in mobile web app coding camps. It concludes by offering implications for services design beyond the local camp presented in this study. By understanding how patrons expect to integrate library services and resources into their use of mobile devices, librarians can better design the user experience for this environment.</p>


2001 ◽  
Vol 20 (1) ◽  
pp. 37-41 ◽  
Author(s):  
Robert Graham
Keyword(s):  

Author(s):  
Siamak Mirzaei ◽  
Trent Lewis ◽  
Mirella Wyra ◽  
Brett Wilkinson
Keyword(s):  

2021 ◽  
pp. 193229682110289
Author(s):  
Evan Olawsky ◽  
Yuan Zhang ◽  
Lynn E Eberly ◽  
Erika S Helgeson ◽  
Lisa S Chow

Background: With the development of continuous glucose monitoring systems (CGMS), detailed glycemic data are now available for analysis. Yet analysis of this data-rich information can be formidable. The power of CGMS-derived data lies in its characterization of glycemic variability. In contrast, many standard glycemic measures like hemoglobin A1c (HbA1c) and self-monitored blood glucose inadequately describe glycemic variability and run the risk of bias toward overreporting hyperglycemia. Methods that adjust for this bias are often overlooked in clinical research due to difficulty of computation and lack of accessible analysis tools. Methods: In response, we have developed a new R package rGV, which calculates a suite of 16 glycemic variability metrics when provided a single individual’s CGM data. rGV is versatile and robust; it is capable of handling data of many formats from many sensor types. We also created a companion R Shiny web app that provides these glycemic variability analysis tools without prior knowledge of R coding. We analyzed the statistical reliability of all the glycemic variability metrics included in rGV and illustrate the clinical utility of rGV by analyzing CGM data from three studies. Results: In subjects without diabetes, greater glycemic variability was associated with higher HbA1c values. In patients with type 2 diabetes mellitus (T2DM), we found that high glucose is the primary driver of glycemic variability. In patients with type 1 diabetes (T1DM), we found that naltrexone use may potentially reduce glycemic variability. Conclusions: We present a new R package and accompanying web app to facilitate quick and easy computation of a suite of glycemic variability metrics.


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