scholarly journals Deep learning in non coding variant (a brief overview)

2020 ◽  
Vol 18 (3) ◽  
pp. 1432
Author(s):  
Lee Kuan Xin ◽  
Afnizanfaizal Abdullah
Keyword(s):  
Deep Learning ◽  
Data Extraction ◽  
Current Trend ◽  
Genomic Data ◽  
Biological Data ◽  
Data Driven ◽  
Business World ◽  
Major Interest ◽  
Variant Analysis ◽  
Generation Sequencing

<span>The 21st centuries were deemed to be the era of big data. Data driven research had become a necessity. This hold true not only in the business world, yet also in the field of biomedical world. From a few years of biological data extraction and derivation. With the advancement of Next Generation Sequencing, genomics data had grown to become an ambiguous giant which could not keep up with the pace of its advancement in it analysis counter parts. This results in a large amount of unanalysed genomic data. These genomic data consist not only plain information, researcher had discovered the potential of most gene called the non-coding variant and still failing in identifying their function. With the growth in volume of data, there is also a growth of hardware or technologies. With current technologies, we were able to implement a more complex and sophisticated algorithm in analysis these genomics data. The domain of deep learning had become a major interest of researcher as it was proven to have achieve a significant success in deriving insight from various field. This paper aims to review the current trend of non-coding variant analysis using deep learning approach.</span>

Application of Deep Learning in Biological Big Data Analysis

2021 ◽  
pp. 117-148
Author(s):  
Rohit Shukla ◽  
Arvind Kumar Yadav ◽  
Tiratha Raj Singh
Keyword(s):  
Big Data ◽  
Deep Learning ◽  
Data Analysis ◽  
Data Extraction ◽  
Basic Structure ◽  
Big Data Analysis ◽  
Biological Data ◽  
Omics Data ◽  
Hidden Information ◽  
Continuous Development

The meaningful data extraction from the biological big data or omics data is a remaining challenge in bioinformatics. The deep learning methods, which can be used for the prediction of hidden information from the biological data, are widely used in the industry and academia. The authors have discussed the similarity and differences in the widely utilized models in deep learning studies. They first discussed the basic structure of various models followed by their applications in biological perspective. They have also discussed the suggestions and limitations of deep learning. They expect that this chapter can serve as significant perspective for continuous development of its theory, algorithm, and application in the established bioinformatics domain.

scholarly journals Compression of Next-Generation Sequencing Data and of DNA Digital Files

Algorithms ◽  
2020 ◽  
Vol 13 (6) ◽  
pp. 151
Author(s):  
Bruno Carpentieri
Keyword(s):  
Next Generation Sequencing ◽  
Dna Sequences ◽  
Network Traffic ◽  
Large Scale ◽  
Genomic Data ◽  
Biological Data ◽  
Next Generation Sequencing Data ◽  
Next Generation ◽  
Sequencing Data ◽  
Generation Sequencing

The increase in memory and in network traffic used and caused by new sequenced biological data has recently deeply grown. Genomic projects such as HapMap and 1000 Genomes have contributed to the very large rise of databases and network traffic related to genomic data and to the development of new efficient technologies. The large-scale sequencing of samples of DNA has brought new attention and produced new research, and thus the interest in the scientific community for genomic data has greatly increased. In a very short time, researchers have developed hardware tools, analysis software, algorithms, private databases, and infrastructures to support the research in genomics. In this paper, we analyze different approaches for compressing digital files generated by Next-Generation Sequencing tools containing nucleotide sequences, and we discuss and evaluate the compression performance of generic compression algorithms by confronting them with a specific system designed by Jones et al. specifically for genomic file compression: Quip. Moreover, we present a simple but effective technique for the compression of DNA sequences in which we only consider the relevant DNA data and experimentally evaluate its performances.

scholarly journals Aprendizaje de máquina y aprendizaje profundo en biotecnología: aplicaciones, impactos y desafíos

2019 ◽  
Vol 2 (2) ◽  
pp. 7-26
Author(s):  
Edian F. Franco ◽  
Rommel J. Ramos
Keyword(s):  
Machine Learning ◽  
Deep Learning ◽  
Next Generation Sequencing ◽  
Biological Data ◽  
Next Generation ◽  
Next Generation Sequencing Ngs ◽  
Generation Sequencing

La bioinformática es un área que ha modificado la forma en que se diseñan y se desarrollan los experimentos e investigaciones de las áreas biológicas. La biotecnología no ha quedado fuera de los alcances de la bioinformática, impactando directamente áreas como el descubrimiento y el desarrollo de fármacos, mejoramiento de cultivos, biorremediación, estudios de la diversidad ambiental, patología molecular, entre otras. Esto se debe, en gran medida, al desarrollo de las tecnologías de secuenciación de alto rendimiento o Next-generation sequencing (NGS), que han generado gran cantidad de datos que deben ser procesados y analizados para producir nuevos conocimientos y descubrimientos. Lo anterior ha promovido que dos áreas de la bioinformática y la ciencia de la computación, machine learning y deep learning, hayan sido utilizadas para el análisis de estos datos. El “aprendizaje de máquina” aplica técnicas que permiten que las computadoras aprendan, mientras que el “aprendizaje profundo” genera modelos de redes neuronales artificiales que intenta imitar el funcionamiento del cerebro humano, permitiéndoles aprender a partir de los datos y mejorar su aprendizaje a través de las experiencias. Estas dos áreas son esenciales para poder identificar, analizar, interpretar y obtener conocimientos de la gran cantidad de datos biológicos (Big biological data). En este trabajo hacemos una revisión de estas dos áreas: el aprendizaje de máquina y el aprendizaje profundo, orientado al impacto y sus aplicaciones en el área de biotecnología.    

Customer satisfaction in purchasing mobile phones: An explorative study

Think India ◽  
2019 ◽  
Vol 22 (3) ◽  
pp. 1751-1757
Author(s):  
Rohith Raja M ◽  
Ida David
Keyword(s):  
Customer Satisfaction ◽  
Mobile Phones ◽  
Current Trend ◽  
Essential Element ◽  
Manufacturing Companies ◽  
Customer Requirements ◽  
Business World ◽  
Large Market ◽  
Explorative Study

Customers hold the key role in determining the market of any material. The demand and requirements of the customers are taken into account while the manufacturers produce any product. Mobile phones, being an essential element in today’s world, occupy a large market in today’s business world. Customer satisfaction is the prime motive of the manufacturing companies. Based on a survey conducted, we study the current trend of phone purchase in India and thus analyze the customer’s responses towards different brands and their products. The results depict which brands satisfy the customer requirements.

Review of the Applications of Deep Learning in Bioinformatics

2021 ◽  
Vol 15 (8) ◽  
pp. 898-911
Author(s):  
Yongqing Zhang ◽  
Jianrong Yan ◽  
Siyu Chen ◽  
Meiqin Gong ◽  
Dongrui Gao ◽  
...  
Keyword(s):  
Deep Learning ◽  
Drug Discovery ◽  
Biomedical Imaging ◽  
State Of The Art ◽  
Black Box ◽  
Medical Data ◽  
Biological Data ◽  
High Dimensional ◽  
Biological Research ◽  
Process Data

Rapid advances in biological research over recent years have significantly enriched biological and medical data resources. Deep learning-based techniques have been successfully utilized to process data in this field, and they have exhibited state-of-the-art performances even on high-dimensional, nonstructural, and black-box biological data. The aim of the current study is to provide an overview of the deep learning-based techniques used in biology and medicine and their state-of-the-art applications. In particular, we introduce the fundamentals of deep learning and then review the success of applying such methods to bioinformatics, biomedical imaging, biomedicine, and drug discovery. We also discuss the challenges and limitations of this field, and outline possible directions for further research.

scholarly journals High-Resolution ISAR Imaging and Autofocusing via 2D-ADMM-Net

2021 ◽  
Vol 13 (12) ◽  
pp. 2326
Author(s):  
Xiaoyong Li ◽  
Xueru Bai ◽  
Feng Zhou
Keyword(s):  
Deep Learning ◽  
High Resolution ◽  
Phase Error ◽  
Random Phase ◽  
Back Propagation ◽  
Estimation Method ◽  
Data Driven ◽  
Reconstruction Performance ◽  
Imaging Results ◽  
Isar Imaging

A deep-learning architecture, dubbed as the 2D-ADMM-Net (2D-ADN), is proposed in this article. It provides effective high-resolution 2D inverse synthetic aperture radar (ISAR) imaging under scenarios of low SNRs and incomplete data, by combining model-based sparse reconstruction and data-driven deep learning. Firstly, mapping from ISAR images to their corresponding echoes in the wavenumber domain is derived. Then, a 2D alternating direction method of multipliers (ADMM) is unrolled and generalized to a deep network, where all adjustable parameters in the reconstruction layers, nonlinear transform layers, and multiplier update layers are learned by an end-to-end training through back-propagation. Since the optimal parameters of each layer are learned separately, 2D-ADN exhibits more representation flexibility and preferable reconstruction performance than model-driven methods. Simultaneously, it is able to better facilitate ISAR imaging with limited training samples than data-driven methods owing to its simple structure and small number of adjustable parameters. Additionally, benefiting from the good performance of 2D-ADN, a random phase error estimation method is proposed, through which well-focused imaging can be acquired. It is demonstrated by experiments that although trained by only a few simulated images, the 2D-ADN shows good adaptability to measured data and favorable imaging results with a clear background can be obtained in a short time.

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