Abstract
Annotating the noncoding portion of the human genome and identifying functional regulatory elements embedded in its sequence creates a continuing challenge. Historically, the functional characterization of regulatory elements has been slow, labor-intensive and inadequate to keep up with the demands of whole-genome analysis. Recently, there has been an explosion of computational techniques and tools available to assist in the annotation of noncoding DNA and improve the accurate prediction of regulatory sequences. Here, we review some of the bioinformatic strategies and computational tools that are increasingly being used to analyze large genomic data sets and to facilitate the high-throughput identification of candidate regulatory sequences in whole genomes.
Keywords: genome, bioinformatic, high-throughput, Haystack
Current Genomics
Title: Finding the Needle in the Haystack: Computational Strategies for Discovering Regulatory Sequences in Genomes
Volume: 4 Issue: 7
Author(s): Ivan Ovcharenko and Gabriela G. Loots
Affiliation:
Keywords: genome, bioinformatic, high-throughput, Haystack
Abstract: Annotating the noncoding portion of the human genome and identifying functional regulatory elements embedded in its sequence creates a continuing challenge. Historically, the functional characterization of regulatory elements has been slow, labor-intensive and inadequate to keep up with the demands of whole-genome analysis. Recently, there has been an explosion of computational techniques and tools available to assist in the annotation of noncoding DNA and improve the accurate prediction of regulatory sequences. Here, we review some of the bioinformatic strategies and computational tools that are increasingly being used to analyze large genomic data sets and to facilitate the high-throughput identification of candidate regulatory sequences in whole genomes.
Export Options
About this article
Cite this article as:
Ovcharenko Ivan and Loots G. Gabriela, Finding the Needle in the Haystack: Computational Strategies for Discovering Regulatory Sequences in Genomes, Current Genomics 2003; 4 (7) . https://dx.doi.org/10.2174/1389202033490169
DOI https://dx.doi.org/10.2174/1389202033490169 |
Print ISSN 1389-2029 |
Publisher Name Bentham Science Publisher |
Online ISSN 1875-5488 |
Call for Papers in Thematic Issues
Advanced AI Techniques in Big Genomic Data Analysis
The thematic issue on "Advanced AI Techniques in Big Genomic Data Analysis" aims to explore the cutting-edge methodologies and applications of artificial intelligence (AI) in the realm of genomic research, where vast amounts of data pose both challenges and opportunities. This issue will cover a broad spectrum of AI-driven strategies, ...read more
Current Genomics in Cardiovascular Research
Cardiovascular diseases are the main cause of death in the world, in recent years we have had important advances in the interaction between cardiovascular disease and genomics. In this Research Topic, we intend for researchers to present their results with a focus on basic, translational and clinical investigations associated with ...read more
Deep learning in Single Cell Analysis
The field of biology is undergoing a revolution in our ability to study individual cells at the molecular level, and to integrate data from multiple sources and modalities. This has been made possible by advances in technologies for single-cell sequencing, multi-omics profiling, spatial transcriptomics, and high-throughput imaging, as well as ...read more
Genomic Insights into Oncology: Harnessing Machine Learning for Breakthroughs in Cancer Genomics.
This special issue aims to explore the cutting-edge intersection of genomics and oncology, with a strong emphasis on original data and experimental validation. While maintaining the focus on how machine learning and advanced data analysis techniques are revolutionizing our understanding and treatment of cancer, this issue will prioritize contributions that ...read more
Related Journals
- Author Guidelines
- Graphical Abstracts
- Fabricating and Stating False Information
- Research Misconduct
- Post Publication Discussions and Corrections
- Publishing Ethics and Rectitude
- Increase Visibility of Your Article
- Archiving Policies
- Peer Review Workflow
- Order Your Article Before Print
- Promote Your Article
- Manuscript Transfer Facility
- Editorial Policies
- Allegations from Whistleblowers
- Announcements
Related Articles
-
New Physiological Targets Within the Kidney for Antihypertensive Therapy
Drug Design Reviews - Online (Discontinued) Perspectives in Proteomics: Structural Folds of a Predicted and an Experimentally Determined Cation Channel
Current Proteomics Drug Therapy in Brugada Syndrome
Current Drug Targets - Cardiovascular & Hematological Disorders The Biology and Therapeutic Potential of the DDAH/ADMA Pathway
Current Pharmaceutical Design New Antiepileptic Drugs: Molecular Targets
Central Nervous System Agents in Medicinal Chemistry Arterial Stiffness and Cardiovascular Drugs
Current Pharmaceutical Design What Makes a Pluripotency Reprogramming Factor?
Current Molecular Medicine Anti-Inflammatory and Anti-Apoptotic Effects of Levosimendan in Decompensated Heart Failure: A Novel Mechanism of Drug-Induced Improvement in Contractile Performance of the Failing Heart
Current Medicinal Chemistry - Cardiovascular & Hematological Agents Myocardial Energy Transport and Heart Failure
Current Cardiology Reviews A Review on Novel Ligand Targeted Delivery for Cardiovascular Disorder
Current Drug Delivery Extracorporeal Shock Wave Therapy in Inflammatory Diseases: Molecular Mechanism that Triggers Anti-Inflammatory Action
Current Medicinal Chemistry Myocardial Quantitative Analysis in Physiological and Pathological Ventricular Hypertrophy: The Increasing Role of Doppler Myocardial Imaging
Current Cardiology Reviews Neurotrophic and Neuroprotective Effects of Muscle Contraction
Current Pharmaceutical Design Progress in Research of K<sub>V</sub>1.1 and K<sub>V</sub>1.3 Channels as Therapeutic Targets
Current Topics in Medicinal Chemistry Postprandial Glucose - A Potential Therapeutic Target to Reduce Cardiovascular Mortality
Current Vascular Pharmacology Roles of miRNA in Cardiovascular Development and Dysfunction
Current Medicinal Chemistry Cerebral Artery Signal Transduction Mechanisms: Developmental Changes in Dynamics and Ca<sup>2+</sup> Sensitivity
Current Vascular Pharmacology Recent Progress in Pharmacological Research of Antioxidants in Pathological Conditions: Cardiovascular Health
Recent Patents on Anti-Infective Drug Discovery Short-term RR-Interval Power Spectral Analysis as a New Tool to Stratify the Risk of Sudden Death in Various Cardiovascular Conditions
Vascular Disease Prevention (Discontinued) Cellular and Molecular Mechanisms of Low Cardiac Output Syndrome after Pediatric Cardiac Surgery
Current Vascular Pharmacology