ReviewBriefings in functional genomics & proteomics2009
Identifying regulatory elements in eukaryotic genomes.
Review in Briefings in functional genomics & proteomics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
50 citing papers in PubMed.
- The evaluation of transcription factor binding site prediction tools in human and Arabidopsis genomes.BMC bioinformatics · 2024Article
- Comprehensive analysis of transcription factor binding sites and expression profiling of rice pathogenesis related genes (Frontiers in plant science · 2024Article
- Role of non-coding variants in cardiovascular disease.Journal of cellular and molecular medicine · 2023Review
- Low-nutrient diet inOpen biology · 2023Article
- CRISPR/Cas9 and FLP-FRT mediated regulatory dissection of the BX-C of Drosophila melanogaster.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2023Article
- Bioinformatic Evaluation of Features on Cis-regulatory Elements at 6q25.1.Bioinformatics and biology insights · 2023Review
- Genome-wide Association Studies of REST Gene Associated Neurological Diseases/traits with Related Single Nucleotide Polymorphisms.Current neurovascular research · 2023Article
- Accurate prediction of functional states of cis-regulatory modules reveals common epigenetic rules in humans and mice.BMC biology · 2022Article
- regCNN: identifyingComputational and structural biotechnology journal · 2022Article
- An explainable artificial intelligence approach for decoding the enhancer histone modifications code and identification of novel enhancers in Drosophila.Genome biology · 2021Article
- TSSFinder-fast and accurate ab initio prediction of the core promoter in eukaryotic genomes.Briefings in bioinformatics · 2021Article
- Interpreting machine learning models to investigate circadian regulation and facilitate exploration of clock function.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- Development of a stable transgenic Theileria equi parasite expressing an enhanced green fluorescent protein/blasticidin S deaminase.Scientific reports · 2021Article
- The evolution of hemocyanin genes in Tectipleura: a multitude of conserved introns in highly diverse gastropods.BMC ecology and evolution · 2021Article
- Review
- MPRAdecoder: Processing of the Raw MPRA Data WithFrontiers in genetics · 2021Article
- Homeotic Genes: Clustering, Modularity, and Diversity.Frontiers in cell and developmental biology · 2021Review
- Genome-wide identification of accessible chromatin regions in bumblebee by ATAC-seq.Scientific data · 2020Article
- New Biological Morphogenetic Methods for Evolutionary Design of Robot Bodies.Frontiers in bioengineering and biotechnology · 2020Review
- Cis-Regulatory Code for Predicting Plant Cell-Type Transcriptional Response to High Salinity.Plant physiology · 2019Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
Abstract
Proper development and functioning of an organism depends on precise spatial and temporal expression of all its genes. These coordinated expression-patterns are maintained primarily through the process of transcriptional regulation. Transcriptional regulation is mediated by proteins binding to regulatory elements on the DNA in a combinatorial manner, where particular combinations of transcription factor binding sites establish specific regulatory codes. In this review, we survey experimental and computational approaches geared towards the identification of proximal and distal gene regulatory elements in the genomes of complex eukaryotes. Available approaches that decipher the genetic structure and function of regulatory elements by exploiting various sources of information like gene expression data, chromatin structure, DNA-binding specificities of transcription factors, cooperativity of transcription factors, etc. are highlighted. We also discuss the relevance of regulatory elements in the context of human health through examples of mutations in some of these regions having serious implications in misregulation of genes and being strongly associated with human disorders.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.