BMC Bioinformatics - Latest Articles

The latest research articles published by BMC Bioinformatics

Latest articles

Ongoing advancements in cloud computing provide novel opportunities in scientific computing, especially...

Ongoing advancements in cloud computing provide novel opportunities in scientific computing, especially for distributed workflows. Modern web browsers can now be used as high-performance workstations for query...

Finding genes that are differentially expressed between conditions is an integral part of understanding...

Finding genes that are differentially expressed between conditions is an integral part of understanding the molecular basis of phenotypic variation. In the past decades, DNA microarrays have been used extensiv...

Choosing appropriate primers is probably the single most important factor affecting the polymerase chain...

Choosing appropriate primers is probably the single most important factor affecting the polymerase chain reaction (PCR). Specific amplification of the intended target requires that primers do not have matches ...

RNA-Seq is revolutionizing the way transcript abundances are measured. A key challenge in transcript...

RNA-Seq is revolutionizing the way transcript abundances are measured. A key challenge in transcript quantification from RNA-Seq data is the handling of reads that map to multiple genes or isoforms. This issue...

Correlation networks are increasingly being used in bioinformatics applications. For example, weighted...

Correlation networks are increasingly being used in bioinformatics applications. For example, weighted gene co-expression network analysis is a systems biology method for describing the correlation patterns am...

Erratum to: Efficient experimental design for uncertainty reduction in gene regulatory networks

No description available

MRMPlus: an open source quality control and assessment tool for SRM/MRM assay development

Background: Selected and multiple reaction monitoring involves monitoring a multiplexed assay of proteotypic peptides and associated transitions in mass spectrometry runs. To describe peptide and associated transitions as stable, quantifiable, and reproducible representatives of proteins of interest, experimental and analytical validation is required....

Penalized weighted low-rank approximation for robust recovery of recurrent copy number variations

Background: Copy number variation (CNV) analysis has become one of the most important research areas for understanding complex disease. With increasing resolution of array-based comparative genomic hybridization (aCGH) arrays, more and more raw copy number data are collected for multiple arrays. It is natural to realize the co-existence of both recurrent...

MIA: Mutual Information Analyzer, a graphic user interface program that calculates entropy, vertical and horizontal mutual information of molecular sequence sets

Background: Short and long range correlations in biological sequences are central in genomic studies of covariation. These correlations can be studied using mutual information because it measures the amount of information one random variable contains about the other. Here we present MIA (Mutual Information Analyzer) a user friendly graphic interface...

Bioinformatics approach to predict target genes for dysregulated microRNAs in hepatocellular carcinoma: study on a chemically-induced HCC mouse model

Background: Hepatocellular carcinoma (HCC) is an aggressive epithelial tumor which shows very poor prognosis and high rate of recurrence, representing an urgent problem for public healthcare. MicroRNAs (miRNAs/miRs) are a class of small, non-coding RNAs that attract great attention because of their role in regulation of processes such as cellular growth,...

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