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Evolution of web services in bioinformatics
PBT Neerincx, JAM Leunissen - Briefings in bioinformatics, 2005 - academic.oup.com
Bioinformaticians have developed large collections of tools to make sense of the rapidly
growing pool of molecular biological data. Biological systems tend to be complex and in …
growing pool of molecular biological data. Biological systems tend to be complex and in …
Detection of treatment-induced changes in signaling pathways in gastrointestinal stromal tumors using transcriptomic data
Cell signaling plays a central role in the etiology of cancer. Numerous therapeutics in use or
under development target signaling proteins; however, off-target effects often limit …
under development target signaling proteins; however, off-target effects often limit …
Automated extraction of reported statistical analyses: towards a logical representation of clinical trial literature
Randomized controlled trials are an important source of evidence for guiding clinical
decisions when treating a patient. However, given the large number of studies and their …
decisions when treating a patient. However, given the large number of studies and their …
Preferential activation of the hedgehog pathway by epigenetic modulations in HPV negative HNSCC identified with meta-pathway analysis
Head and neck squamous cell carcinoma (HNSCC) is largely divided into two groups based
on their etiology, human papillomavirus (HPV)-positive and–negative. Global DNA …
on their etiology, human papillomavirus (HPV)-positive and–negative. Global DNA …
Incorporation of gene ontology annotations to enhance microarray data analysis
Typical microarray or GeneChip™ experiments now provide genome-wide measurements
on gene expression across many conditions. Analysis often focuses on only a few of the …
on gene expression across many conditions. Analysis often focuses on only a few of the …
Integrative identification of deregulated miRNA/TF-mediated gene regulatory loops and networks in prostate cancer
AS Afshar, J Xu, J Goutsias - PloS one, 2014 - journals.plos.org
MicroRNAs (miRNAs) have attracted a great deal of attention in biology and medicine. It has
been hypothesized that miRNAs interact with transcription factors (TFs) in a coordinated …
been hypothesized that miRNAs interact with transcription factors (TFs) in a coordinated …
High level of chromosomal aberration in ovarian cancer genome correlates with poor clinical outcome
OBJECTIVES: Structural aberration in chromosomes characterizes almost all human solid
cancers and analysis of those alterations may reveal the history of chromosomal instability …
cancers and analysis of those alterations may reveal the history of chromosomal instability …
Gene expression signatures modulated by epidermal growth factor receptor activation and their relationship to cetuximab resistance in head and neck squamous cell …
Background Aberrant activation of signaling pathways downstream of epidermal growth
factor receptor (EGFR) has been hypothesized to be one of the mechanisms of cetuximab (a …
factor receptor (EGFR) has been hypothesized to be one of the mechanisms of cetuximab (a …
ClutrFree: cluster tree visualization and interpretation
ClutrFree facilitates the visualization and interpretation of clusters or patterns computed from
microarray data through a graphical user interface that displays patterns, membership …
microarray data through a graphical user interface that displays patterns, membership …
OligoRAP–An Oligo Re-Annotation Pipeline to improve annotation and estimate target specificity
Background High throughput gene expression studies using oligonucleotide microarrays
depend on the specificity of each oligonucleotide (oligo or probe) for its target gene …
depend on the specificity of each oligonucleotide (oligo or probe) for its target gene …