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Oligonucleotide Array Sequence Analysis

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Molecular classification of amyotrophic lateral sclerosis by unsupervised clustering of gene expression in motor cortex.

Neurobiology of disease
Amyotrophic lateral sclerosis (ALS) is a rapidly progressive and ultimately fatal neurodegenerative disease, caused by the loss of motor neurons in the brain and spinal cord. Although 10% of ALS cases are familial (FALS), the majority are sporadic (S...

Selective invocation of shape priors for deformable segmentation and morphologic classification of prostate cancer tissue microarrays.

Computerized medical imaging and graphics : the official journal of the Computerized Medical Imaging Society
Shape based active contours have emerged as a natural solution to overlap resolution. However, most of these shape-based methods are computationally expensive. There are instances in an image where no overlapping objects are present and applying thes...

Inter-species pathway perturbation prediction via data-driven detection of functional homology.

Bioinformatics (Oxford, England)
MOTIVATION: Experiments in animal models are often conducted to infer how humans will respond to stimuli by assuming that the same biological pathways will be affected in both organisms. The limitations of this assumption were tested in the IMPROVER ...

The limitations of simple gene set enrichment analysis assuming gene independence.

Statistical methods in medical research
Since its first publication in 2003, the Gene Set Enrichment Analysis method, based on the Kolmogorov-Smirnov statistic, has been heavily used, modified, and also questioned. Recently a simplified approach using a one-sample t-test score to assess en...

Establishment of diagnostic model and identification of diagnostic markers between liver cancer and cirrhosis based on multi-chip and machine learning.

Clinical and experimental pharmacology & physiology
OBJECTIVE: Most cases of hepatocellular carcinoma (HCC) arise as a consequence of cirrhosis. In this study, our objective is to construct a comprehensive diagnostic model that investigates the diagnostic markers distinguishing between cirrhosis and H...

Screening of key immunerelated gene in Parkinsons disease based on WGCNA and machine learning.

Zhong nan da xue xue bao. Yi xue ban = Journal of Central South University. Medical sciences
OBJECTIVES: Abnormal immune system activation and inflammation are crucial in causing Parkinson's disease. However, we still don't fully understand how certain immune-related genes contribute to the disease's development and progression. This study a...

Chaotic emperor penguin optimised extreme learning machine for microarray cancer classification.

IET systems biology
Microarray technology plays a significant role in cancer classification, where a large number of genes and samples are simultaneously analysed. For the efficient analysis of the microarray data, there is a great demand for the development of intellig...

Feature specific quantile normalization enables cross-platform classification of molecular subtypes using gene expression data.

Bioinformatics (Oxford, England)
MOTIVATION: Molecular subtypes of cancers and autoimmune disease, defined by transcriptomic profiling, have provided insight into disease pathogenesis, molecular heterogeneity and therapeutic responses. However, technical biases inherent to different...