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Gene expression profiling predicts clinical outcome of breast cancer
TLDR
DNA microarray analysis on primary breast tumours of 117 young patients is used and supervised classification is applied to identify a gene expression signature strongly predictive of a short interval to distant metastases (‘poor prognosis’ signature) in patients without tumour cells in local lymph nodes at diagnosis, providing a strategy to select patients who would benefit from adjuvant therapy.
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Genetics of gene expression surveyed in maize, mouse and man
Treating messenger RNA transcript abundances as quantitative traits and mapping gene expression quantitative trait loci for these traits has been pursued in gene-specific ways. Transcript abundances…
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Expression profiling reveals off-target gene regulation by RNAi
RNA interference is thought to require near-identity between the small interfering RNA (siRNA) and its cognate mRNA. Here, we used gene expression profiling to characterize the specificity of gene…
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Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer
TLDR
It is found that 60-mer oligonucleotides reliably detect transcript ratios at one copy per cell in complex biological samples, and that ink-jet arrays are compatible with several different sample amplification and labeling techniques.
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Gene expression changes associated with progression and response in chronic myeloid leukemia.
TLDR
A comparison of the gene signatures of chronic, accelerated, and blast phases suggest that the progression of chronic phase CML to advanced phase (accelerated and blast crisis) CML is a two-step rather than a three-step process, with new gene expression changes occurring early in accelerated phase before the accumulation of increased numbers of leukemia blast cells.
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Integrated Genomic and Proteomic Analyses of Gene Expression in Mammalian Cells*S
TLDR
Although the overall pattern of protein expression is similar to that of mRNA expression, the incongruent expression between mRNAs and proteins emphasize the importance of posttranscriptional regulatory mechanisms in cellular development or perturbation that can be unveiled only through integrated analyses of both proteins and m RNAs.
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Experimental annotation of the human genome using microarray technology
TLDR
Using ‘exon’ and ‘tiling’ arrays fabricated by ink-jet oligonucleotide synthesis, an experimental approach is devised to validate and refine computational gene predictions and define full-length transcripts on the basis of co-regulated expression of their exons.
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Modulation of TCR-induced transcriptional profiles by ligation of CD28, ICOS, and CTLA-4 receptors
  • J. Riley, M. Mao, P. Linsley
  • Biology, Medicine
    Proceedings of the National Academy of Sciences…
  • 23 August 2002
TLDR
Near genome-scale expression profiling was used to monitor T cell signal transduction pathways triggered via TCR and/or costimulatory receptors and found that the distinctive functional outcomes of costimulation via CD28 and ICOS are accompanied by relatively few distinct differences in gene expression.
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RNA Interference-Mediated Silencing of Mitotic Kinesin KIF14 Disrupts Cell Cycle Progression and Induces Cytokinesis Failure
TLDR
The ability of siRNA-mediated silencing to generate epiallelic hypomorphs associated with KIF14 depletion indicates that distinct stages during cell cycle progression are disrupted by the differential modulation of Kif14 expression.
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A cell proliferation signature is a marker of extremely poor outcome in a subpopulation of breast cancer patients.
TLDR
It is shown that within a subset of patients characterized by relatively high estrogen receptor expression for their age, the occurrence of metastases is strongly predicted by a homogeneous gene expression pattern almost entirely consisting of cell cycle genes.
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