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Article
Genomic landscape of ductal carcinoma in situ and association with progression
The detection rate of breast ductal carcinoma in situ (DCIS) has increased significantly, raising the concern that DCIS is overdiagnosed and overtreated. Therefore, there is an unmet clinical need to better pr...
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Article
Open AccessDifferentiation-state plasticity is a targetable resistance mechanism in basal-like breast cancer
Intratumoral heterogeneity in cancers arises from genomic instability and epigenomic plasticity and is associated with resistance to cytotoxic and targeted therapies. We show here that cell-state heterogeneity...
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Article
Open AccessQuantification of sensitivity and resistance of breast cancer cell lines to anti-cancer drugs using GR metrics
Traditional means for scoring the effects of anti-cancer drugs on the growth and survival of cell lines is based on relative cell number in drug-treated and control samples and is seriously confounded by unequ...
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Article
Open AccessErratum to: Genome co-amplification upregulates a mitotic gene network activity that predicts outcome and response to mitotic protein inhibitors in breast cancer
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Article
Open AccessGenome co-amplification upregulates a mitotic gene network activity that predicts outcome and response to mitotic protein inhibitors in breast cancer
High mitotic activity is associated with the genesis and progression of many cancers. Small molecule inhibitors of mitotic apparatus proteins are now being developed and evaluated clinically as anticancer agen...
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Article
Open AccessPatient-specific factors influence somatic variation patterns in von Hippel–Lindau disease renal tumours
Cancer development is presumed to be an evolutionary process that is influenced by genetic background and environment. In laboratory animals, genetics and environment are variables that can largely be held con...
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Article
Exome sequencing of desmoplastic melanoma identifies recurrent NFKBIE promoter mutations and diverse activating mutations in the MAPK pathway
Boris Bastian and colleagues report the results of exome sequencing of desmoplastic melanoma. They identify recurrent NFKBIE promoter mutations and diverse mutations leading to activation of the MAPK pathway.
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Article
Open AccessErratum to: Modeling precision treatment of breast cancer
During the type-setting of the final version of the article [1] some of the additional files were swapped. The correct files are republished in this Erratum.
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Article
A community effort to assess and improve drug sensitivity prediction algorithms
A community of researchers report the lessons learned from applying 44 algorithms to predict drug sensitivity in cancer cell lines using genomic, epigenetic and proteomic datasets
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Article
Open AccessModeling precision treatment of breast cancer
First-generation molecular profiles for human breast cancers have enabled the identification of features that can predict therapeutic response; however, little is known about how the various data types can bes...
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Article
Xenografts faithfully recapitulate breast cancer-specific gene expression patterns of parent primary breast tumors
Though xenografts are used extensively for drug development in breast cancer, how well xenografts reflect the breadth of primary breast tumor subtypes has not been well characterized. Moreover, few studies hav...
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Article
Open AccessCross-platform pathway-based analysis identifies markers of response to the PARP inhibitor olaparib
Poly(ADP-ribose) polymerase (PARP) is an enzyme involved in DNA repair. PARP inhibitors can act as chemosensitizers, or operate on the principle of synthetic lethality when used as single agent. Clinical trial...
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Article
Timing chromosomal abnormalities using mutation data
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Article
Timing chromosomal abnormalities using mutation data
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Article
Open AccessAutistic disorder associated with a paternally derived unbalanced translocation leading to duplication of chromosome 15pter-q13.2: a case report
Autism spectrum disorders have been associated with maternally derived duplications that involve the imprinted region on the proximal long arm of chromosome 15. Here we describe a boy with a chromosome 15 dupl...
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Article
Open AccessA systems analysis of the chemosensitivity of breast cancer cells to the polyamine analogue PG-11047
Polyamines regulate important cellular functions and polyamine dysregulation frequently occurs in cancer. The objective of this study was to use a systems approach to study the relative effects of PG-11047, a ...
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Article
Open AccessIntegrated analysis of breast cancer cell lines reveals unique signaling pathways
Cancer is a heterogeneous disease resulting from the accumulation of genetic defects that negatively impact control of cell division, motility, adhesion and apoptosis. Deregulation in signaling along the EgfR-...
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Article
Open AccessMultiple forms of atypical rearrangements generating supernumerary derivative chromosome 15
Maternally-derived duplications that include the imprinted region on the proximal long arm of chromosome 15 underlie a complex neurobehavioral disorder characterized by cognitive impairment, seizures and a sub...
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Article
Open AccessAnalysis of molecular inversion probe performance for allele copy number determination
We have developed a new protocol for using molecular inversion probes to accurately and specifically measure allele copy number. The new protocol provides for significant improvements, including the reduction ...
