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Results 1 - 10
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1,428
Automated worm fingerprinting
- In OSDI
, 2004
"... Network worms are a clear and growing threat to the security of today’s Internet-connected hosts and networks. The combination of the Internet’s unrestricted connectivity and widespread software homogeneity allows network pathogens to exploit tremendous parallelism in their propagation. In fact, mod ..."
Abstract
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Cited by 317 (9 self)
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as for several new worms and viruses which were unknown at the time our system identified them. Our initial experience suggests that, for a wide range of network pathogens, it may be practical to construct fully automated defenses – even against so-called “zero-day” epidemics. 1
Network-based stratification of tumor mutations
- Nat. Methods
, 2013
"... Many forms of cancer have multiple subtypes with different causes and clinical outcomes. Somatic tumor genomes provide a rich new source of data for uncovering these subtypes but have proven difficult to compare as two tumors rarely share the same mutations. Here, we introduce a method called Networ ..."
Abstract
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Cited by 12 (0 self)
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Network Based Stratification (NBS) which integrates somatic tumor genomes with gene networks. This approach allows for stratification of cancer into informative subtypes by clustering together patients with mutations in similar network regions. We demonstrate NBS in ovarian, uterine and lung cancer
Multiplexed protein quantitation in Saccharomyces cerevisiae using aminereactive isobaric tagging reagents,”
- Molecular and Cellular Proteomics,
, 2004
"... We describe here a multiplexed protein quantitation strategy that provides relative and absolute measurements of proteins in complex mixtures. At the core of this methodology is a multiplexed set of isobaric reagents that yield amine-derivatized peptides. The derivatized peptides are indistinguisha ..."
Abstract
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Cited by 248 (1 self)
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to 3 decay pathways, respectively. We also demonstrate the use of 4-fold multiplexing to enable relative protein measurements simultaneously with determination of absolute levels of a target protein using synthetic isobaric peptide standards. We find that inactivation of Upf1p and Xrn1p causes common
A Network-Based Method for Predicting Disease-Causing Genes
"... A fundamental problem in human health is the inference of disease-causing genes, with important applications to diagnosis and treatment. Previous work in this direction relied on knowledge of multiple loci associated with the disease, or causal genes for similar diseases, which limited its applicabi ..."
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Cited by 20 (0 self)
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applicability. Here we present a new approach to causal gene prediction that is based on integrating protein-protein interaction network data with gene expression data under a condition of interest. The latter are used to derive a set of disease-related genes which is assumed to be in close proximity
A Coupled Three-Step Network-Based Approach to Identify Genes Associated with Breast Cancer
"... Abstract—New biomarker candidates for breast cancer re-currence are urgently needed to provide patients an optimal treatment and avoid “overtreatment ” where patients needlessly suffer from the toxic side effects of chemotherapy. In this work, we present a new network-based approach to identify biom ..."
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Abstract—New biomarker candidates for breast cancer re-currence are urgently needed to provide patients an optimal treatment and avoid “overtreatment ” where patients needlessly suffer from the toxic side effects of chemotherapy. In this work, we present a new network-based approach to identify
Biomolecular Network-Based Synergistic Drug Combination Discovery
"... Drug combination is a powerful and promising approach for complex disease therapy such as cancer and cardiovascular disease. However, the number of synergistic drug combinations approved by the Food and Drug Administration is very small. To bridge the gap between urgent need and low yield, research ..."
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, researchers have constructed various models to identify synergistic drug combinations. Among these models, biomolecular network-based model is outstanding because of its ability to reflect and illustrate the relationships among drugs, disease-related genes, therapeutic targets, and disease-specific signaling
Gene Network-based Cancer Prognosis Analysis with Sparse Boosting
"... Background: High-throughput gene profiling studies have been extensively conducted, searching for markers associated with cancer development and progression. In this study, we analyze cancer prognosis studies where the response variables are censored survival. With gene expression data, we adopt the ..."
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Cited by 1 (0 self)
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data with gene expression measurements, our goal is to identify cancer markers, while properly accounting for the network module structure. Results: A two-step sparse boosting-based approach, called NSBoost (Network-based Sparse Boosting), is proposed for marker selection. In the first step for each
Review Article Survey of Network-Based Approaches to Research of Cardiovascular Diseases
"... License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Cardiovascular diseases (CVDs) are the leading health problem worldwide. Investigating causes and mechanisms of CVDs calls for an integrative approach that would take ..."
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successfully been used for identifying genes, pathways, andmodules that governmolecular actions underlying various complex diseases. Here, we review approaches that explore and use relationships between topological properties of biological networks and mechanisms underlying CVDs. 1.
C (2010) Automated network analysis identifies core pathways in glioblastoma
- PLoS ONE
"... Background: Glioblastoma multiforme (GBM) is the most common and aggressive type of brain tumor in humans and the first cancer with comprehensive genomic profiles mapped by The Cancer Genome Atlas (TCGA) project. A central challenge in large-scale genome projects, such as the TCGA GBM project, is th ..."
Abstract
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Cited by 70 (3 self)
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, is the ability to distinguish cancer-causing ‘‘driver’ ’ mutations from passively selected ‘‘passenger’ ’ mutations. Principal Findings: In contrast to a purely frequency based approach to identifying driver mutations in cancer, we propose an automated network-based approach for identifying candidate oncogenic
RESEARCH ARTICLE Pathway Relevance Ranking for Tumor Samples through Network-Based Data Integration
"... be (KM) The study of cancer, a highly heterogeneous disease with different causes and clinical out-comes, requires a multi-angle approach and the collection of large multi-omics datasets that, ideally, should be analyzed simultaneously. We present a new pathway relevance ranking method that is able ..."
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be (KM) The study of cancer, a highly heterogeneous disease with different causes and clinical out-comes, requires a multi-angle approach and the collection of large multi-omics datasets that, ideally, should be analyzed simultaneously. We present a new pathway relevance ranking method that is able
Results 1 - 10
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1,428
