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Best practices for benchmarking germline small-variant calls in human genomes

Nature biotechnology, 2019-05, Vol.37 (5), p.555-560

2019

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Towards accurate indel calling for oncopanel sequencing through an international pipeline competition at precisionFDA

Scientific reports, 2024-04, Vol.14 (1), p.8165-8165, Article 8165

2024

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Author Correction: Best practices for benchmarking germline small-variant calls in human genomes

Nature biotechnology, 2019-05, Vol.37 (5), p.567-567

2019

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Integrating data on DNA copy number with gene expression levels and drug sensitivities in the NCI-60 cell line panel

Molecular cancer therapeutics, 2006-04, Vol.5 (4), p.853-867

2006

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Morphological and molecular genetic diversity of Syrian indigenous goat populations

African journal of biotechnology, 2016-05, Vol.15 (18), p.745-758

2016

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In silico Analysis of Vaccination Adverse Events

Journal of allergy and clinical immunology, 2015-02, Vol.135 (2), p.AB104-AB104

2015

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GoMiner: a resource for biological interpretation of genomic and proteomic data

Genome biology, 2003-01, Vol.4 (4), p.R28-R28, Article R28

2003

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Chromosomal Instability Is Associated with Higher Expression of Genes Implicated in Epithelial-Mesenchymal Transition, Cancer Invasiveness, and Metastasis and with Lower Expression of Genes Involved in Cell Cycle Checkpoints, DNA Repair, and Chromatin Maintenance

Neoplasia (New York, N.Y.), 2008-11, Vol.10 (11), p.1222,IN10-1230,IN26

2008

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The impact of misclassification errors on the performance of biomarkers based on next-generation sequencing, a simulation study

Journal of biopharmaceutical statistics, 2024-09, Vol.34 (5), p.700-718

2024

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Cytochrome P450 and Glutathione Transferase Expression in Human Breast Cancer

Clinical cancer research, 2003-05, Vol.9 (5), p.1705-1709

2003

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Detailed DNA methylation profiles of the E-cadherin promoter in the NCI-60 cancer cells

Molecular cancer therapeutics, 2007-02, Vol.6 (2), p.391-403

2007

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A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium

Nature biotechnology, 2014-09, Vol.32 (9), p.903-914

Anon

2014

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Comparison of RNA-seq and microarray-based models for clinical endpoint prediction

Genome Biology, 2015-06, Vol.16 (1), p.133, Article 133

2015

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Karyotypic "State" as a Potential Determinant for Anticancer Drug Discovery

Proceedings of the National Academy of Sciences - PNAS, 2005-02, Vol.102 (8), p.2964-2969

2005

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Assessing reproducibility of inherited variants detected with short-read whole genome sequencing

Genome Biology, 2022-01, Vol.23 (1), p.2-26, Article 2

2022

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A targeted simulation‐extrapolation method for evaluating biomarkers based on new technologies in precision medicine

Pharmaceutical statistics : the journal of the pharmaceutical industry, 2022-05, Vol.21 (3), p.584-598

2022

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Predicting drug sensitivity and resistance: Profiling ABC transporter genes in cancer cells

Cancer cell, 2004-08, Vol.6 (2), p.129-137

2004

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Levels of 5-Hydroxymethyl-2′-deoxyuridine in DNA from Blood of Women Scheduled for Breast Biopsy

Cancer epidemiology, biomarkers & prevention, 2001-02, Vol.10 (2), p.147-149

2001

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Extend the benchmarking indel set by manual review using the individual cell line sequencing data from the Sequencing Quality Control 2 (SEQC2) project

Scientific reports, 2024-03, Vol.14 (1), p.7028-7028, Article 7028

2024

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Interleukin‐4 receptor alpha overexpression in human bladder cancer correlates with the pathological grade and stage of the disease

Cancer medicine (Malden, MA), 2014-12, Vol.3 (6), p.1615-1628

2014

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US FDA public meeting: identification of concepts and terminology for multicomponent biomarkers

Biomarkers in medicine, 2023-06, Vol.17 (11), p.523-531

2023

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Karyotypic complexity of the NCI-60 drug-screening panel

Cancer research (Chicago, Ill.), 2003-12, Vol.63 (24), p.8634-8647

2003

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Challenges in DNA Microarray Studies from the Regulatory Perspective

Journal of biopharmaceutical statistics, 2008-01, Vol.18 (1), p.183-202

Lababidi, Samir

2008

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Targeting Angiogenesis via a c-Myc/Hypoxia-Inducible Factor-1α―Dependent Pathway in Multiple Myeloma

Cancer research (Chicago, Ill.), 2009-06, Vol.69 (12), p.5082-5090

2009

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Gene markers of cellular aging in human multipotent stromal cells in culture

Stem cell research & therapy, 2014-04, Vol.5 (2), p.59-59, Article 59

2014

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Best practices for benchmarking germline small-variant calls in human genomes

Towards accurate indel calling for oncopanel sequencing through an international pipeline competition at precisionFDA

Author Correction: Best practices for benchmarking germline small-variant calls in human genomes

Integrating data on DNA copy number with gene expression levels and drug sensitivities in the NCI-60 cell line panel

Morphological and molecular genetic diversity of Syrian indigenous goat populations

In silico Analysis of Vaccination Adverse Events

GoMiner: a resource for biological interpretation of genomic and proteomic data

Chromosomal Instability Is Associated with Higher Expression of Genes Implicated in Epithelial-Mesenchymal Transition, Cancer Invasiveness, and Metastasis and with Lower Expression of Genes Involved in Cell Cycle Checkpoints, DNA Repair, and Chromatin Maintenance

The impact of misclassification errors on the performance of biomarkers based on next-generation sequencing, a simulation study

Cytochrome P450 and Glutathione Transferase Expression in Human Breast Cancer

Detailed DNA methylation profiles of the E-cadherin promoter in the NCI-60 cancer cells

A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium

Comparison of RNA-seq and microarray-based models for clinical endpoint prediction

Karyotypic "State" as a Potential Determinant for Anticancer Drug Discovery

Assessing reproducibility of inherited variants detected with short-read whole genome sequencing

A targeted simulation‐extrapolation method for evaluating biomarkers based on new technologies in precision medicine

Predicting drug sensitivity and resistance: Profiling ABC transporter genes in cancer cells

Levels of 5-Hydroxymethyl-2′-deoxyuridine in DNA from Blood of Women Scheduled for Breast Biopsy

Extend the benchmarking indel set by manual review using the individual cell line sequencing data from the Sequencing Quality Control 2 (SEQC2) project

Interleukin‐4 receptor alpha overexpression in human bladder cancer correlates with the pathological grade and stage of the disease

US FDA public meeting: identification of concepts and terminology for multicomponent biomarkers

Karyotypic complexity of the NCI-60 drug-screening panel

Challenges in DNA Microarray Studies from the Regulatory Perspective

Targeting Angiogenesis via a c-Myc/Hypoxia-Inducible Factor-1α―Dependent Pathway in Multiple Myeloma

Gene markers of cellular aging in human multipotent stromal cells in culture

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