36 Result(s)
within
Article
Joel S. Bader
English
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Article
Open AccessPriors, population sizes, and power in genome-wide hypothesis tests
Genome-wide tests, including genome-wide association studies (GWAS) of germ-line genetic variants, driver tests of cancer somatic mutations, and transcriptome-wide association tests of RNAseq data, carry a hig...
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Open AccessNext-generation large-scale binary protein interaction network for Drosophila melanogaster
Generating reference maps of interactome networks illuminates genetic studies by providing a protein-centric approach to finding new components of existing pathways, complexes, and processes. We apply state-of...
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Triple negative breast tumors contain heterogeneous cancer cells expressing distinct KRAS-dependent collective and disseminative invasion programs
Inter-patient and intra-tumoral heterogeneity complicate the identification of predictive biomarkers and effective treatments for basal triple negative breast cancer (b-TNBC). Invasion is the initiating event ...
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BRCA1 and S phase DNA repair pathways restrict LINE-1 retrotransposition in human cells
Long interspersed element-1 (LINE-1, or L1) is the only autonomous retrotransposon that is active in human cells. Different host factors have been shown to influence L1 mobility; however, systematic analyses o...
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Open AccessIdentifying the essential genes of Mycobacterium avium subsp. hominissuis with Tn-Seq using a rank-based filter procedure
Mycobacterium avium subsp. hominissuis (MAH) is increasingly recognized as a significant cause of morbidity, particularly in elderly patients or those with immune deficiency or underlying lung impairment. Disease...
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E-cadherin is required for metastasis in multiple models of breast cancer
Metastasis is the major driver of death in patients with cancer. Invasion of surrounding tissues and metastasis have been proposed to initiate following loss of the intercellular adhesion protein, E-cadherin1,2, ...
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Open AccessGenome analysis of Mycobacterium avium subspecies hominissuis strain 109
Infection with Mycobacterium avium is a significant cause of morbidity and its treatment requires the use of multiple antibiotics for more than 12 months. In the current work, we provide the genome sequence, gene...
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Open AccessPR interval genome-wide association meta-analysis identifies 50 loci associated with atrial and atrioventricular electrical activity
Electrocardiographic PR interval measures atrio-ventricular depolarization and conduction, and abnormal PR interval is a risk factor for atrial fibrillation and heart block. Our genome-wide association study o...
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Open AccessHeterozygous diploid and interspecies SCRaMbLEing
SCRaMbLE (Synthetic Chromosome Rearrangement and Modification by LoxP-mediated Evolution) is a genome restructuring technique that can be used in synthetic genomes such as that of Sc2.0, the synthetic yeast ge...
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A toolbox of immunoprecipitation-grade monoclonal antibodies to human transcription factors
A collection of 1,406 high-quality, immunoprecipitation- and immunoblotting-grade monoclonal antibodies to 737 human transcription factors is made available as a community resource, along with all validation d...
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The NIH Protein Capture Reagents Program (PCRP): a standardized protein affinity reagent toolbox
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Tissue matrix arrays for high-throughput screening and systems analysis of cell function
High-throughput tissue arrays allow for evaluation of in vitro cellular responses and correlation to matrix composition.
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Open AccessTranscriptome analysis reveals dysregulation of innate immune response genes and neuronal activity-dependent genes in autism
Recent studies of genomic variation associated with autism have suggested the existence of extreme heterogeneity. Large-scale transcriptomics should complement these results to identify core molecular pathways...
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Genetic association study of QT interval highlights role for calcium signaling pathways in myocardial repolarization
Christopher Newton-Cheh and colleagues report genome-wide association analyses for QT interval, an electrocardiographic measure reflecting myocardial repolarization, in 100,000 individuals. They identify 35 lo...
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Open AccessRNA-Seq optimization with eQTL gold standards
RNA-Sequencing (RNA-Seq) experiments have been optimized for library preparation, map**, and gene expression estimation. These methods, however, have revealed weaknesses in the next stages of analysis of dif...
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Retraction Note: Functional dissection of lysine deacetylases reveals that HDAC1 and p300 regulate AMPK
In response to a concern raised by a reader about inconsistencies in our Letter between the results from the primary microarray screen and cell growth validation studies (Supplementary Table 2), we reviewed th...
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Open AccessEarly innate immunity determines outcome of Mycobacterium tuberculosis pulmonary infection in rabbits
Pulmonary infection of humans by Mycobacterium tuberculosis (Mtb), the causative agent of tuberculosis (TB), results in active disease in 5-10% of individuals, while asymptomatic latent Mtb infection (LTBI) is es...
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Modeling Intercellular Transfer of Biomolecules Through Tunneling Nanotubes
Tunneling nanotubes (TNTs) have previosly been observed as long and thin transient structures forming between cells and intercellular protein transfer through them has been experimentally verified. It is hypot...
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Open AccessMolecular immunologic correlates of spontaneous latency in a rabbit model of pulmonary tuberculosis
Infection of humans with Mycobacterium tuberculosis (Mtb) results in latent tuberculosis infection (LTBI) in 90-95% of immune competent individuals, with no symptoms of active disease. The World Health Organizati...
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Functional dissection of lysine deacetylases reveals that HDAC1 and p300 regulate AMPK
Genetic interaction profiles of human lysine deacetylases are generated by RNA interference knockdown to reveal the involvement of deacetylases in many critical biological processes, including metabolism, the ...
