11 Result(s)
within
Hai Fang
Human Genetics
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Article
Open AccessSingle-cell transcriptomics reveal distinct immune-infiltrating phenotypes and macrophage–tumor interaction axes among different lineages of pituitary neuroendocrine tumors
Pituitary neuroendocrine tumors (PitNETs) are common gland neoplasms demonstrating distinctive transcription factors. Although the role of immune cells in PitNETs has been widely recognized, the precise immuno...
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Article
Open AccessIdentification of a novel GR-ARID1a-P53BP1 protein complex involved in DNA damage repair and cell cycle regulation
ARID1a (BAF250), a component of human SWI/SNF chromatin remodeling complexes, is frequently mutated across numerous cancers, and its loss of function has been putatively linked to glucocorticoid resistance. He...
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Article
Open AccessEpigenomic analysis reveals a dynamic and context-specific macrophage enhancer landscape associated with innate immune activation and tolerance
Chromatin states and enhancers associate gene expression, cell identity and disease. Here, we systematically delineate the acute innate immune response to endotoxin in terms of human macrophage enhancer activi...
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Protocol
Genetic Interaction Network Interpretation: A Tidy Data Science Perspective
As practitioners, we aim to provide a consolidated introduction of tidy data science along with routine packages for relational data representation and interpretation, with the focus on analytics related to hu...
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Article
Open AccessThe CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens
The Critical Assessment of Functional Annotation (CAFA) is an ongoing, global, community-driven effort to evaluate and improve the computational annotation of protein function.
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Article
A genetics-led approach defines the drug target landscape of 30 immune-related traits
Most candidate drugs currently fail later-stage clinical trials, largely due to poor prediction of efficacy on early target selection1. Drug targets with genetic support are more likely to be therapeutically vali...
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Article
Open AccessXGR software for enhanced interpretation of genomic summary data, illustrated by application to immunological traits
Biological interpretation of genomic summary data such as those resulting from genome-wide association studies (GWAS) and expression quantitative trait loci (eQTL) studies is one of the major bottlenecks in me...
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Article
Open AccessAn expanded evaluation of protein function prediction methods shows an improvement in accuracy
A major bottleneck in our understanding of the molecular underpinnings of life is the assignment of function to proteins. While molecular experiments provide the most reliable annotation of proteins, their rel...
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Article
A predictive computational framework for direct reprogramming between human cell types
Owen Rackham, Jose Polo, Julian Gough and colleagues present a method, Mogrify, for predicting sets of transcription factors that can induce transdifferentiation between cell types. They show that Mogrify is a...
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Article
Open AccessThe `dnet’ approach promotes emerging research on cancer patient survival
We present the `dnet’ package and apply it to the `TCGA’ mutation and clinical data of >3,000 patients. We uncover the existence of an underlying gene network that at least partially controls cancer `survivaln...
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Article
The evolutionary dynamics of protein networks
