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Article
Open AccessAuthor Correction: The immunoregulatory landscape of human tuberculosis granulomas
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Article
Open AccessThe immunoregulatory landscape of human tuberculosis granulomas
Tuberculosis (TB) in humans is characterized by formation of immune-rich granulomas in infected tissues, the architecture and composition of which are thought to affect disease outcome. However, our understand...
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Article
Author Correction: An inflammatory aging clock (iAge) based on deep learning tracks multimorbidity, immunosenescence, frailty and cardiovascular aging
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Article
An inflammatory aging clock (iAge) based on deep learning tracks multimorbidity, immunosenescence, frailty and cardiovascular aging
While many diseases of aging have been linked to the immunological system, immune metrics capable of identifying the most at-risk individuals are lacking. From the blood immunome of 1,001 individuals aged 8–96...
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Article
Open AccessHLA-B57 micropolymorphism defines the sequence and conformational breadth of the immunopeptidome
Immunophenotypic differences between closely related human leukocyte antigen (HLA) alleles have been associated with divergent clinical outcomes in infection, autoimmunity, transplantation and drug hypersensit...
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Article
Open AccessTradict enables accurate prediction of eukaryotic transcriptional states from 100 marker genes
Transcript levels are a critical determinant of the proteome and hence cellular function. Because the transcriptome is an outcome of the interactions between genes and their products, it may be accurately repr...
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Article
Expression of specific inflammasome gene modules stratifies older individuals into two extreme clinical and immunological states
Differential expression of inflammasome gene modules and inflammasome-activating metabolites correlates with interleukin-1β expression, hypertension, arterial stiffness and longevity in older individuals.
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Chapter and Conference Paper
Classification of Prostate Cancer Grades and T-Stages Based on Tissue Elasticity Using Medical Image Analysis
In this paper, we study the correlation of tissue (i.e. prostate) elasticity with the spread and aggression of prostate cancers. We describe an improved, in-vivo method that estimates the individualized, relat...
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Chapter and Conference Paper
Learning Microbial Interaction Networks from Metagenomic Count Data
Many microbes associate with higher eukaryotes and impact their vitality. In order to engineer microbiomes for host benefit, we must understand the rules of community assembly and maintenence, which in large p...
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Chapter and Conference Paper
An Alignment-Free Regression Approach for Estimating Allele-Specific Expression Using RNA-Seq Data
RNA-seq technology enables large-scale studies of allele-specific expression (ASE), or the expression difference between maternal and paternal alleles. Here, we study ASE in animals for which parental RNA-seq ...
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Article
Identification of transcriptional regulators in the mouse immune system
The transcriptional circuitry that controls the differentiation of hematopoietic stem cells into cells of the immune system is only partially understood. Koller and colleagues use a computational algorithm to ...
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Chapter and Conference Paper
Robust Multimodal Dictionary Learning
We propose a robust multimodal dictionary learning method for multimodal images. Joint dictionary learning for both modalities may be impaired by lack of correspondence between image modalities in training dat...
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Article
Deciphering the transcriptional network of the dendritic cell lineage
The transcriptional regulation of commitment to the dendritic cell (DC) lineage and functional specialization of DCs in vivo is poorly understood. In this Resource, Merad and colleagues identify the lineage relat...
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Chapter and Conference Paper
Genovo: De Novo Assembly for Metagenomes
Next-generation sequencing technologies produce a large number of noisy reads from the DNA in a sample. Metagenomics and population sequencing aim to recover the genomic sequences of the species in the sample,...
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Chapter and Conference Paper
Constructing Treatment Portfolios Using Affinity Propagation
A key problem of interest to biologists and medical researchers is the selection of a subset of queries or treatments that provide maximum utility for a population of targets. For example, when studying how ge...
