Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain
the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in
Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles
and JavaScript.
Dick and colleagues map the transcriptional dynamics of human hematopoietic stem cells and early progenitor populations. The authors show that transcriptional programs are extensively shared, extend across lineage-potential boundaries and are not strictly lineage affiliated.
The differentiation of αβ T cells is a complex process. Using data sets from the Immunological Genome Project, Benoist and colleagues identify candidate mediators of key transitions during thymocyte selection and maturation.
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 identify previously unknown differentiation stage–specific regulators of mouse hematopoiesis.
Antigenic activation induces the generation of effector and memory CD8+ T cells. Goldrath and colleagues profile gene expression at various times after infection to identify transcriptional networks unique to each population.
Hacohen and colleagues use an integrative approach that combines quantitative proteomics, genomics and small molecule perturbations to identify new genes involved in DNA sensing and type I interferon production.
Using the Immunological Genome compendium, Brenner and colleagues shed light on the transcriptional programs that operate during the course of iNKT cell development and in peripheral CD4+ and CD4–iNKT cell subsets.
By comparing gene-expression profiles, Randolph and colleagues distinguish different types of macrophages and pinpoint the differences between macrophages and dendritic cells.
The transcription factor Foxp3 is essential for the function of regulatory T cells. Rudensky and colleagues show Foxp3 participates in large protein complexes that regulate gene expression of many of these components in self-reinforcing networks.
Lanier and colleagues systematically define the transcriptome of mouse natural killer cells in several contexts, including activation states and relative to all other lymphocyte and myeloid populations profiled by the Immunological Genome Project consortium.
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 relationships among various tissue DC subsets.
The Immunological Genome Project aims to build a comprehensive database of gene-expression and gene-regulatory networks in the mouse immune system. Here Turley and colleagues analyze the transcriptomes of lymph-node stromal cells under steady-state and inflammatory conditions.
As part of the Immunogical Genome project, Kang and colleagues compare the gene-expression profiles of emergent thymocytes from adult mice that express the γδ T cell antigen receptor, segregated on the basis of the use of the γ- or δ-chain variable region, and find that the main subsets are molecularly distinct.
The NF-κB transcription factor family comprises five distinct proteins. Bulyk and colleagues show that homo- and heterodimeric forms of NF-κB recognize distinct κB sites; this introduces additional specificity to NF-κB gene regulation.
Identifying molecular predictors of effective vaccination is an important clinical and technical goal. Pulendran and colleagues use a systems biology approach to study human responses to vaccination against influenza and determine the correlates of immunogenicity.
MicroRNAs are post-transcriptional regulators of gene expression. Pagani and colleagues identify specific microRNA signatures and their target genes in various human lymphoid subsets.
TCR ligation triggers multiple signaling cascades. Cantrell and colleagues provide an unbiased phosphoproteomics analysis of CD8+ T cells showing that phosphorylation of the histone deacetylase HDAC7 is needed to maintain the identity of cytotoxic T lymphoctyes.
Lineage specification and development require a hierarchy of transcription factors. Murre and colleagues have compiled a genome-wide set of cis-acting targets centered on E2A, EBF1 and Foxo1 that govern early B cell development.
A major challenge for vaccinologists is to understand vaccine immunogenicity. Pulendran and colleagues use systems biology to determine gene 'signatures' that predict CD8+ T cell and antibody responses to the yellow fever vaccine.