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Single-nucleotide polymorphisms in ETS1 are associated with systemic lupus erythematosus (SLE). Ets1-/- mice develop SLE-like symptoms, suggesting that dysregulation of this transcription factor is important to the onset or progression of SLE. We used conditional deletion approaches to examine the impact of Ets1 expression in different immune cell types. Ets1 deletion on CD4+ T cells, but not B cells or dendritic cells, resulted in the SLE autoimmunity, and this was associated with the spontaneous expansion of T follicular helper type 2 (Tfh2) cells. Ets1-/- Tfh2 cells exhibited increased expression of GATA-3 and interleukin-4 (IL-4), which induced IgE isotype switching in B cells. Neutralization of IL-4 reduced Tfh2 cell frequencies and ameliorated disease parameters. Mechanistically, Ets1 suppressed signature Tfh and Th2 cell genes, including Cxcr5, Bcl6, and Il4ra, thus curbing the terminal Tfh2 cell differentiation process. Tfh2 cell frequencies in SLE patients correlated with disease parameters, providing evidence for the relevance of these findings to human disease.
Pubmed ID: 30566881
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Open source Java based image processing software program designed for scientific multidimensional images. ImageJ has been transformed to ImageJ2 application to improve data engine to be sufficient to analyze modern datasets.
View all literature mentionsCommercial supplier and developer of in vivo antibodies. Provides antibodies and antibody production services.
View all literature mentionsSoftware Python package for identifying transcript factor binding sites. Used to evaluate significance of enriched ChIP regions. Improves spatial resolution of binding sites through combining information of both sequencing tag position and orientation. Can be used for ChIP-Seq data alone, or with control sample with increase of specificity.
View all literature mentionsQuality control software that perform checks on raw sequence data coming from high throughput sequencing pipelines. This software also provides a modular set of analyses which can give a quick impression of the quality of the data prior to further analysis.
View all literature mentionsThe main purpose of Cufflinks.cuffmerge is to merge together several Cufflinks assemblies, making it easier to produce an assembly GTF file suitable for use with Cufflinks.cuffdiff. Cufflinks.cuffmerge also runs Cuffcompare in the background and automatically filters out transcribed fragments (transfrags) that are likely to be artifacts. Trapnell C, Hendrickson D,Sauvageau S, Goff L, Rinn JL, Pachter L. Differential analysis of gene regulation at transcript resolution with RNA-seq. Nature Biotechnology. 2013;31:46-53.
View all literature mentionsPortal to interactively visualize genomic data. Provides reference sequences and working draft assemblies for collection of genomes and access to ENCODE and Neanderthal projects. Includes collection of vertebrate and model organism assemblies and annotations, along with suite of tools for viewing, analyzing and downloading data.
View all literature mentionsThis polyclonal secondary targets IgG (H+L)
View all literature mentionsThis monoclonal targets T-bet
View all literature mentionsThis monoclonal targets CD38
View all literature mentionsThis monoclonal targets CD278
View all literature mentionsThis monoclonal targets CD154
View all literature mentionsThis monoclonal targets CD185
View all literature mentionsThis monoclonal targets CD278
View all literature mentionsThis monoclonal targets IL-13
View all literature mentionsThis monoclonal targets Caspase 3, Active Form
View all literature mentionsThis monoclonal targets Ki-67
View all literature mentionsThis monoclonal targets GL7
View all literature mentionsThis monoclonal targets CD3
View all literature mentionsThis monoclonal targets IL-10
View all literature mentionsThis monoclonal targets CD127
View all literature mentionsThis monoclonal targets CD3
View all literature mentionsThis monoclonal targets FOXP3
View all literature mentionsThis monoclonal targets CD11c
View all literature mentionsThis monoclonal targets CD138
View all literature mentionsThis monoclonal targets FOXP3
View all literature mentionsThis monoclonal targets CD95
View all literature mentionsThis monoclonal targets CD19
View all literature mentionsThis monoclonal targets IL-5
View all literature mentionsThis monoclonal targets CD196 (CCR6)
View all literature mentionsThis monoclonal targets IL-21
View all literature mentionsThis monoclonal targets GATA3
View all literature mentionsThis monoclonal targets CD185
View all literature mentionsThis monoclonal targets CD90/CD90.1
View all literature mentionsThis monoclonal targets CD278 (ICOS)
View all literature mentionsThis monoclonal targets CD134
View all literature mentionsThis monoclonal targets IFN gamma
View all literature mentionsThis monoclonal targets ROR gamma (t)
View all literature mentionsThis monoclonal targets Gata-3
View all literature mentionsThis monoclonal targets IgD
View all literature mentionsThis monoclonal targets CD25
View all literature mentionsThis monoclonal targets CD8a
View all literature mentionsThis polyclonal secondary targets IgM (Mu chain)
View all literature mentionsThis monoclonal targets CD62L
View all literature mentionsThis monoclonal targets IL-4
View all literature mentionsThis monoclonal targets CD183
View all literature mentionsThis monoclonal targets CD45R
View all literature mentionsThis isotype control targets HRP
View all literature mentionsThis monoclonal targets IL-17A
View all literature mentionsThis monoclonal targets CD196 (CCR6)
View all literature mentionsThis monoclonal targets CD183
View all literature mentionsThis monoclonal targets Bcl-6
View all literature mentionsThis monoclonal targets CD185
View all literature mentionsThis monoclonal targets CD45.2
View all literature mentionsThis monoclonal targets CD27
View all literature mentionsThis monoclonal targets CD86
View all literature mentionsThis monoclonal targets IL-4
View all literature mentionsThis monoclonal targets CD45RA
View all literature mentionsThis monoclonal targets FOXP3
View all literature mentionsThis monoclonal targets beta Actin
View all literature mentionsThis monoclonal targets CD44
View all literature mentionsThis unknown targets Biotin
View all literature mentionsThis monoclonal targets CD4
View all literature mentionsThis monoclonal targets CD3ε
View all literature mentionsThis polyclonal secondary targets IgG (H+L)
View all literature mentionsThis monoclonal targets GL7
View all literature mentionsThis monoclonal targets CD19
View all literature mentionsThis monoclonal targets CD279
View all literature mentionsThis monoclonal targets CD69
View all literature mentionsMus musculus with name B6.129S7-Rag1tm1Mom/J from IMSR.
View all literature mentionsSoftware ultrafast memory efficient tool for aligning sequencing reads. Bowtie is short read aligner.
View all literature mentionsOriginal SAMTOOLS package has been split into three separate repositories including Samtools, BCFtools and HTSlib. Samtools for manipulating next generation sequencing data used for reading, writing, editing, indexing,viewing nucleotide alignments in SAM,BAM,CRAM format. BCFtools used for reading, writing BCF2,VCF, gVCF files and calling, filtering, summarising SNP and short indel sequence variants. HTSlib used for reading, writing high throughput sequencing data.
View all literature mentionsMus musculus with name B6.129(Cg)-Foxp3tm4(YFP/icre)Ayr/J from IMSR.
View all literature mentionsSoftware that estimates expression at transcript-level resolution and controls for variability evident across replicate libraries.
View all literature mentionsSoftware package for interpreting gene expression data. Used for interpretation of a large-scale experiment by identifying pathways and processes.
View all literature mentionsModeling and simulation environment for study of multi scale and multicellular systems. Users can construct and simulate models of gene regulation, signaling pathways, tissue patterning and morphogenesis and explore the effects of multiscale feedbacks between these processes. Morpheus can render 2D and 3D models using graphical user interface.
View all literature mentionsSoftware tool that removes adapter sequences from DNA sequencing reads.
View all literature mentionsMus musculus with name B6.Cg-Tg(Itgax-cre)1-1Reiz/J from IMSR.
View all literature mentionsMus musculus with name B6.129P2(C)-Cd19tm1(cre)Cgn/J from IMSR.
View all literature mentionsSoftware tool for fast and high throughput alignment of shotgun cDNA sequencing reads generated by transcriptomics technologies. Fast splice junction mapper for RNA-Seq reads. Aligns RNA-Seq reads to mammalian-sized genomes using ultra high-throughput short read aligner Bowtie, and then analyzes mapping results to identify splice junctions between exons.TopHat2 is accurate alignment of transcriptomes in presence of insertions, deletions and gene fusions.
View all literature mentionsMus musculus with name B6.Cg-Tg(TcraTcrb)425Cbn/J from IMSR.
View all literature mentionsStatistical analysis software that combines scientific graphing, comprehensive curve fitting (nonlinear regression), understandable statistics, and data organization. Designed for biological research applications in pharmacology, physiology, and other biological fields for data analysis, hypothesis testing, and modeling.
View all literature mentionsA high-performance visualization tool for interactive exploration of large, integrated genomic datasets.
View all literature mentionsA powerful toolset for genome arithmetic allowing one to address common genomics tasks such as finding feature overlaps and computing coverage. Bedtools allows one to intersect, merge, count, complement, and shuffle genomic intervals from multiple files in widely-used genomic file formats such as BAM, BED, GFF/GTF, VCF. While each individual tool is designed to do a relatively simple task (e.g., intersect two interval files), quite sophisticated analyses can be conducted by combining multiple bedtools operations on the UNIX command line.
View all literature mentionsSoftware tool for transcriptome assembly and differential expression analysis for RNA-Seq. Includes script called cuffmerge that can be used to merge together several Cufflinks assemblies. It also handles running Cuffcompare as well as automatically filtering a number of transfrags that are likely to be artifacts. If the researcher has a reference GTF file, the researcher can provide it to the script to more effectively merge novel isoforms and maximize overall assembly quality.
View all literature mentionsMus musculus with name C57BL/6J from IMSR.
View all literature mentionsSoftware for single-cell flow cytometry analysis. Its functions include management, display, manipulation, analysis and publication of the data stream produced by flow and mass cytometers.
View all literature mentionsPortal to interactively visualize genomic data. Provides reference sequences and working draft assemblies for collection of genomes and access to ENCODE and Neanderthal projects. Includes collection of vertebrate and model organism assemblies and annotations, along with suite of tools for viewing, analyzing and downloading data.
View all literature mentionsMus musculus with name STOCK Tg(Cd4-cre)1Cwi/BfluJ from IMSR.
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Mus musculus with name B6.SJL-Ptprca Pepc
