BxChIPSeq provides accurate and highly automated analysis of ChIP-Seq data with novel web technologies and the most reliable statistics algorithms. BioInfoRx utilizes this proprietary program to provide highly reliable data analysis with fast cycle time.

ChIP-Sequencing, also known as ChIP-Seq, is used to analyze protein interactions with DNA. ChIP-Seq combines chromatin immunoprecipitation (ChIP) with massively parallel DNA sequencing to identify binding sites of DNA-associated proteins. It can be used to precisely map global binding sites
for any protein of interest. Determining how proteins interact with DNA to regulate gene expression is essential for fully understanding many biological processes and disease states.
Chip-Seq is used primarily to determine how transcription factors and other chromatin-associated proteins influence phenotype-affecting mechanisms. This epigenetic information is complementary to genotype and expression analysis.


KEY FEATURES

  • Powered by BxAF technology.
  • Complete data analysis service provided by BioInfoRx, from converting output file formats to reporting analysis results.
  • Rapid turnaround of data analysis.
  • Supports Illumina/Solexa, ABI SOLiD, and other instruments.
  • Integrated with leading third party tools, such as UCSC Genome Browser.
  • Integrated with other BxAF systems for downstream functional analysis.
  • Supported by leading Chip-Seq researchers and biostatisticians.
  • Continuously improved by incorporating novel statistics algorithms.

WHO MAY USE BxChIPSeq?

  • Researchers with ChIP-Seq data on hand.
  • Collaborators with ChIP-Seq research projects.
  • Facilities providing ChIP-Seq services.
  • Laboratory managers and collaborators who need to organize ChIP-Seq data and analysis results efficiently.

  • BxChIPSeq integrates with other BxAF systems seamlessly to provide a complete solution for research project data management and processing. When other experiments are done in parallel with ChIP-Seq group members can link data and results together. For example this may be done using custom systems designed with BxWebDB or microarray experiment data may be linked using BxArrays. This flexibility can be used to organize and process data online and share results among group members, including collaborators, in real time. BxItems helps keep track of research reagents; mLIMS helps record, review and analyze animal colony and genetic information, while LabDOTs allows laboratory members to efficiently share files, conduct group forums about project related issues, and coordinate laboratory tasks online.


  • ANALYSIS PROCEDURES

    • Convert instrument output files to formats ready for data processing pipeline.
    • Tag sequence alignment to genome or custom targets.
    • Summary of unique match tags, multiple matched tags and unmatched tags.
    • Whole genome sliding window analysis with density plots.
    • Sequence depth normalization, input filtering, and other statistics analysis.
    • Detect peaks based on published algorithms.
    • Convert density plots and peak files to bed/wig/gff formats for loading into UCSC Genome Browser or other visualization tools.
    • Send detailed analysis summary reports.
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