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A software package that generates a continuous tag sequence density estimation allowing identification of biologically meaningful sites whose output can be displayed directly in the UCSC Genome Browser.

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• SciCrunch
• 13 years ago - by Anonymous

Software for motif discovery using dinucleotide position weight matrices (PWMs).

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• SciCrunch
• 13 years ago - by Anonymous

Data analysis service providing a motif discovery platform developed to help biologists to find novel as well as known motifs in their peak datasets from transcription factor (TF) binding experiments such as ChIP-seq and ChIP-chip.

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• SciCrunch
• 13 years ago - by Anonymous

A software tool for systematic discovery of transcription factors and their cofactors from ChIP-seq data.

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• SciCrunch
• 13 years ago - by Anonymous

Software for harmonic compression of ChIP-seq data reveals protein-chromatin interaction signatures.

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• SciCrunch
• 13 years ago - by Anonymous

A software program which finds sequence elements conserved in a set of DNA sequences.

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• SciCrunch
• 13 years ago - by Anonymous

R-package for identifying differential ChIP-seq based on an ensemble of mixture models.

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• SciCrunch
• 13 years ago - by Anonymous

Finding differential chromatin modification sites from ChIP-seq data.

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• SciCrunch
• 13 years ago - by Anonymous

Detects differential binding of transcription factors with ChIP-seq.

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• SciCrunch
• 13 years ago - by Anonymous

Provides a solution for the identification of Differential Histone Modification Sites (DHMSs) by comparing two ChIP-seq libraries (L1 and L2).

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• SciCrunch
• 13 years ago - by Anonymous

R package for comparative analysis of RNA Polymerase II ChIP-Seq profiles by non-linear normalization.

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• SciCrunch
• 13 years ago - by Anonymous

A robust software package for quantitative comparison of ChIP-Seq data sets.

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• SciCrunch
• 13 years ago - by Anonymous

Software to identify genomic regions enriched in a variety of ChIP-seq and related next-generation sequencing experiments (DNA-seq), calling both broad and narrow modes of enrichment across a range of signal-to-noise ratios. ZINBA models and accounts for factors that co-vary with background or experimental signal, such as G/C content, and identifies enrichment in genomes with complex local copy number variations. ZINBA provides a single unified framework for analyzing DNA-seq experiments in challenging genomic contexts.

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• SciCrunch
• 13 years ago - by Anonymous

A software for determining DNA/protein binding sites from a ChIP-Seq experiment.

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• SciCrunch
• 13 years ago - by Anonymous

Anl algorithm for precise identification of binding sites from short reads generated from ChIP-Seq experiments.

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• SciCrunch
• 13 years ago - by Anonymous

An algorithm that allows researchers to identify transcript factor binding sites from paired-end sequencing reads. SIPeS uses a dynamic baseline directly through the piling up of fragments to effectively find peaks, overcoming the disadvantage of estimating the average length of DNA fragments from singled-end sequencing achieving more powerful prediction binding sites with high sensitivity and specificity.

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• SciCrunch
• 13 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 18,2023. A specifically designed version of BSMAP for reduced representation bisulfite sequencing (RRBS).

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• SciCrunch
• 13 years ago - by Anonymous

Software for a multi-purpose ChIP Seq peak caller.

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• SciCrunch
• 13 years ago - by Anonymous

A software program to call peaks from ChIP-seq data for transcription factor binding sites.

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• SciCrunch
• 13 years ago - by Anonymous

Software developed as a flexible mixture modeling approach for detecting peaks of one-sample (ChIP sample) or two-sample (ChIP sample and matched control sample) ChIP-seq data.

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• SciCrunch
• 13 years ago - by Anonymous