FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology

Fejes, Anthony P., Robertson, Gordon, Bilenky, Mikhail, Varhol, Richard, Bainbridge, Matthew, Jones, Steven J. M.·2008·Bioinformatics

Cited by (273)

Items 201–273 of 273

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  10. Probabilistic Peak Calling and Controlling False Discovery Rate Estimations in Transcription Factor Binding Site Mapping from ChIP-seq
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  11. CSA: a web service for the complete process of ChIP-Seq analysis
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  15. AREM: Aligning Short Reads from ChIP-Sequencing by Expectation Maximization
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  21. Simulation of ChIP-Seq based on extra-sonication of IPed DNA fragments
    Wei Wang, Xiaolong Shi, Zuhong Lu · 2010 · Chinese Science Bulletin
  22. Evaluation of peak calling approaches for genome-wide MBD2-based Methyl-Seq profiling
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  23. Statistical Analyses of Next Generation Sequencing Data: An Overview
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  24. Genome-Wide Analysis of c-MYC-Regulated mRNAs and miRNAs and c-MYC DNA-Binding by Next-Generation Sequencing
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  25. Algorithmic Issues in the Analysis of Chip‐Seq Data
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  26. jahmm: A tool for discretizing multiple ChIP seq profiles
    Guillaume J. P. Filion, Pol Cuscó · 2014 · arXiv (Cornell University)
  27. 基于二次打断IPed DNA片段ChIP-Seq的模拟分析
    薇 王, 小龙 施, 祖宏 陆 · 2010 · Chinese Science Bulletin (Chinese Version)
  28. A Peak-Finder Meta Server for ChIP-Seq Analysis
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  29. Studies on Human Chromatin Using High-Throughput DNaseI Sequencing
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  30. Spatial and temporal coupling models for the discovery of binding events in ChIP-Seq data
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  31. Deciphering regulation in eukaryotic cell: from sequence to function
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  33. Peak detection of histone modifications based on ChIP-seq data in human genome
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    Petros Kolovos · 2015 · RePub (Erasmus University Rotterdam)
  35. Research ChIP-PaM: an algorithm to identify protein-DNA interaction using ChIP-Seq data
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  36. Pyicos: A Flexible Tool Library for Analyzing Protein-Nucleotide Interactions with Mapped Reads from Deep Sequencing
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  40. Ritornello: High fidelity control-free chip-seq peak calling
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  41. Algorithms and applications of next-generation DNA sequencing : ChIP-Seq, database of human variations, and analysis of mammary ductal carcinomas
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    慧丽 李 · 2011 · Hans Journal of Biomedicine
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    Binhua Tang · 2016 · Bioengineered
  45. Analysis of transcriptional targets of SOX9 during embryonic heart valve development reveals a critical network of transcription factors
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  48. Role of Retrotransposons as a Major Source of Intra- and Inter-Individual Epigenetic Variations in the Mammalian Genome
    Muhammad B. Ekram · 2013
  49. Statistical Aspects of ChIP-Seq Data Analysis
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  50. Pipeline for the Analysis of ChIP-seq Data and New Motif Ranking Procedure
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  51. Genome function, ChIP-Seq and personalized diagnostics
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  52. Bayesian Modeling for High Throughput Genomic Data.
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  53. Novel Algorithm Development for ‘NextGeneration’ Sequencing Data Analysis
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  54. Epigenetics and Epigenomics Analysis for Autoimmune Diseases
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  55. Shape-based peak identification for ChIP-Seq
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  56. ChIPSeq Analysis with Bayesian Machine Learning
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  57. HisTrader: A Tool to Identify Nucleosome Free Regions from ChIP-Seq of Histone Post-Translational Modifications
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  58. Additional file 2 of BIND&MODIFY: a long-range method for single-molecule mapping of chromatin modifications in eukaryotes
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  61. Additional file 3 of BIND&MODIFY: a long-range method for single-molecule mapping of chromatin modifications in eukaryotes
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  62. Additional file 1 of BIND&MODIFY: a long-range method for single-molecule mapping of chromatin modifications in eukaryotes
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  72. HisTrader identifies nucleosome-free regions within ChIP-based profiling of histone post-translational modifications
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