Cargando…

Integrating RNA-seq and ChIP-seq data to characterize long non-coding RNAs in Drosophila melanogaster

BACKGROUND: Recent advances in sequencing technology have opened a new era in RNA studies. Novel types of RNAs such as long non-coding RNAs (lncRNAs) have been discovered by transcriptomic sequencing and some lncRNAs have been found to play essential roles in biological processes. However, only limi...

Descripción completa

Detalles Bibliográficos
Autores principales:	Chen, Mei-Ju May, Chen, Li-Kai, Lai, Yu-Shing, Lin, Yu-Yu, Wu, Dung-Chi, Tung, Yi-An, Liu, Kwei-Yan, Shih, Hsueh-Tzu, Chen, Yi-Jyun, Lin, Yan-Liang, Ma, Li-Ting, Huang, Jian-Long, Wu, Po-Chun, Hong, Ming-Yi, Chu, Fang-Hua, Wu, June-Tai, Li, Wen-Hsiung, Chen, Chien-Yu
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2016
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4787191/ https://www.ncbi.nlm.nih.gov/pubmed/26969372 http://dx.doi.org/10.1186/s12864-016-2457-0

Ejemplares similares

ChIP-PED enhances the analysis of ChIP-seq and ChIP-chip data
por: Wu, George, et al.
Publicado: (2013)

MM-ChIP enables integrative analysis of cross-platform and between-laboratory ChIP-chip or ChIP-seq data
por: Chen, Yiwen, et al.
Publicado: (2011)

HyperChIP: identification of hypervariable signals across ChIP-seq or ATAC-seq samples
por: Chen, Haojie, et al.
Publicado: (2022)

CSA: a web service for the complete process of ChIP-Seq analysis
por: Li, Min, et al.
Publicado: (2019)

ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data
por: Zhu, Lihua J, et al.
Publicado: (2010)

Impact of artifact removal on ChIP quality metrics in ChIP-seq and ChIP-exo data
por: Carroll, Thomas S., et al.
Publicado: (2014)

W-ChIPeaks: a comprehensive web application tool for processing ChIP-chip and ChIP-seq data
por: Lan, Xun, et al.
Publicado: (2011)

SeqAcademy: an educational pipeline for RNA-Seq and ChIP-Seq analysis
por: Ather, Syed Hussain, et al.
Publicado: (2020)

An integrated system CisGenome for analyzing ChIP-chip and ChIP-seq data
por: Ji, Hongkai, et al.
Publicado: (2008)

ChIP-chip versus ChIP-seq: Lessons for experimental design and data analysis
por: Ho, Joshua WK, et al.
Publicado: (2011)

ChIP-Enrich: gene set enrichment testing for ChIP-seq data
por: Welch, Ryan P., et al.
Publicado: (2014)

ChIP-AP: an integrated analysis pipeline for unbiased ChIP-seq analysis
por: Suryatenggara, Jeremiah, et al.
Publicado: (2021)

HiChIP: a high-throughput pipeline for integrative analysis of ChIP-Seq data
por: Yan, Huihuang, et al.
Publicado: (2014)

iTAR: a web server for identifying target genes of transcription factors using ChIP-seq or ChIP-chip data
por: Yang, Chia-Chun, et al.
Publicado: (2016)

Normalization of ChIP-seq data with control
por: Liang, Kun, et al.
Publicado: (2012)

De novo ChIP-seq analysis
por: He, Xin, et al.
Publicado: (2015)

ChiLin: a comprehensive ChIP-seq and DNase-seq quality control and analysis pipeline
por: Qin, Qian, et al.
Publicado: (2016)

Nonparametric Tests for Differential Histone Enrichment with ChIP-Seq Data
por: Wu, Qian, et al.
Publicado: (2015)

ChIP-PaM: an algorithm to identify protein-DNA interaction using ChIP-Seq data
por: Wu, Song, et al.
Publicado: (2010)

The ChIP-Seq tools and web server: a resource for analyzing ChIP-seq and other types of genomic data
por: Ambrosini, Giovanna, et al.
Publicado: (2016)

ChIPXpress: using publicly available gene expression data to improve ChIP-seq and ChIP-chip target gene ranking
por: Wu, George, et al.
Publicado: (2013)

seqMINER: an integrated ChIP-seq data interpretation platform
por: Ye, Tao, et al.
Publicado: (2011)

Statistical Issues in the Analysis of ChIP-Seq and RNA-Seq Data
por: Ghosh, Debashis, et al.
Publicado: (2010)

Model-based Analysis of ChIP-Seq (MACS)
por: Zhang, Yong, et al.
Publicado: (2008)

Identifying differential transcription factor binding in ChIP-seq
por: Wu, Dai-Ying, et al.
Publicado: (2015)

Fish the ChIPs: a pipeline for automated genomic annotation of ChIP-Seq data
por: Barozzi, Iros, et al.
Publicado: (2011)

Impact of genome assembly status on ChIP-Seq and ChIP-PET data mapping
por: Buisine, Nicolas, et al.
Publicado: (2009)

ChIPseqR: analysis of ChIP-seq experiments
por: Humburg, Peter, et al.
Publicado: (2011)

Systematic evaluation of factors influencing ChIP-seq fidelity
por: Chen, Yiwen, et al.
Publicado: (2012)

MAnorm2 for quantitatively comparing groups of ChIP-seq samples
por: Tu, Shiqi, et al.
Publicado: (2021)

A Clustering Approach for Motif Discovery in ChIP-Seq Dataset
por: Sun, Chun-xiao, et al.
Publicado: (2019)

Shape-based peak identification for ChIP-Seq
por: Hower, Valerie, et al.
Publicado: (2011)

Impact of sequencing depth in ChIP-seq experiments
por: Jung, Youngsook L., et al.
Publicado: (2014)

Widespread Misinterpretable ChIP-seq Bias in Yeast
por: Park, Daechan, et al.
Publicado: (2013)

In Silico Pooling of ChIP-seq Control Experiments
por: Sun, Guannan, et al.
Publicado: (2014)

Differential ATAC-seq and ChIP-seq peak detection using ROTS
por: Faux, Thomas, et al.
Publicado: (2021)

Parallel factor ChIP provides essential internal control for quantitative differential ChIP-seq
por: Guertin, Michael J, et al.
Publicado: (2018)

Practical Guidelines for the Comprehensive Analysis of ChIP-seq Data
por: Bailey, Timothy, et al.
Publicado: (2013)

ChIPulate: A comprehensive ChIP-seq simulation pipeline
por: Datta, Vishaka, et al.
Publicado: (2019)

ChIP-Atlas 2021 update: a data-mining suite for exploring epigenomic landscapes by fully integrating ChIP-seq, ATAC-seq and Bisulfite-seq data
por: Zou, Zhaonan, et al.
Publicado: (2022)

Cannot write session to /tmp/vufind_sessions/sess_d8h4m6tjeh4jcfgr3hnv68kvr9