Chromatin Immunoprecipitation (ChIP)
Protocol: methodology for chromatin immunoprecipitation (ChIP) in Chlamydomonas reinhardtii
... of chromatin structure is chromatin immunoprecipitation (ChIP), a method that was first introduced for Droso- phila [17] and has since then enormously gained in ...the chromatin state by ...
9
Protocol: Chromatin immunoprecipitation (ChIP) methodology to investigate histone modifications in two model diatom species
... a chromatin immunoprecipitation (ChIP) protocol for two fully sequenced model diatom species Phaeodactylum tricornutum and Thalassiosira ...of chromatin and gives reproducible ...
9
Genome Wide Chromatin Immunoprecipitation Sequencing Analysis Shows that WhiB Is a Transcription Factor That Cocontrols Its Regulon with WhiA To Initiate Developmental Cell Division in Streptomyces
... WhiB is the founding member of a class of actinomycete- specific proteins known as the Wbl (WhiB-like) family (14–16). Wbl proteins have been shown to contain four conserved cys- teines that form an oxygen- and nitric ...
13
A fast, efficient chromatin immunoprecipitation method for studying protein-DNA binding in Arabidopsis mesophyll protoplasts
... Chromatin immunoprecipitation (ChIP) is a powerful tool for the investigation of interactions between DNA- binding proteins and genomic DNA in vivo ...
12
Profiling gene promoter occupancy of Sox2 in two phenotypically distinct breast cancer cell subsets using chromatin immunoprecipitation and genome wide promoter microarrays
... Sox2 chromatin immunoprecipitation promoter microarray chip analysis (ChIP-chip) study summarizing gene promoters bound by ...from chromatin before immunoprecipitation to show equal input ...
13
Chromatin immunoprecipitation assay detects er recruitment to gene specific promoters in uterus
... Efficiency of primary antibody in chromatin immunoprecipitation studies is an important step of this procedure. In our experience, we have noted that the background noise occasionally results due to non- ...
9
Protocol: fine-tuning of a Chromatin Immunoprecipitation (ChIP) protocol in tomato
... is chromatin immunoprecipitation, which was developed for Arabidopsis and other plants but is not yet operational for tomato (Solanum lycopersicum), a model plant species for a group of economically ...
8
Chromatin immunoprecipitation: optimization, quantitative analysis and data normalization
... Once the ChIP protocol has been established, it has to be determined which histone modifications will be ana- lyzed. For this purpose, data obtained from immunocyto- chemistry experiments are a valuable source of ...
16
BAMscale: quantification of next-generation sequencing peaks and generation of scaled coverage tracks
... from chromatin immunoprecipitation sequencing data (ChIP‑seq), chromatin state change data (assay for transposase‑accessible chromatin using sequenc‑ ing: ATAC‑seq, DNA double‑strand break ...
13
BHLHE40 confers a pro survival and pro metastatic phenotype to breast cancer cells by modulating HBEGF secretion
... ChIP: Chromatin immunoprecipitation; CoIP: Co-immunoprecipitation; EGF: Epidermal growth factor; EGFR: Epidermal growth factor receptor; EV: Empty vectors; FR: Fulvestrant-resistant; GF: Glucose ...
17
A paucity of heterochromatin at functional human neocentromeres
... 1 Chromatin immunoprecipitation (ChIP)-CHIP (microarray) analysis of chromosome 13q ...CENP-A chromatin immunoprecipitation (ChIP) model-based analysis of tiling-array (MAT) score: CHOP13q p ...
12
Tip60 complex binds to active Pol II promoters and a subset of enhancers and co-regulates the c-Myc network in mouse embryonic stem cells
... by chromatin immunoprecipitation (ChIP) coupled with high-throughput sequencing (ChIP-seq) shows that the Tip60 complex is present at promoter regions of predominantly active genes that are bound by RNA ...
16
DNA methylation and epigenomics: new technologies and emerging concepts
... low-input chromatin immunoprecipitation sequencing (ChIP-seq) method, Matthew Lorincz (University of British Columbia, Canada) reported that class I and class II long terminal repeat (LTR) retrotransposons ...
5
Genomic sequencing in clinical trials
... in chromatin immunoprecipitation (ChIP)- sequencing to identify key binding sites of DNA-asso- ciated proteins, [2,3] and RNA-sequencing for mamma- lian and human tissue ...
10
Genetic variants in regulatory regions of microRNAs are associated with lung cancer risk
... In silico analysis In order to evaluate whether promising SNPs harbor regulatory elements, we downloaded Chromatin Immunoprecipitation sequencing ChIP-seq and DNaseI Hypersensitivity DNa[r] ...
9
Inference of RNA Polymerase II Transcription Dynamics from Chromatin Immunoprecipitation Time Course Data
... In addition to estimating the transcriptional activity at the promoter, inferring the pol-II occupancy time profiles over different gene segments allows us to compute the transcription s[r] ...
17
Kaposi's Sarcoma-Associated Herpesvirus-Encoded LANA Interacts with Host KAP1 To Facilitate Establishment of Viral Latency
... by chromatin immunoprecipitation for sequencing (ChIP-seq) and demonstrated that LANA-recruited KAP1 played a critical role in the shutdown of lytic gene expression during the early stage of KSHV primary ...
14
Distinctive patterns of epigenetic marks are associated with promoter regions of mouse LINE-1 and LTR retrotransposons
... into chromatin associated with repressive histone ...These chromatin modifications are functionally interrelated and coordinate epigenetic silencing of ...the chromatin states responsible for ...
7
An enChIP system for the analysis of bacterial genome functions
... cule-mediated chromatin immunoprecipitation (enChIP) technology we developed recently, enables specific isola- tion of genomic regions of interest interacting with their associated molecules [1, ...
5
Zinc Finger and X-Linked Factor (ZFX) Binds to Human SET Transcript 2 Promoter and Transactivates SET Expression
... In this study, we started with the deletion analysis, to reveal the importance of the -157/+47 region for SET transcript 2 promoter activity in both HEK 293 and HeLa cells. Overexpression of potential transcription ...
14