Please use this identifier to cite or link to this item: https://doi.org/10.1038/srep42422
DC FieldValue
dc.titleSuperresolution imaging of nanoscale chromosome contacts
dc.contributor.authorWang Y.
dc.contributor.authorRatna P.
dc.contributor.authorShivashankar G.V.
dc.date.accessioned2020-09-02T06:37:08Z
dc.date.available2020-09-02T06:37:08Z
dc.date.issued2017
dc.identifier.citationWang Y., Ratna P., Shivashankar G.V. (2017). Superresolution imaging of nanoscale chromosome contacts. Scientific Reports 7 : 42422. ScholarBank@NUS Repository. https://doi.org/10.1038/srep42422
dc.identifier.issn20452322
dc.identifier.urihttps://scholarbank.nus.edu.sg/handle/10635/173942
dc.description.abstractCo-expression of a specific group of genes requires physical associations among these genes, which form functional chromosomal contacts. While DNA fluorescence in situ hybridization (FISH) pinpoints the localization of genes within the 3D nuclear architecture, direct evidence of physical chromosomal contacts is still lacking. Here, we report a method for the direct visualization of transcription-dependent chromosomal contacts formed in two distinct mechanical states of cells. We prepared open chromatin spreads from isolated nuclei, ensuring 2D rendering of chromosome organization. Superresolution imaging of these chromatin spreads resolved the nanoscale organization of genome contacts. We optimized our imaging method using chromatin spreads from serum+/- cells. We then showed direct visualization of functional gene clusters targeted by YAP (Yes-associated protein) and SRF (Serum response factor) transcription factors. In addition, we showed the association of NF-?B bound gene clusters induced by TNF-? addition. Furthermore, EpiTect ChIP qPCR results showed that these nanoscale clusters were enriched with corresponding transcription factors. Taken together, our method provides a robust platform to directly visualize and study specific genome-wide chromosomal contacts. © 2017 The Author(s).
dc.sourceUnpaywall 20200831
dc.subjectimmunoglobulin enhancer binding protein
dc.subjectphosphoprotein
dc.subjectprotein binding
dc.subjectserum response factor
dc.subjectsignal transducing adaptor protein
dc.subjecttranscription factor
dc.subjectYap protein, mouse
dc.subjectanimal
dc.subjectcell line
dc.subjectcell nucleus
dc.subjectchromatin
dc.subjectchromatin immunoprecipitation
dc.subjectchromosome
dc.subjectfluorescence in situ hybridization
dc.subjectgenetics
dc.subjecthigh throughput sequencing
dc.subjecthuman
dc.subjectmetabolism
dc.subjectmouse
dc.subjectprocedures
dc.subjectAdaptor Proteins, Signal Transducing
dc.subjectAnimals
dc.subjectCell Line
dc.subjectCell Nucleus
dc.subjectChromatin
dc.subjectChromatin Immunoprecipitation
dc.subjectChromosomes
dc.subjectHigh-Throughput Nucleotide Sequencing
dc.subjectHumans
dc.subjectIn Situ Hybridization, Fluorescence
dc.subjectMice
dc.subjectNF-kappa B
dc.subjectPhosphoproteins
dc.subjectProtein Binding
dc.subjectSerum Response Factor
dc.subjectTranscription Factors
dc.typeArticle
dc.contributor.departmentMECHANOBIOLOGY INSTITUTE
dc.contributor.departmentDEPT OF BIOLOGICAL SCIENCES
dc.description.doi10.1038/srep42422
dc.description.sourcetitleScientific Reports
dc.description.volume7
dc.description.page42422
Appears in Collections:Elements
Staff Publications

Show simple item record
Files in This Item:
File Description SizeFormatAccess SettingsVersion 
10_1038_srep42422.pdf3.91 MBAdobe PDF

OPEN

NoneView/Download

Google ScholarTM

Check

Altmetric


Items in DSpace are protected by copyright, with all rights reserved, unless otherwise indicated.