Dataset: Biological Significance of the Histone Variant H3.3, 2015

Abstract

In the eukaryotic cell nucleus, the genome is organized into chromatin domains with different physical, biochemical and functional properties influencing gene expression and developmental decisions. These domains can be distinguished by their enrichment in combinations of post translational modified histones and in variants of canonical histones. While the distribution and significance of epigenetic histone modifications have been extensively examined since the discovery of the histone code 10 years ago, little is known on the significance of histone variants. Nonetheless, a recent burst of publications reflects strong interest in elucidating the role of these variants. Among these, the H3 variant H3.3 incorporates into primarily (but not solely) transcriptionally active chromatin in a replication independent manner. The mode of insertion of H3.3 into chromatin, its positioning in the genome and its requirement for vertebrate development remain elusive. We have recently reported the epigenetic environment of H3.3 in human promoters and have gathered preliminary data on its deposition pathway. Here, we combine expertise in mesenchymal stem cell biology, imaging, epigenetics and cell differentiation together with state-of-the-art high-throughput sequencing and mass spectrometry technologies, to address the biological meaning of insertion of H3.3 in the genome in a cell differentiation context. Our goal is to characterize in detail the molecular mechanism of incorporation of H3.3 into chromatin and get a hint at its function in cellular differentiation. OBJECTIVE 1 aims to provide full genome coverage of H3.3 enrichment sites, in human primary progenitor cells and differentiated cells. OBJECTIVE 2 aims to elucidate the mechanistic details of H3.3 incorporation into chromatin, by characterizing H3.3 'transit sites' which we have recently evidenced. This project is a part of the FRIMEDBIO-program.  

For access to the dataset, use the NSD application form:  

http://www.nsd.uib.no/nsd/english/orderform.html

Variable Groups

Full Title

Biological Significance of the Histone Variant H3.3, 2015

Identification Number

NSD2277

Authoring Entity

Name Affiliation
Collas, Philippe Department of Geosciences, University of Oslo

Producer

Name Affiliation Abbreviation Role
Collas, Philippe Department of Geosciences, University of Oslo UiO Principal Investigator

Copyright

Copyright (C) 2015 Philippe Collas, Department of Geosciences, UiO

Funding Agency/Sponsor

Name Abbreviation Role Grant
The Research Council of Norway RCN 213795

Data Distributor

Name Affiliation Abbreviation
NSD - Norwegian Centre for Research Data NSD

Version

Date: 2016-01-18

Notes

Original data from Philippe Collas, Department of Geosciences, University of Oslo are documented and prepared, first NSD-version.

Bibliographic Citation

"Biological Significance of the Histone Variant H3.3, 2015". Data collected by Philippe Collas, Department of Geosciences, University of Oslo. First NSD edition, Bergen 2016.

List of Keywords

Topic Classification

Time Period Covered

Start End Cycle
2012-07-01 2015-08-31

Date of Collection

Start End Cycle
2012-09-01 2015-08-01

Country

Norway  (NO)

Geographic Coverage

Country

Unit of Analysis

Other

Kind of Data

Other

Time Method

Cross-sectional survey

Data Collector

Collas, Philippe, Department of Geosciences, The University of Oslo  (UiO)

Sampling Procedure

Gross sample: -1  
Net sample: 4

Mode of Data Collection

Other

Location

Availability Status

NSD can in agreement with the Principal Investigator make data from "Biological Significance of the "Histone Variant H3.3, 2015" available when ordered intil 21.12.2018. After this date, the data from "Histone Variant H3.3, 2015" are made available for research purposes (including phd and master theses) when ordered.

Extent of Collection

25 file(s); different formats can be made.

Restrictions

NSD can in agreement with the Principal Investigator make data from "Biological Significance of the "Histone Variant H3.3, 2015" available when ordered intil 21.12.2018. After this date, the data from "Histone Variant H3.3, 2015" are made available for research purposes (including phd and master theses) when ordered.

Citation Requirement

Users are obliged to refer to producer and distributor of the data by writing the following in forewords or footnotes in eventual publications:
"(Some of) the data applied in the analysis in this publication are based on "Biological Significance of the Histone Variant H3.3, 2015". The survey was financed by The Reasearch Council of Norway. The data are provided by Philippe Collas, Department of Geosciences, University of Oslo and prepared and made available by NSD - Norwegian Centre for Research Data. Neither Philippe Collas, Department of Geosciences, University of Oslo, The Research Council of Norway nor NSD are responsible for the analysis/interpretation of the data presented here.

Deposit Requirement

Access to data is given on the condition that NSD gets a PDF-file of eventual reports that are written on the basis of the data. This to ensure best possible information of the use of data we distribute.

Conditions

The order form has to include name, institutional affiliation, project title, information about sources of financing and postal address. A declaration of secrecy has to be signed before delivery of data.

Disclaimer

Neither Philippe Collas, Department of Geosciences, University of Oslo, The Research Council of Norway nor NSD are responsible for the analysis/interpretation of the data presented here.

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