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MethylomeDB

General Information

This resource details DNA methylation profiles in human and mouse brain. This database includes genome-wide DNA methylation profiles for human and mouse brains. The DNA methylation profiles were generated by Methylation Mapping Analysis by Paired-end Sequencing (Methyl-MAPS) method and analyzed by Methyl-Analyzer software package. The methylation profiles cover over 80% CpG dinucleotides in human and mouse brains in single-CpG resolution. The integrated genome browser (modified from UCSC Genome Browser allows users to browse DNA methylation profiles in specific genomic loci, to search specific methylation patterns, and to compare methylation patterns between individual samples.

Homepage http://habanero.mssm.edu/methylomedb/index.html

Countries that developed this resource United States

Created in 2011

Taxonomic range

Homo sapiens

Mus musculus

Knowledge Domains

Subjects

How to cite this record FAIRsharing.org: MethylomeDB; MethylomeDB; DOI: https://doi.org/10.25504/FAIRsharing.yxrs8t; Last edited: Jan. 8, 2019, 1:14 p.m.; Last accessed: Oct 25 2021 12:05 a.m.

Record updated: July 27, 2018, 11:06 a.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.yxrs8t' by 'The FAIRsharing Team' at 11:06, 27 Jul 2018 (approved):

	'supportLinks' has been modified:
		Before:
			FAQ|http://www.neuroepigenomics.org/methylomedb/help_faq.html
			contact form|http://www.neuroepigenomics.org/methylomedb/contact.html
			help|http://www.neuroepigenomics.org/methylomedb/help.html
		After:
			FAQ|http://habanero.mssm.edu/methylomedb/help_faq.html
			contact form|http://habanero.mssm.edu/methylomedb/contact.html
			help|http://habanero.mssm.edu/methylomedb/help.html
		Added:
			FAQ|http://habanero.mssm.edu/methylomedb/help_faq.html
			contact form|http://habanero.mssm.edu/methylomedb/contact.html
			help|http://habanero.mssm.edu/methylomedb/help.html
		Removed:
			FAQ|http://www.neuroepigenomics.org/methylomedb/help_faq.html
			contact form|http://www.neuroepigenomics.org/methylomedb/contact.html
			help|http://www.neuroepigenomics.org/methylomedb/help.html

	'tools' has been modified:
		Before:
			Browser||http://www.neuroepigenomics.org/index.html
		After:
			Browser||http://habanero.mssm.edu/index.html
		Added:
			Browser||http://habanero.mssm.edu/index.html
		Removed:
			Browser||http://www.neuroepigenomics.org/index.html

	'dataProcesses' has been modified:
		Before:
			ad-hoc release
			manual curation
			no versioning policy
			access to historical files upon request
			Data Download
		After:
			Ad-hoc release
			Manual curation
			No versioning policy
			Access to historical files upon request
			Data Download
		Added:
			Ad-hoc release
			Manual curation
			No versioning policy
			Access to historical files upon request
		Removed:
			ad-hoc release
			manual curation
			no versioning policy
			access to historical files upon request

	'organizations' has been modified:
		Before:
			National Institute on Aging|https://www.nia.nih.gov/|Funds
			Columbia University|http://www.neuroepigenomics.org/wordpress/|Maintains
		After:
			National Institute on Aging|https://www.nia.nih.gov/|Funds
			Columbia University|https://www.columbia.edu|Maintains
		Added:
			Columbia University|https://www.columbia.edu|Maintains
		Removed:
			Columbia University|http://www.neuroepigenomics.org/wordpress/|Maintains

Edits to 'https://fairsharing.org/FAIRsharing.yxrs8t' by 'The FAIRsharing Team' at 10:41, 27 Jul 2018 (approved):

	'miriam_id' has been modified:
		Before: None
		After: 

	'homepage' has been modified:
		Before: http://www.neuroepigenomics.org/methylomedb/
		After: http://habanero.mssm.edu/methylomedb/index.html

Edits to 'https://fairsharing.org/FAIRsharing.yxrs8t' by 'The FAIRsharing Team' at 11:18, 05 Dec 2016 (approved):

	'description' has been modified:
		Before: This resource has DNA methylation profiles in human and mouse brain. This database includes genome-wide DNA methylation profiles for human and mouse brains. The DNA methylation profiles were generated by Methylation Mapping Analysis by Paired-end Sequencing (Methyl-MAPS) method and analyzed by Methyl-Analyzer software package. The methylation profiles cover over 80% CpG dinucleotides in human and mouse brains in single-CpG resolution. The integrated genome browser (modified from UCSC Genome Browser allows users to browse DNA methylation profiles in specific genomic loci, to search specific methylation patterns, and to compare methylation patterns between individual samples. 
		After: This resource details DNA methylation profiles in human and mouse brain. This database includes genome-wide DNA methylation profiles for human and mouse brains. The DNA methylation profiles were generated by Methylation Mapping Analysis by Paired-end Sequencing (Methyl-MAPS) method and analyzed by Methyl-Analyzer software package. The methylation profiles cover over 80% CpG dinucleotides in human and mouse brains in single-CpG resolution. The integrated genome browser (modified from UCSC Genome Browser allows users to browse DNA methylation profiles in specific genomic loci, to search specific methylation patterns, and to compare methylation patterns between individual samples.  Domain list has changed:  Previous values: DNA methylation|| Life Science|domain| New values:  DNA methylation|| Life Science|domain| Brain|material|http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-GrossAnatomy.owl#birnlex_796 Methylation profiling|| Organisations have changed:  Previous values: Department of Psychiatry|Columbia University and The New York State Psychiatric Institute|New York|NY|USA National Institute of Ageing|NIH|US New values:  Department of Psychiatry|Columbia University and The New York State Psychiatric Institute|New York|NY|USA National Institute of Ageing|NIH|USA

Edits to 'https://fairsharing.org/FAIRsharing.yxrs8t' by 'The FAIRsharing Team' at 19:28, 02 Dec 2016 (approved):

'description' has been modified:
Before: DNA methylation profiles in human and mouse brain. This database includes genome-wide DNA methylation profiles for human and mouse brains. The DNA methylation profiles were generated by Methylation Mapping Analysis by Paired-end Sequencing (Methyl-MAPS) method and analyzed by Methyl-Analyzer software package. The methylation profiles cover over 80% CpG dinucleotides in human and mouse brains in single-CpG resolution. The integrated genome browser (modified from UCSC Genome Browser allows users to browse DNA methylation profiles in specific genomic loci, to search specific methylation patterns, and to compare methylation patterns between individual samples.
After: This resource has DNA methylation profiles in human and mouse brain. This database includes genome-wide DNA methylation profiles for human and mouse brains. The DNA methylation profiles were generated by Methylation Mapping Analysis by Paired-end Sequencing (Methyl-MAPS) method and analyzed by Methyl-Analyzer software package. The methylation profiles cover over 80% CpG dinucleotides in human and mouse brains in single-CpG resolution. The integrated genome browser (modified from UCSC Genome Browser allows users to browse DNA methylation profiles in specific genomic loci, to search specific methylation patterns, and to compare methylation patterns between individual samples. Domain list has changed: Previous values: DNA methylation|| New values: DNA methylation|| Life Science|domain| Publication List has changed: Previous values: MethylomeDB: a database of DNA methylation profiles of the brain. New values: MethylomeDB: a database of DNA methylation profiles of the brain. Distinct DNA methylation changes highly correlated with chronological age in the human brain. Tools have changed: Previous values: New values: Browser Grants have changed: Previous values: New values: Z01 AG000932-02

Support

General

FAQ	http://habanero.mssm.edu/methylomedb/hel ...
contact form	http://habanero.mssm.edu/methylomedb/con ...
help	http://habanero.mssm.edu/methylomedb/hel ...

Additional Information

Contact

fgh3@columbia.edu

Tools

Browser

http://habanero.mssm.edu/index.html

Access / Retrieve Data

Conditions of Use

Data Versioning

No versioning policy	No link recorded
Access to historical files upon request	No link recorded

Data Release

Ad-hoc release

No link recorded

Data Curation

Manual curation

No link recorded

Data Access

Data Download

http://www.neuroepigenomics.org/methylomedb/download.html

Publications

MethylomeDB: a database of DNA methylation profiles of the brain.

Xin Y., Chanrion B., O'Donnell AH., Milekic M., Costa R., Ge Y., Haghighi FG.,
Nucleic Acids Res. 2012

View Paper (PubMed)

Distinct DNA methylation changes highly correlated with chronological age in the human brain.

Hernandez DG,Nalls MA,Gibbs JR,Arepalli S,van der Brug M,Chong S,Moore M,Longo DL,Cookson MR,Traynor BJ,Singleton AB
Hum Mol Genet 2011

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

No semantic standards defined

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases

No related databases defined

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

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Funds

National Institute on Aging (NIA), Bethesda, MD, USA (Government body)

Maintains

Columbia University, USA (University)

Grant Number(s)

Z01 AG000932-02 (National Institute on Aging (NIA), Bethesda, MD, USA)

MethylomeDB

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