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UCSC Genome Browser database

General Information

Genome assemblies and aligned annotations for a wide range of vertebrates and model organisms, along with an integrated tool set for visualizing, comparing, analyzing and sharing both publicly available and user-generated genomic datasets.

Homepage http://genome.ucsc.edu

Countries that developed this resource United States

Created in 2001

Taxonomic range

Ailuropoda melanoleuca

Alligator Mississippiensis

Balaenoptera acutorostrata scammoni

Bos taurus

Caenorhabditis elegans

Gorilla gorilla gorilla

Heterocephalus glaber

Monodelphis domestica

Mus musculus

Mustela putorius furo

Myotis lucifugus

Nomascus leucogenys

Ochotona princeps

Ornithorhynchus anatinus

Oryctolagus cuniculus

Pongo pygmaeus abelii

Spermophilus tridecemlineatus

Sus scrofa

Takifugu rubripes

Tarsius syrichta

Tetraodon nigroviridis

Trichechus manatus latirostris

Knowledge Domains

Subjects

User-defined Tags

COVID-19

Uniqueness mapping

How to cite this record FAIRsharing.org: UCSC Genome Browser database; UCSC Genome Browser database; DOI: https://doi.org/10.25504/FAIRsharing.s22qdj; Last edited: June 30, 2021, 8:33 p.m.; Last accessed: Sep 25 2021 5:19 a.m.

This record is maintained by BrianLee ORCID

Record updated: June 30, 2021, 6:23 p.m. by BrianLee.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'BrianLee' at 18:23, 30 Jun 2021 (approved):

	'tools' has been modified:
		Before:
			Blat||http://genome.ucsc.edu/cgi-bin/hgBlat
			In Silico PCR||http://genome.ucsc.edu/cgi-bin/hgPcr
			Genome Graphs||http://genome.ucsc.edu/cgi-bin/hgGenome
			VisiGene||http://genome.ucsc.edu/cgi-bin/hgVisiGene
			liftOver||http://genome.ucsc.edu/cgi-bin/hgLiftOver
			Variant Annotation Integrator (VAI)||http://genome.ucsc.edu/cgi-bin/hgVai
			Data Integrator||http://genome.ucsc.edu/cgi-bin/hgIntegrator
			Genome Browser in a Box (virtual machine)||http://genome.ucsc.edu/goldenpath/help/gbib.html
			Genome Browser in the Cloud (installation script)||http://genome.ucsc.edu/goldenpath/help/gbic.html
			REST API data interface||http://api.genome.ucsc.edu/
			Gene interactions and pathways from curated databases and text-mining ||http://genome.ucsc.edu/cgi-bin/hgGeneGraph
			UShER: Ultrafast Sample placement on Existing tRee||http://genome.ucsc.edu/cgi-bin/hgPhyloPlace
		After:
			Blat||http://genome.ucsc.edu/cgi-bin/hgBlat
			In Silico PCR||http://genome.ucsc.edu/cgi-bin/hgPcr
			Genome Graphs||http://genome.ucsc.edu/cgi-bin/hgGenome
			VisiGene||http://genome.ucsc.edu/cgi-bin/hgVisiGene
			liftOver||http://genome.ucsc.edu/cgi-bin/hgLiftOver
			Variant Annotation Integrator (VAI)||http://genome.ucsc.edu/cgi-bin/hgVai
			Data Integrator||http://genome.ucsc.edu/cgi-bin/hgIntegrator
			Genome Browser in a Box (virtual machine)||http://genome.ucsc.edu/goldenpath/help/gbib.html
			Genome Browser in the Cloud (installation script)||http://genome.ucsc.edu/goldenpath/help/gbic.html
			REST API data interface||http://api.genome.ucsc.edu/
			Gene interactions and pathways from curated databases and text-mining ||http://genome.ucsc.edu/cgi-bin/hgGeneGraph
			UShER: Ultrafast Sample placement on Existing tRee||http://genome.ucsc.edu/cgi-bin/hgPhyloPlace
			UCSC Cell Browser||https://cells.ucsc.edu/
		Added:
			UCSC Cell Browser||https://cells.ucsc.edu/
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'BrianLee' at 18:21, 30 Jun 2021 (approved):

	'dataProcesses' has been modified:
		Before:
			daily data releases, data release, 
			data QA, data curation, 
			versioning by genome assembly, data versioning, 
			versioning by individual annotation, data versioning, 
			access to historical files possible, data versioning, 
			file download(tab-delimited,XML), data access, 
			Genome Browser, data access, http://genome.ucsc.edu/
			Table Browser, data access, http://genome.ucsc.edu/cgi-bin/hgTables
			Gene Sorter, data access, http://genome.ucsc.edu/cgi-bin/hgNear
			REST API returning JSON data, data access, http://api.genome.ucsc.edu/
			Download Server, data access, http://hgdownload.soe.ucsc.edu/downloads.html
			MySQL data server, data access, https://genome.ucsc.edu/goldenPath/help/mysql.html
		After:
			daily data releases, data release, 
			data QA, data curation, 
			versioning by genome assembly, data versioning, 
			versioning by individual annotation, data versioning, 
			access to historical files possible, data versioning, 
			file download(tab-delimited,XML), data access, 
			Genome Browser, data access, http://genome.ucsc.edu/
			Table Browser, data access, http://genome.ucsc.edu/cgi-bin/hgTables
			Gene Sorter, data access, http://genome.ucsc.edu/cgi-bin/hgNear
			REST API returning JSON data, data access, http://api.genome.ucsc.edu/
			Download Server, data access, http://hgdownload.soe.ucsc.edu/downloads.html
			MySQL data server, data access, https://genome.ucsc.edu/goldenPath/help/mysql.html
			COVID-19 Research at UCSC Updated: May 11, 2021, data access, http://genome.ucsc.edu/covid19.html
			Single cell resources at UCSC, data access, http://genome.ucsc.edu/singlecell.html
		Added:
			COVID-19 Research at UCSC Updated: May 11, 2021, data access, http://genome.ucsc.edu/covid19.html
			Single cell resources at UCSC, data access, http://genome.ucsc.edu/singlecell.html
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'BrianLee' at 18:17, 30 Jun 2021 (approved):

	'tools' has been modified:
		Before:
			Blat||http://genome.ucsc.edu/cgi-bin/hgBlat
			In Silico PCR||http://genome.ucsc.edu/cgi-bin/hgPcr
			Genome Graphs||http://genome.ucsc.edu/cgi-bin/hgGenome
			VisiGene||http://genome.ucsc.edu/cgi-bin/hgVisiGene
			liftOver||http://genome.ucsc.edu/cgi-bin/hgLiftOver
			Variant Annotation Integrator (VAI)||http://genome.ucsc.edu/cgi-bin/hgVai
			Data Integrator||http://genome.ucsc.edu/cgi-bin/hgIntegrator
			Genome Browser in a Box (virtual machine)||http://genome.ucsc.edu/goldenpath/help/gbib.html
			Genome Browser in the Cloud (installation script)||http://genome.ucsc.edu/goldenpath/help/gbic.html
			REST API data interface||http://api.genome.ucsc.edu/
			Gene interactions and pathways from curated databases and text-mining ||http://genome.ucsc.edu/cgi-bin/hgGeneGraph
		After:
			Blat||http://genome.ucsc.edu/cgi-bin/hgBlat
			In Silico PCR||http://genome.ucsc.edu/cgi-bin/hgPcr
			Genome Graphs||http://genome.ucsc.edu/cgi-bin/hgGenome
			VisiGene||http://genome.ucsc.edu/cgi-bin/hgVisiGene
			liftOver||http://genome.ucsc.edu/cgi-bin/hgLiftOver
			Variant Annotation Integrator (VAI)||http://genome.ucsc.edu/cgi-bin/hgVai
			Data Integrator||http://genome.ucsc.edu/cgi-bin/hgIntegrator
			Genome Browser in a Box (virtual machine)||http://genome.ucsc.edu/goldenpath/help/gbib.html
			Genome Browser in the Cloud (installation script)||http://genome.ucsc.edu/goldenpath/help/gbic.html
			REST API data interface||http://api.genome.ucsc.edu/
			Gene interactions and pathways from curated databases and text-mining ||http://genome.ucsc.edu/cgi-bin/hgGeneGraph
			UShER: Ultrafast Sample placement on Existing tRee||http://genome.ucsc.edu/cgi-bin/hgPhyloPlace
		Added:
			UShER: Ultrafast Sample placement on Existing tRee||http://genome.ucsc.edu/cgi-bin/hgPhyloPlace
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'BrianLee' at 18:15, 30 Jun 2021 (approved):

	'supportLinks' has been modified:
		Before:
			FAQ|http://genome.ucsc.edu/FAQ/
			contact form|http://genome.ucsc.edu/cgi-bin/hgUserSuggestion
			email|genome@soe.ucsc.edu
			forum|https://groups.google.com/a/soe.ucsc.edu/forum/?hl=en#!forum/genome
			help|http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html
			training|http://genome.ucsc.edu/training.html
			twitter|@GenomeBrowser
			wikipedia|https://en.wikipedia.org/wiki/UCSC_Genome_Browser
		After:
			FAQ|http://genome.ucsc.edu/FAQ/
			contact form|http://genome.ucsc.edu/cgi-bin/hgUserSuggestion
			email|genome@soe.ucsc.edu
			forum|https://groups.google.com/a/soe.ucsc.edu/forum/?hl=en#!forum/genome
			help|http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html
			online documentation|https://www.youtube.com/channel/UCQnUJepyNOw0p8s2otX4RYQ/videos
			training|http://genome.ucsc.edu/training.html
			twitter|@GenomeBrowser
			wikipedia|https://en.wikipedia.org/wiki/UCSC_Genome_Browser
		Added:
			online documentation|https://www.youtube.com/channel/UCQnUJepyNOw0p8s2otX4RYQ/videos
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'BrianLee' at 18:13, 30 Jun 2021 (approved):

	'taxonomies' has been modified:
		Before:
			Ailuropoda melanoleuca
			Alligator Mississippiensis
			Balaenoptera acutorostrata scammoni
			Bos taurus
			Caenorhabditis elegans
			Callithrix jacchus
			Canis familiaris
			Cavia porcellus
			Ceratotherium simum
			Choloepus hoffmanni
			Cricetulus griseus
			Danio rerio
			Dasypus novemcinctus
			Dipodomys ordii
			Echinops telfairi
			Equus caballus
			Felis catus
			Gallus gallus
			Gorilla gorilla gorilla
			Heterocephalus glaber
			Homo sapiens
			Loxodonta africana
			Macaca mulatta
			Macropus eugenii
			Microcebus murinus
			Monodelphis domestica
			Mus musculus
			Mustela putorius furo
			Myotis lucifugus
			Nomascus leucogenys
			Ochotona princeps
			Ornithorhynchus anatinus
			Oryctolagus cuniculus
			Oryzias latipes
			Otolemur garnettii
			Ovis aries
			Pan paniscus
			Pan troglodytes
			Papio anubis
			Pongo pygmaeus abelii
			Procavia capensis
			Pteropus vampyrus
			Rattus norvegicus
			Saimiri boliviensis
			Sarcophilus harrisii
			Sorex araneus
			Spermophilus tridecemlineatus
			Sus scrofa
			Takifugu rubripes
			Tarsius syrichta
			Tetraodon nigroviridis
			Trichechus manatus latirostris
			Tupaia belangeri
			Tursiops truncatus
			Vicugna pacos
			Xenopus tropicalis
		After:
			Ailuropoda melanoleuca
			Alligator Mississippiensis
			Balaenoptera acutorostrata scammoni
			Bos taurus
			Caenorhabditis elegans
			Callithrix jacchus
			Canis familiaris
			Cavia porcellus
			Ceratotherium simum
			Choloepus hoffmanni
			Cricetulus griseus
			Danio rerio
			Dasypus novemcinctus
			Dipodomys ordii
			Echinops telfairi
			Equus caballus
			Felis catus
			Gallus gallus
			Gorilla gorilla gorilla
			Heterocephalus glaber
			Homo sapiens
			Loxodonta africana
			Macaca mulatta
			Macropus eugenii
			Microcebus murinus
			Monodelphis domestica
			Mus musculus
			Mustela putorius furo
			Myotis lucifugus
			Nomascus leucogenys
			Ochotona princeps
			Ornithorhynchus anatinus
			Oryctolagus cuniculus
			Oryzias latipes
			Otolemur garnettii
			Ovis aries
			Pan paniscus
			Pan troglodytes
			Papio anubis
			Pongo pygmaeus abelii
			Procavia capensis
			Pteropus vampyrus
			Rattus norvegicus
			SARS-CoV-2
			Saimiri boliviensis
			Sarcophilus harrisii
			Sorex araneus
			Spermophilus tridecemlineatus
			Sus scrofa
			Takifugu rubripes
			Tarsius syrichta
			Tetraodon nigroviridis
			Trichechus manatus latirostris
			Tupaia belangeri
			Tursiops truncatus
			Vicugna pacos
			Xenopus tropicalis
		Added:
			SARS-CoV-2
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'BrianLee' at 18:12, 30 Jun 2021 (approved):

	'publications' has been modified:
		Before:
			 The UCSC Genome Browser database: extensions and updates 2013|Meyer LR, Zweig AS, Hinrichs AS, Karolchik D, Kuhn RM,  et al.|Nucleic Acids Res|2013
			The UCSC Table Browser data retrieval tool|Karolchik D., Hinrichs AS., Furey TS., Roskin KM., Sugnet CW., Haussler D., Kent WJ., |Nucleic Acids Res.|2004
			The human genome browser at UCSC|Kent WJ., Sugnet CW., Furey TS., Roskin KM., Pringle TH., Zahler AM., Haussler D., |Genome Res.|2002
			 ENCODE data in the UCSC Genome Browser: year 5 update|Rosenbloom KR, Sloan CA, Malladi VS, Dreszer TR, Learned K, Kirkup VM, Wong MC, Maddren M, Fang R, Heitner SG, Lee BT, Barber GP, Harte RA, Diekhans M, Long JC, Wilder SP, Zweig AS, Karolchik D, Kuhn RM, Haussler D, Kent WJ|Nucleic Acids Res.|2013
			BLAT--the BLAST-like alignment tool.|Kent WJ., |Genome Res.|2002
			Exploring relationships and mining data with the UCSC Gene Sorter|Kent WJ, Hsu F, Karolchik D, Kuhn RM, Clawson H, Trumbower H, Haussler D|Genome Res.|2005
			The UCSC Genome Browser|Karolchik D, Hinrichs AS, Kent WJ|Curr Protoc Bioinformatics|2012
			Initial sequencing and analysis of the human genome|Lander ES., Linton LM., Birren B., Nusbaum C., Zody MC., Baldwin J., Devon K., Dewar K., Doyle M., FitzHugh W., Funke R. et al.|Nature|2001
			Assembly of the working draft of the human genome with GigAssembler.|Kent WJ., Haussler D., |Genome Res.|2001
			The UCSC Genome Browser database: 2016 update.|Speir ML,Zweig AS,Rosenbloom KR,Raney BJ,Paten B,Nejad P,Lee BT,Learned K,Karolchik D,Hinrichs AS,Heitner S,Harte RA,Haeussler M,Guruvadoo L,Fujita PA,Eisenhart C,Diekhans M,Clawson H,Casper J,Barber GP,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2015
			The UCSC Genome Browser database: 2015 update.|Rosenbloom KR et al.|Nucleic Acids Res|2014
			The UCSC Genome Browser database: 2017 update.|Tyner C, et al.|Nucleic Acids Res|2016
			UCSC Genome Browser enters 20th year.|Lee CM, Barber GP, Casper J, Clawson H, Diekhans M, Gonzalez JN, Hinrichs AS, Lee BT, Nassar LR, Powell CC, Raney BJ, Rosenbloom KR, Schmelter D, Speir ML, Zweig AS, Haussler D, Haeussler M, Kuhn RM, Kent WJ.|Nucleic Acids Res.|2020
			The UCSC Genome Browser database: 2019 update|Haeussler M, Zweig AS, Tyner C, Speir ML, Rosenbloom KR, Raney BJ, Lee CM, Lee BT, Hinrichs AS, Gonzalez JN, Gibson D, Diekhans M, Clawson H, Casper J, Barber GP, Haussler D, Kuhn RM, Kent WJ.|Nucleic Acids Res.|2019
			 The UCSC Genome Browser database: 2018 update.|Casper J, et al.|Nucleic Acids Res.|2018
		After:
			 The UCSC Genome Browser database: extensions and updates 2013|Meyer LR, Zweig AS, Hinrichs AS, Karolchik D, Kuhn RM,  et al.|Nucleic Acids Res|2013
			The UCSC Table Browser data retrieval tool|Karolchik D., Hinrichs AS., Furey TS., Roskin KM., Sugnet CW., Haussler D., Kent WJ., |Nucleic Acids Res.|2004
			The human genome browser at UCSC|Kent WJ., Sugnet CW., Furey TS., Roskin KM., Pringle TH., Zahler AM., Haussler D., |Genome Res.|2002
			 ENCODE data in the UCSC Genome Browser: year 5 update|Rosenbloom KR, Sloan CA, Malladi VS, Dreszer TR, Learned K, Kirkup VM, Wong MC, Maddren M, Fang R, Heitner SG, Lee BT, Barber GP, Harte RA, Diekhans M, Long JC, Wilder SP, Zweig AS, Karolchik D, Kuhn RM, Haussler D, Kent WJ|Nucleic Acids Res.|2013
			BLAT--the BLAST-like alignment tool.|Kent WJ., |Genome Res.|2002
			Exploring relationships and mining data with the UCSC Gene Sorter|Kent WJ, Hsu F, Karolchik D, Kuhn RM, Clawson H, Trumbower H, Haussler D|Genome Res.|2005
			The UCSC Genome Browser|Karolchik D, Hinrichs AS, Kent WJ|Curr Protoc Bioinformatics|2012
			Initial sequencing and analysis of the human genome|Lander ES., Linton LM., Birren B., Nusbaum C., Zody MC., Baldwin J., Devon K., Dewar K., Doyle M., FitzHugh W., Funke R. et al.|Nature|2001
			Assembly of the working draft of the human genome with GigAssembler.|Kent WJ., Haussler D., |Genome Res.|2001
			The UCSC Genome Browser database: 2016 update.|Speir ML,Zweig AS,Rosenbloom KR,Raney BJ,Paten B,Nejad P,Lee BT,Learned K,Karolchik D,Hinrichs AS,Heitner S,Harte RA,Haeussler M,Guruvadoo L,Fujita PA,Eisenhart C,Diekhans M,Clawson H,Casper J,Barber GP,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2015
			The UCSC Genome Browser database: 2015 update.|Rosenbloom KR et al.|Nucleic Acids Res|2014
			The UCSC Genome Browser database: 2017 update.|Tyner C, et al.|Nucleic Acids Res|2016
			UCSC Genome Browser enters 20th year.|Lee CM, Barber GP, Casper J, Clawson H, Diekhans M, Gonzalez JN, Hinrichs AS, Lee BT, Nassar LR, Powell CC, Raney BJ, Rosenbloom KR, Schmelter D, Speir ML, Zweig AS, Haussler D, Haeussler M, Kuhn RM, Kent WJ.|Nucleic Acids Res.|2020
			The UCSC Genome Browser database: 2019 update|Haeussler M, Zweig AS, Tyner C, Speir ML, Rosenbloom KR, Raney BJ, Lee CM, Lee BT, Hinrichs AS, Gonzalez JN, Gibson D, Diekhans M, Clawson H, Casper J, Barber GP, Haussler D, Kuhn RM, Kent WJ.|Nucleic Acids Res.|2019
			 The UCSC Genome Browser database: 2018 update.|Casper J, et al.|Nucleic Acids Res.|2018
			The UCSC Genome Browser database: 2021 update.|Navarro Gonzalez J,Zweig AS,Speir ML,Schmelter D,Rosenbloom KR,Raney BJ,Powell CC,Nassar LR,Maulding ND,Lee CM,Lee BT,Hinrichs AS,Fyfe AC,Fernandes JD,Diekhans M,Clawson H,Casper J,Benet-Pages A,Barber GP,Haussler D,Kuhn RM,Haeussler M,Kent WJ|Nucleic Acids Res|2020
			The UCSC SARS-CoV-2 Genome Browser.|Fernandes JD,Hinrichs AS,Clawson H,Gonzalez JN,Lee BT,Nassar LR,Raney BJ,Rosenbloom KR,Nerli S,Rao AA,Schmelter D,Fyfe A,Maulding N,Zweig AS,Lowe TM,Ares M Jr,Corbet-Detig R,Kent WJ,Haussler D,Haeussler M|Nat Genet|2020
			The UCSC repeat browser allows discovery and visualization of evolutionary conflict across repeat families.|Fernandes JD,Zamudio-Hurtado A,Clawson H,Kent WJ,Haussler D,Salama SR,Haeussler M|Mob DNA|2020
			Ultrafast Sample Placement on Existing Trees (UShER) Empowers Real-Time Phylogenetics for the SARS-CoV-2 Pandemic.|Turakhia Y,Thornlow B,Hinrichs AS,De Maio N,Gozashti L,Lanfear R,Haussler D,Corbett-Detig R|bioRxiv|2020
		Added:
			The UCSC Genome Browser database: 2021 update.|Navarro Gonzalez J,Zweig AS,Speir ML,Schmelter D,Rosenbloom KR,Raney BJ,Powell CC,Nassar LR,Maulding ND,Lee CM,Lee BT,Hinrichs AS,Fyfe AC,Fernandes JD,Diekhans M,Clawson H,Casper J,Benet-Pages A,Barber GP,Haussler D,Kuhn RM,Haeussler M,Kent WJ|Nucleic Acids Res|2020
			The UCSC SARS-CoV-2 Genome Browser.|Fernandes JD,Hinrichs AS,Clawson H,Gonzalez JN,Lee BT,Nassar LR,Raney BJ,Rosenbloom KR,Nerli S,Rao AA,Schmelter D,Fyfe A,Maulding N,Zweig AS,Lowe TM,Ares M Jr,Corbet-Detig R,Kent WJ,Haussler D,Haeussler M|Nat Genet|2020
			The UCSC repeat browser allows discovery and visualization of evolutionary conflict across repeat families.|Fernandes JD,Zamudio-Hurtado A,Clawson H,Kent WJ,Haussler D,Salama SR,Haeussler M|Mob DNA|2020
			Ultrafast Sample Placement on Existing Trees (UShER) Empowers Real-Time Phylogenetics for the SARS-CoV-2 Pandemic.|Turakhia Y,Thornlow B,Hinrichs AS,De Maio N,Gozashti L,Lanfear R,Haussler D,Corbett-Detig R|bioRxiv|2020
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'The FAIRsharing Team' at 13:26, 30 Jun 2021 (approved):

	'publications' has been modified:
		Before:
			 The UCSC Genome Browser database: extensions and updates 2013|Meyer LR, Zweig AS, Hinrichs AS, Karolchik D, Kuhn RM,  et al.|Nucleic Acids Res|2013
			The UCSC Table Browser data retrieval tool|Karolchik D., Hinrichs AS., Furey TS., Roskin KM., Sugnet CW., Haussler D., Kent WJ., |Nucleic Acids Res.|2004
			The human genome browser at UCSC|Kent WJ., Sugnet CW., Furey TS., Roskin KM., Pringle TH., Zahler AM., Haussler D., |Genome Res.|2002
			 ENCODE data in the UCSC Genome Browser: year 5 update|Rosenbloom KR, Sloan CA, Malladi VS, Dreszer TR, Learned K, Kirkup VM, Wong MC, Maddren M, Fang R, Heitner SG, Lee BT, Barber GP, Harte RA, Diekhans M, Long JC, Wilder SP, Zweig AS, Karolchik D, Kuhn RM, Haussler D, Kent WJ|Nucleic Acids Res.|2013
			BLAT--the BLAST-like alignment tool.|Kent WJ., |Genome Res.|2002
			Exploring relationships and mining data with the UCSC Gene Sorter|Kent WJ, Hsu F, Karolchik D, Kuhn RM, Clawson H, Trumbower H, Haussler D|Genome Res.|2005
			The UCSC Genome Browser|Karolchik D, Hinrichs AS, Kent WJ|Curr Protoc Bioinformatics|2012
			Initial sequencing and analysis of the human genome|Lander ES., Linton LM., Birren B., Nusbaum C., Zody MC., Baldwin J., Devon K., Dewar K., Doyle M., FitzHugh W., Funke R. et al.|Nature|2001
			Assembly of the working draft of the human genome with GigAssembler.|Kent WJ., Haussler D., |Genome Res.|2001
			The UCSC Genome Browser database: 2016 update.|Speir ML,Zweig AS,Rosenbloom KR,Raney BJ,Paten B,Nejad P,Lee BT,Learned K,Karolchik D,Hinrichs AS,Heitner S,Harte RA,Haeussler M,Guruvadoo L,Fujita PA,Eisenhart C,Diekhans M,Clawson H,Casper J,Barber GP,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2015
			The UCSC Genome Browser database: 2015 update.|Rosenbloom KR,Armstrong J,Barber GP,Casper J,Clawson H,Diekhans M,Dreszer TR,Fujita PA,Guruvadoo L,Haeussler M,Harte RA,Heitner S,Hickey G,Hinrichs AS,Hubley R,Karolchik D,Learned K,Lee BT,Li CH,Miga KH,Nguyen N,Paten B,Raney BJ,Smit AF,Speir ML,Zweig AS,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2014
			The UCSC Genome Browser database: 2017 update.|Tyner C,Barber GP,Casper J,Clawson H,Diekhans M,Eisenhart C,Fischer CM,Gibson D,Gonzalez JN,Guruvadoo L,Haeussler M,Heitner S,Hinrichs AS,Karolchik D,Lee BT,Lee CM,Nejad P,Raney BJ,Rosenbloom KR,Speir ML,Villarreal C,Vivian J,Zweig AS,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2016
			UCSC Genome Browser enters 20th year.|Lee CM, Barber GP, Casper J, Clawson H, Diekhans M, Gonzalez JN, Hinrichs AS, Lee BT, Nassar LR, Powell CC, Raney BJ, Rosenbloom KR, Schmelter D, Speir ML, Zweig AS, Haussler D, Haeussler M, Kuhn RM, Kent WJ.|Nucleic Acids Res.|2020
			The UCSC Genome Browser database: 2019 update|Haeussler M, Zweig AS, Tyner C, Speir ML, Rosenbloom KR, Raney BJ, Lee CM, Lee BT, Hinrichs AS, Gonzalez JN, Gibson D, Diekhans M, Clawson H, Casper J, Barber GP, Haussler D, Kuhn RM, Kent WJ.|Nucleic Acids Res.|2019
			 The UCSC Genome Browser database: 2018 update.|Casper J, Zweig AS, Villarreal C, Tyner C, Speir ML, Rosenbloom KR, Raney BJ, Lee CM, Lee BT, Karolchik D, Hinrichs AS, Haeussler M, Guruvadoo L, Navarro Gonzalez J, Gibson D, Fiddes IT, Eisenhart C, Diekhans M, Clawson H, Barber GP, Armstrong J, Haussler D, Kuhn RM, Kent WJ. |Nucleic Acids Res.|2018
		After:
			 The UCSC Genome Browser database: extensions and updates 2013|Meyer LR, Zweig AS, Hinrichs AS, Karolchik D, Kuhn RM,  et al.|Nucleic Acids Res|2013
			The UCSC Table Browser data retrieval tool|Karolchik D., Hinrichs AS., Furey TS., Roskin KM., Sugnet CW., Haussler D., Kent WJ., |Nucleic Acids Res.|2004
			The human genome browser at UCSC|Kent WJ., Sugnet CW., Furey TS., Roskin KM., Pringle TH., Zahler AM., Haussler D., |Genome Res.|2002
			 ENCODE data in the UCSC Genome Browser: year 5 update|Rosenbloom KR, Sloan CA, Malladi VS, Dreszer TR, Learned K, Kirkup VM, Wong MC, Maddren M, Fang R, Heitner SG, Lee BT, Barber GP, Harte RA, Diekhans M, Long JC, Wilder SP, Zweig AS, Karolchik D, Kuhn RM, Haussler D, Kent WJ|Nucleic Acids Res.|2013
			BLAT--the BLAST-like alignment tool.|Kent WJ., |Genome Res.|2002
			Exploring relationships and mining data with the UCSC Gene Sorter|Kent WJ, Hsu F, Karolchik D, Kuhn RM, Clawson H, Trumbower H, Haussler D|Genome Res.|2005
			The UCSC Genome Browser|Karolchik D, Hinrichs AS, Kent WJ|Curr Protoc Bioinformatics|2012
			Initial sequencing and analysis of the human genome|Lander ES., Linton LM., Birren B., Nusbaum C., Zody MC., Baldwin J., Devon K., Dewar K., Doyle M., FitzHugh W., Funke R. et al.|Nature|2001
			Assembly of the working draft of the human genome with GigAssembler.|Kent WJ., Haussler D., |Genome Res.|2001
			The UCSC Genome Browser database: 2016 update.|Speir ML,Zweig AS,Rosenbloom KR,Raney BJ,Paten B,Nejad P,Lee BT,Learned K,Karolchik D,Hinrichs AS,Heitner S,Harte RA,Haeussler M,Guruvadoo L,Fujita PA,Eisenhart C,Diekhans M,Clawson H,Casper J,Barber GP,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2015
			The UCSC Genome Browser database: 2015 update.|Rosenbloom KR et al.|Nucleic Acids Res|2014
			The UCSC Genome Browser database: 2017 update.|Tyner C, et al.|Nucleic Acids Res|2016
			UCSC Genome Browser enters 20th year.|Lee CM, Barber GP, Casper J, Clawson H, Diekhans M, Gonzalez JN, Hinrichs AS, Lee BT, Nassar LR, Powell CC, Raney BJ, Rosenbloom KR, Schmelter D, Speir ML, Zweig AS, Haussler D, Haeussler M, Kuhn RM, Kent WJ.|Nucleic Acids Res.|2020
			The UCSC Genome Browser database: 2019 update|Haeussler M, Zweig AS, Tyner C, Speir ML, Rosenbloom KR, Raney BJ, Lee CM, Lee BT, Hinrichs AS, Gonzalez JN, Gibson D, Diekhans M, Clawson H, Casper J, Barber GP, Haussler D, Kuhn RM, Kent WJ.|Nucleic Acids Res.|2019
			 The UCSC Genome Browser database: 2018 update.|Casper J, et al.|Nucleic Acids Res.|2018
		Added:
			The UCSC Genome Browser database: 2015 update.|Rosenbloom KR et al.|Nucleic Acids Res|2014
			The UCSC Genome Browser database: 2017 update.|Tyner C, et al.|Nucleic Acids Res|2016
			 The UCSC Genome Browser database: 2018 update.|Casper J, et al.|Nucleic Acids Res.|2018
		Removed:
			The UCSC Genome Browser database: 2015 update.|Rosenbloom KR,Armstrong J,Barber GP,Casper J,Clawson H,Diekhans M,Dreszer TR,Fujita PA,Guruvadoo L,Haeussler M,Harte RA,Heitner S,Hickey G,Hinrichs AS,Hubley R,Karolchik D,Learned K,Lee BT,Li CH,Miga KH,Nguyen N,Paten B,Raney BJ,Smit AF,Speir ML,Zweig AS,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2014
			The UCSC Genome Browser database: 2017 update.|Tyner C,Barber GP,Casper J,Clawson H,Diekhans M,Eisenhart C,Fischer CM,Gibson D,Gonzalez JN,Guruvadoo L,Haeussler M,Heitner S,Hinrichs AS,Karolchik D,Lee BT,Lee CM,Nejad P,Raney BJ,Rosenbloom KR,Speir ML,Villarreal C,Vivian J,Zweig AS,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2016
			 The UCSC Genome Browser database: 2018 update.|Casper J, Zweig AS, Villarreal C, Tyner C, Speir ML, Rosenbloom KR, Raney BJ, Lee CM, Lee BT, Karolchik D, Hinrichs AS, Haeussler M, Guruvadoo L, Navarro Gonzalez J, Gibson D, Fiddes IT, Eisenhart C, Diekhans M, Clawson H, Barber GP, Armstrong J, Haussler D, Kuhn RM, Kent WJ. |Nucleic Acids Res.|2018

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'The FAIRsharing Team' at 09:47, 17 Apr 2020 (approved):

	'onto_disciplines' has been modified:
		Before:
			Comparative Genomics
			Life Science
			Proteomics
			Transcriptomics
		After:
			Comparative Genomics
			Immunology
			Life Science
			Microbiology
			Proteomics
			Transcriptomics
		Added:
			Immunology
			Microbiology
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'BrianLee' at 18:49, 16 Apr 2020 (approved):

	'publications' has been modified:
		Before:
			 The UCSC Genome Browser database: extensions and updates 2013|Meyer LR, Zweig AS, Hinrichs AS, Karolchik D, Kuhn RM,  et al.|Nucleic Acids Res|2013
			The UCSC Table Browser data retrieval tool|Karolchik D., Hinrichs AS., Furey TS., Roskin KM., Sugnet CW., Haussler D., Kent WJ., |Nucleic Acids Res.|2004
			The human genome browser at UCSC|Kent WJ., Sugnet CW., Furey TS., Roskin KM., Pringle TH., Zahler AM., Haussler D., |Genome Res.|2002
			 ENCODE data in the UCSC Genome Browser: year 5 update|Rosenbloom KR, Sloan CA, Malladi VS, Dreszer TR, Learned K, Kirkup VM, Wong MC, Maddren M, Fang R, Heitner SG, Lee BT, Barber GP, Harte RA, Diekhans M, Long JC, Wilder SP, Zweig AS, Karolchik D, Kuhn RM, Haussler D, Kent WJ|Nucleic Acids Res.|2013
			BLAT--the BLAST-like alignment tool.|Kent WJ., |Genome Res.|2002
			Exploring relationships and mining data with the UCSC Gene Sorter|Kent WJ, Hsu F, Karolchik D, Kuhn RM, Clawson H, Trumbower H, Haussler D|Genome Res.|2005
			The UCSC Genome Browser|Karolchik D, Hinrichs AS, Kent WJ|Curr Protoc Bioinformatics|2012
			Initial sequencing and analysis of the human genome|Lander ES., Linton LM., Birren B., Nusbaum C., Zody MC., Baldwin J., Devon K., Dewar K., Doyle M., FitzHugh W., Funke R. et al.|Nature|2001
			Assembly of the working draft of the human genome with GigAssembler.|Kent WJ., Haussler D., |Genome Res.|2001
			The UCSC Genome Browser database: 2016 update.|Speir ML,Zweig AS,Rosenbloom KR,Raney BJ,Paten B,Nejad P,Lee BT,Learned K,Karolchik D,Hinrichs AS,Heitner S,Harte RA,Haeussler M,Guruvadoo L,Fujita PA,Eisenhart C,Diekhans M,Clawson H,Casper J,Barber GP,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2015
			The UCSC Genome Browser database: 2015 update.|Rosenbloom KR,Armstrong J,Barber GP,Casper J,Clawson H,Diekhans M,Dreszer TR,Fujita PA,Guruvadoo L,Haeussler M,Harte RA,Heitner S,Hickey G,Hinrichs AS,Hubley R,Karolchik D,Learned K,Lee BT,Li CH,Miga KH,Nguyen N,Paten B,Raney BJ,Smit AF,Speir ML,Zweig AS,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2014
			The UCSC Genome Browser database: 2017 update.|Tyner C,Barber GP,Casper J,Clawson H,Diekhans M,Eisenhart C,Fischer CM,Gibson D,Gonzalez JN,Guruvadoo L,Haeussler M,Heitner S,Hinrichs AS,Karolchik D,Lee BT,Lee CM,Nejad P,Raney BJ,Rosenbloom KR,Speir ML,Villarreal C,Vivian J,Zweig AS,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2016
			UCSC Genome Browser enters 20th year.|Lee CM, Barber GP, Casper J, Clawson H, Diekhans M, Gonzalez JN, Hinrichs AS, Lee BT, Nassar LR, Powell CC, Raney BJ, Rosenbloom KR, Schmelter D, Speir ML, Zweig AS, Haussler D, Haeussler M, Kuhn RM, Kent WJ.|Nucleic Acids Res.|2020
		After:
			 The UCSC Genome Browser database: extensions and updates 2013|Meyer LR, Zweig AS, Hinrichs AS, Karolchik D, Kuhn RM,  et al.|Nucleic Acids Res|2013
			The UCSC Table Browser data retrieval tool|Karolchik D., Hinrichs AS., Furey TS., Roskin KM., Sugnet CW., Haussler D., Kent WJ., |Nucleic Acids Res.|2004
			The human genome browser at UCSC|Kent WJ., Sugnet CW., Furey TS., Roskin KM., Pringle TH., Zahler AM., Haussler D., |Genome Res.|2002
			 ENCODE data in the UCSC Genome Browser: year 5 update|Rosenbloom KR, Sloan CA, Malladi VS, Dreszer TR, Learned K, Kirkup VM, Wong MC, Maddren M, Fang R, Heitner SG, Lee BT, Barber GP, Harte RA, Diekhans M, Long JC, Wilder SP, Zweig AS, Karolchik D, Kuhn RM, Haussler D, Kent WJ|Nucleic Acids Res.|2013
			BLAT--the BLAST-like alignment tool.|Kent WJ., |Genome Res.|2002
			Exploring relationships and mining data with the UCSC Gene Sorter|Kent WJ, Hsu F, Karolchik D, Kuhn RM, Clawson H, Trumbower H, Haussler D|Genome Res.|2005
			The UCSC Genome Browser|Karolchik D, Hinrichs AS, Kent WJ|Curr Protoc Bioinformatics|2012
			Initial sequencing and analysis of the human genome|Lander ES., Linton LM., Birren B., Nusbaum C., Zody MC., Baldwin J., Devon K., Dewar K., Doyle M., FitzHugh W., Funke R. et al.|Nature|2001
			Assembly of the working draft of the human genome with GigAssembler.|Kent WJ., Haussler D., |Genome Res.|2001
			The UCSC Genome Browser database: 2016 update.|Speir ML,Zweig AS,Rosenbloom KR,Raney BJ,Paten B,Nejad P,Lee BT,Learned K,Karolchik D,Hinrichs AS,Heitner S,Harte RA,Haeussler M,Guruvadoo L,Fujita PA,Eisenhart C,Diekhans M,Clawson H,Casper J,Barber GP,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2015
			The UCSC Genome Browser database: 2015 update.|Rosenbloom KR,Armstrong J,Barber GP,Casper J,Clawson H,Diekhans M,Dreszer TR,Fujita PA,Guruvadoo L,Haeussler M,Harte RA,Heitner S,Hickey G,Hinrichs AS,Hubley R,Karolchik D,Learned K,Lee BT,Li CH,Miga KH,Nguyen N,Paten B,Raney BJ,Smit AF,Speir ML,Zweig AS,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2014
			The UCSC Genome Browser database: 2017 update.|Tyner C,Barber GP,Casper J,Clawson H,Diekhans M,Eisenhart C,Fischer CM,Gibson D,Gonzalez JN,Guruvadoo L,Haeussler M,Heitner S,Hinrichs AS,Karolchik D,Lee BT,Lee CM,Nejad P,Raney BJ,Rosenbloom KR,Speir ML,Villarreal C,Vivian J,Zweig AS,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2016
			UCSC Genome Browser enters 20th year.|Lee CM, Barber GP, Casper J, Clawson H, Diekhans M, Gonzalez JN, Hinrichs AS, Lee BT, Nassar LR, Powell CC, Raney BJ, Rosenbloom KR, Schmelter D, Speir ML, Zweig AS, Haussler D, Haeussler M, Kuhn RM, Kent WJ.|Nucleic Acids Res.|2020
			The UCSC Genome Browser database: 2019 update|Haeussler M, Zweig AS, Tyner C, Speir ML, Rosenbloom KR, Raney BJ, Lee CM, Lee BT, Hinrichs AS, Gonzalez JN, Gibson D, Diekhans M, Clawson H, Casper J, Barber GP, Haussler D, Kuhn RM, Kent WJ.|Nucleic Acids Res.|2019
			 The UCSC Genome Browser database: 2018 update.|Casper J, Zweig AS, Villarreal C, Tyner C, Speir ML, Rosenbloom KR, Raney BJ, Lee CM, Lee BT, Karolchik D, Hinrichs AS, Haeussler M, Guruvadoo L, Navarro Gonzalez J, Gibson D, Fiddes IT, Eisenhart C, Diekhans M, Clawson H, Barber GP, Armstrong J, Haussler D, Kuhn RM, Kent WJ. |Nucleic Acids Res.|2018
		Added:
			The UCSC Genome Browser database: 2019 update|Haeussler M, Zweig AS, Tyner C, Speir ML, Rosenbloom KR, Raney BJ, Lee CM, Lee BT, Hinrichs AS, Gonzalez JN, Gibson D, Diekhans M, Clawson H, Casper J, Barber GP, Haussler D, Kuhn RM, Kent WJ.|Nucleic Acids Res.|2019
			 The UCSC Genome Browser database: 2018 update.|Casper J, Zweig AS, Villarreal C, Tyner C, Speir ML, Rosenbloom KR, Raney BJ, Lee CM, Lee BT, Karolchik D, Hinrichs AS, Haeussler M, Guruvadoo L, Navarro Gonzalez J, Gibson D, Fiddes IT, Eisenhart C, Diekhans M, Clawson H, Barber GP, Armstrong J, Haussler D, Kuhn RM, Kent WJ. |Nucleic Acids Res.|2018
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'BrianLee' at 18:46, 16 Apr 2020 (approved):

	'publications' has been modified:
		Before:
			 The UCSC Genome Browser database: extensions and updates 2013|Meyer LR, Zweig AS, Hinrichs AS, Karolchik D, Kuhn RM,  et al.|Nucleic Acids Res|2013
			The UCSC Table Browser data retrieval tool|Karolchik D., Hinrichs AS., Furey TS., Roskin KM., Sugnet CW., Haussler D., Kent WJ., |Nucleic Acids Res.|2004
			The human genome browser at UCSC|Kent WJ., Sugnet CW., Furey TS., Roskin KM., Pringle TH., Zahler AM., Haussler D., |Genome Res.|2002
			 ENCODE data in the UCSC Genome Browser: year 5 update|Rosenbloom KR, Sloan CA, Malladi VS, Dreszer TR, Learned K, Kirkup VM, Wong MC, Maddren M, Fang R, Heitner SG, Lee BT, Barber GP, Harte RA, Diekhans M, Long JC, Wilder SP, Zweig AS, Karolchik D, Kuhn RM, Haussler D, Kent WJ|Nucleic Acids Res.|2013
			BLAT--the BLAST-like alignment tool.|Kent WJ., |Genome Res.|2002
			Exploring relationships and mining data with the UCSC Gene Sorter|Kent WJ, Hsu F, Karolchik D, Kuhn RM, Clawson H, Trumbower H, Haussler D|Genome Res.|2005
			The UCSC Genome Browser|Karolchik D, Hinrichs AS, Kent WJ|Curr Protoc Bioinformatics|2012
			Initial sequencing and analysis of the human genome|Lander ES., Linton LM., Birren B., Nusbaum C., Zody MC., Baldwin J., Devon K., Dewar K., Doyle M., FitzHugh W., Funke R. et al.|Nature|2001
			Assembly of the working draft of the human genome with GigAssembler.|Kent WJ., Haussler D., |Genome Res.|2001
			The UCSC Genome Browser database: 2016 update.|Speir ML,Zweig AS,Rosenbloom KR,Raney BJ,Paten B,Nejad P,Lee BT,Learned K,Karolchik D,Hinrichs AS,Heitner S,Harte RA,Haeussler M,Guruvadoo L,Fujita PA,Eisenhart C,Diekhans M,Clawson H,Casper J,Barber GP,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2015
			The UCSC Genome Browser database: 2015 update.|Rosenbloom KR,Armstrong J,Barber GP,Casper J,Clawson H,Diekhans M,Dreszer TR,Fujita PA,Guruvadoo L,Haeussler M,Harte RA,Heitner S,Hickey G,Hinrichs AS,Hubley R,Karolchik D,Learned K,Lee BT,Li CH,Miga KH,Nguyen N,Paten B,Raney BJ,Smit AF,Speir ML,Zweig AS,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2014
			The UCSC Genome Browser database: 2017 update.|Tyner C,Barber GP,Casper J,Clawson H,Diekhans M,Eisenhart C,Fischer CM,Gibson D,Gonzalez JN,Guruvadoo L,Haeussler M,Heitner S,Hinrichs AS,Karolchik D,Lee BT,Lee CM,Nejad P,Raney BJ,Rosenbloom KR,Speir ML,Villarreal C,Vivian J,Zweig AS,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2016
		After:
			 The UCSC Genome Browser database: extensions and updates 2013|Meyer LR, Zweig AS, Hinrichs AS, Karolchik D, Kuhn RM,  et al.|Nucleic Acids Res|2013
			The UCSC Table Browser data retrieval tool|Karolchik D., Hinrichs AS., Furey TS., Roskin KM., Sugnet CW., Haussler D., Kent WJ., |Nucleic Acids Res.|2004
			The human genome browser at UCSC|Kent WJ., Sugnet CW., Furey TS., Roskin KM., Pringle TH., Zahler AM., Haussler D., |Genome Res.|2002
			 ENCODE data in the UCSC Genome Browser: year 5 update|Rosenbloom KR, Sloan CA, Malladi VS, Dreszer TR, Learned K, Kirkup VM, Wong MC, Maddren M, Fang R, Heitner SG, Lee BT, Barber GP, Harte RA, Diekhans M, Long JC, Wilder SP, Zweig AS, Karolchik D, Kuhn RM, Haussler D, Kent WJ|Nucleic Acids Res.|2013
			BLAT--the BLAST-like alignment tool.|Kent WJ., |Genome Res.|2002
			Exploring relationships and mining data with the UCSC Gene Sorter|Kent WJ, Hsu F, Karolchik D, Kuhn RM, Clawson H, Trumbower H, Haussler D|Genome Res.|2005
			The UCSC Genome Browser|Karolchik D, Hinrichs AS, Kent WJ|Curr Protoc Bioinformatics|2012
			Initial sequencing and analysis of the human genome|Lander ES., Linton LM., Birren B., Nusbaum C., Zody MC., Baldwin J., Devon K., Dewar K., Doyle M., FitzHugh W., Funke R. et al.|Nature|2001
			Assembly of the working draft of the human genome with GigAssembler.|Kent WJ., Haussler D., |Genome Res.|2001
			The UCSC Genome Browser database: 2016 update.|Speir ML,Zweig AS,Rosenbloom KR,Raney BJ,Paten B,Nejad P,Lee BT,Learned K,Karolchik D,Hinrichs AS,Heitner S,Harte RA,Haeussler M,Guruvadoo L,Fujita PA,Eisenhart C,Diekhans M,Clawson H,Casper J,Barber GP,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2015
			The UCSC Genome Browser database: 2015 update.|Rosenbloom KR,Armstrong J,Barber GP,Casper J,Clawson H,Diekhans M,Dreszer TR,Fujita PA,Guruvadoo L,Haeussler M,Harte RA,Heitner S,Hickey G,Hinrichs AS,Hubley R,Karolchik D,Learned K,Lee BT,Li CH,Miga KH,Nguyen N,Paten B,Raney BJ,Smit AF,Speir ML,Zweig AS,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2014
			The UCSC Genome Browser database: 2017 update.|Tyner C,Barber GP,Casper J,Clawson H,Diekhans M,Eisenhart C,Fischer CM,Gibson D,Gonzalez JN,Guruvadoo L,Haeussler M,Heitner S,Hinrichs AS,Karolchik D,Lee BT,Lee CM,Nejad P,Raney BJ,Rosenbloom KR,Speir ML,Villarreal C,Vivian J,Zweig AS,Haussler D,Kuhn RM,Kent WJ|Nucleic Acids Res|2016
			UCSC Genome Browser enters 20th year.|Lee CM, Barber GP, Casper J, Clawson H, Diekhans M, Gonzalez JN, Hinrichs AS, Lee BT, Nassar LR, Powell CC, Raney BJ, Rosenbloom KR, Schmelter D, Speir ML, Zweig AS, Haussler D, Haeussler M, Kuhn RM, Kent WJ.|Nucleic Acids Res.|2020
		Added:
			UCSC Genome Browser enters 20th year.|Lee CM, Barber GP, Casper J, Clawson H, Diekhans M, Gonzalez JN, Hinrichs AS, Lee BT, Nassar LR, Powell CC, Raney BJ, Rosenbloom KR, Schmelter D, Speir ML, Zweig AS, Haussler D, Haeussler M, Kuhn RM, Kent WJ.|Nucleic Acids Res.|2020
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'BrianLee' at 18:42, 16 Apr 2020 (approved):

	'dataProcesses' has been modified:
		Before:
			daily data releases
			data QA
			versioning by genome assembly
			versioning by individual annotation
			access to historical files possible
			file download(tab-delimited,XML)
			Genome Browser
			Table Browser
			Gene Sorter
			REST API returning JSON data
		After:
			daily data releases
			data QA
			versioning by genome assembly
			versioning by individual annotation
			access to historical files possible
			file download(tab-delimited,XML)
			Genome Browser
			Table Browser
			Gene Sorter
			REST API returning JSON data
			Download Server
			MySQL data server
		Added:
			Download Server
			MySQL data server
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'BrianLee' at 18:40, 16 Apr 2020 (approved):

	'dataProcesses' has been modified:
		Before:
			daily data releases
			data QA
			versioning by genome assembly
			versioning by individual annotation
			access to historical files possible
			file download(tab-delimited,XML)
			Genome Browser
			Table Browser
			Gene Sorter
		After:
			daily data releases
			data QA
			versioning by genome assembly
			versioning by individual annotation
			access to historical files possible
			file download(tab-delimited,XML)
			Genome Browser
			Table Browser
			Gene Sorter
			REST API returning JSON data
		Added:
			REST API returning JSON data
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'BrianLee' at 18:36, 16 Apr 2020 (approved):

	'tools' has been modified:
		Before:
			Blat||http://genome.ucsc.edu/cgi-bin/hgBlat
			In Silico PCR||http://genome.ucsc.edu/cgi-bin/hgPcr
			Genome Graphs||http://genome.ucsc.edu/cgi-bin/hgGenome
			VisiGene||http://genome.ucsc.edu/cgi-bin/hgVisiGene
			liftOver||http://genome.ucsc.edu/cgi-bin/hgLiftOver
			Variant Annotation Integrator (VAI)||http://genome.ucsc.edu/cgi-bin/hgVai
			Data Integrator||http://genome.ucsc.edu/cgi-bin/hgIntegrator
			Genome Browser in a Box (virtual machine)||http://genome.ucsc.edu/goldenpath/help/gbib.html
		After:
			Blat||http://genome.ucsc.edu/cgi-bin/hgBlat
			In Silico PCR||http://genome.ucsc.edu/cgi-bin/hgPcr
			Genome Graphs||http://genome.ucsc.edu/cgi-bin/hgGenome
			VisiGene||http://genome.ucsc.edu/cgi-bin/hgVisiGene
			liftOver||http://genome.ucsc.edu/cgi-bin/hgLiftOver
			Variant Annotation Integrator (VAI)||http://genome.ucsc.edu/cgi-bin/hgVai
			Data Integrator||http://genome.ucsc.edu/cgi-bin/hgIntegrator
			Genome Browser in a Box (virtual machine)||http://genome.ucsc.edu/goldenpath/help/gbib.html
			Genome Browser in the Cloud (installation script)||http://genome.ucsc.edu/goldenpath/help/gbic.html
			REST API data interface||http://api.genome.ucsc.edu/
			Gene interactions and pathways from curated databases and text-mining ||http://genome.ucsc.edu/cgi-bin/hgGeneGraph
		Added:
			Genome Browser in the Cloud (installation script)||http://genome.ucsc.edu/goldenpath/help/gbic.html
			REST API data interface||http://api.genome.ucsc.edu/
			Gene interactions and pathways from curated databases and text-mining ||http://genome.ucsc.edu/cgi-bin/hgGeneGraph
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'BrianLee' at 18:25, 16 Apr 2020 (approved):

	'user_defined_tags' has been modified:
		Before:
			Uniqueness mapping
		After:
			COVID-19
			Uniqueness mapping
		Added:
			COVID-19
		Removed:

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

Edits to 'https://fairsharing.org/FAIRsharing.s22qdj' by 'The FAIRsharing Team' at 11:17, 21 Nov 2018 (approved):

	'domains' has been modified:
		Before:
			Annotation
			Biological regulation
			Comparative genomics
			DNA microarray
			DNA sequence data
			DNA structural variation To remove
			Deoxyribonucleic acid (DNA)
			Disease phenotype
			Gene
			Gene expression data
			Gene prediction
			Genetic polymorphism
			Genome
			Genotype
			Indel
			Life Science
			Messenger RNA (mRNA)
			Proteomics
			Regulation of gene expression
			Regulatory region
			Ribonucleic acid (RNA)
			Sequence
			Sequence alignment
			Sequence annotation
			Sequence composition, complexity and repeats
			Transcriptomics
			Uniqueness mapping
		After:
			Annotation
			Biological regulation
			Comparative genomics
			DNA microarray
			DNA sequence data
			DNA structural variation
			Deoxyribonucleic acid (DNA)
			Disease phenotype
			Gene
			Gene expression data
			Gene prediction
			Genetic polymorphism
			Genome
			Genotype
			Indel
			Life Science
			Messenger RNA (mRNA)
			Proteomics
			Regulation of gene expression
			Regulatory region
			Ribonucleic acid (RNA)
			Sequence
			Sequence alignment
			Sequence annotation
			Sequence composition, complexity and repeats
			Transcriptomics
			Uniqueness mapping
		Added:
			DNA structural variation
		Removed:
			DNA structural variation To remove

In Collections

Open Science Prize

COVID-19 Resources

RDA Covid-19 WG Resources

Support

General

FAQ	http://genome.ucsc.edu/FAQ/
contact form	http://genome.ucsc.edu/cgi-bin/hgUserSug ...
support email	genome@soe.ucsc.edu
forum	https://groups.google.com/a/soe.ucsc.edu ...
help	http://genome.ucsc.edu/goldenPath/help/h ...
online documentation	Youtube channel
training	http://genome.ucsc.edu/training.html
twitter	@GenomeBrowser
wikipedia	https://en.wikipedia.org/wiki/UCSC_Genom ...

Additional Information

Contact

Brian Lee

Tools

Blat	http://genome.ucsc.edu/cgi-bin/hgBlat
In Silico PCR	http://genome.ucsc.edu/cgi-bin/hgPcr
Genome Graphs	http://genome.ucsc.edu/cgi-bin/hgGenome
VisiGene	http://genome.ucsc.edu/cgi-bin/hgVisiGene
liftOver	http://genome.ucsc.edu/cgi-bin/hgLiftOver
Variant Annotation Integrator (VAI)	http://genome.ucsc.edu/cgi-bin/hgVai
Data Integrator	http://genome.ucsc.edu/cgi-bin/hgIntegrator
Genome Browser in a Box (virtual machine)	http://genome.ucsc.edu/goldenpath/help/gbib.html
Genome Browser in the Cloud (installation script)	http://genome.ucsc.edu/goldenpath/help/gbic.html
REST API data interface	http://api.genome.ucsc.edu/
Gene interactions and pathways from curated databases and text-mining	http://genome.ucsc.edu/cgi-bin/hgGeneGraph
UShER: Ultrafast Sample placement on Existing tRee	http://genome.ucsc.edu/cgi-bin/hgPhyloPlace
UCSC Cell Browser	https://cells.ucsc.edu/

Access / Retrieve Data

Conditions of Use

Applies to: General

UCSC Genome Browser Code - License required for commercial use

Data Versioning

versioning by genome assembly	No link recorded
versioning by individual annotation	No link recorded
access to historical files possible	No link recorded

Data Release

daily data releases

No link recorded

Data Curation

data QA

No link recorded

Data Access

file download(tab-delimited,XML)	No link recorded
Genome Browser	http://genome.ucsc.edu/
Table Browser	http://genome.ucsc.edu/cgi-bin/hgTables
Gene Sorter	http://genome.ucsc.edu/cgi-bin/hgNear
REST API returning JSON data	http://api.genome.ucsc.edu/
Download Server	http://hgdownload.soe.ucsc.edu/downloads.html
MySQL data server	https://genome.ucsc.edu/goldenPath/help/mysql.html
COVID-19 Research at UCSC Updated: May 11, 2021	http://genome.ucsc.edu/covid19.html
Single cell resources at UCSC	http://genome.ucsc.edu/singlecell.html

Publications

The UCSC Genome Browser database: extensions and updates 2013

Meyer LR, Zweig AS, Hinrichs AS, Karolchik D, Kuhn RM, et al.
Nucleic Acids Res 2013

View Paper (PubMed) View Publication

The UCSC Table Browser data retrieval tool

Karolchik D., Hinrichs AS., Furey TS., Roskin KM., Sugnet CW., Haussler D., Kent WJ.,
Nucleic Acids Res. 2004

View Paper (PubMed) View Publication

The human genome browser at UCSC

Kent WJ., Sugnet CW., Furey TS., Roskin KM., Pringle TH., Zahler AM., Haussler D.,
Genome Res. 2002

View Paper (PubMed) View Publication

ENCODE data in the UCSC Genome Browser: year 5 update

Rosenbloom KR, Sloan CA, Malladi VS, Dreszer TR, Learned K, Kirkup VM, Wong MC, Maddren M, Fang R, Heitner SG, Lee BT, Barber GP, Harte RA, Diekhans M, Long JC, Wilder SP, Zweig AS, Karolchik D, Kuhn RM, Haussler D, Kent WJ
Nucleic Acids Res. 2013

View Paper (PubMed) View Publication

BLAT--the BLAST-like alignment tool.

Kent WJ.,
Genome Res. 2002

View Paper (PubMed) View Publication

Exploring relationships and mining data with the UCSC Gene Sorter

Kent WJ, Hsu F, Karolchik D, Kuhn RM, Clawson H, Trumbower H, Haussler D
Genome Res. 2005

View Paper (PubMed) View Publication

The UCSC Genome Browser

Karolchik D, Hinrichs AS, Kent WJ
Curr Protoc Bioinformatics 2012

View Paper (PubMed) View Publication

Initial sequencing and analysis of the human genome

Lander ES., Linton LM., Birren B., Nusbaum C., Zody MC., Baldwin J., Devon K., Dewar K., Doyle M., FitzHugh W., Funke R. et al.
Nature 2001

View Paper (PubMed) View Publication

Assembly of the working draft of the human genome with GigAssembler.

Kent WJ., Haussler D.,
Genome Res. 2001

View Paper (PubMed) View Publication

The UCSC Genome Browser database: 2016 update.

Speir ML,Zweig AS,Rosenbloom KR,Raney BJ,Paten B,Nejad P,Lee BT,Learned K,Karolchik D,Hinrichs AS,Heitner S,Harte RA,Haeussler M,Guruvadoo L,Fujita PA,Eisenhart C,Diekhans M,Clawson H,Casper J,Barber GP,Haussler D,Kuhn RM,Kent WJ
Nucleic Acids Res 2015

View Paper (PubMed) View Publication

The UCSC Genome Browser database: 2015 update.

Rosenbloom KR et al.
Nucleic Acids Res 2014

View Paper (PubMed) View Publication

The UCSC Genome Browser database: 2017 update.

Tyner C, et al.
Nucleic Acids Res 2016

View Paper (PubMed) View Publication

UCSC Genome Browser enters 20th year.

Lee CM, Barber GP, Casper J, Clawson H, Diekhans M, Gonzalez JN, Hinrichs AS, Lee BT, Nassar LR, Powell CC, Raney BJ, Rosenbloom KR, Schmelter D, Speir ML, Zweig AS, Haussler D, Haeussler M, Kuhn RM, Kent WJ.
Nucleic Acids Res. 2020

View Paper (PubMed)

The UCSC Genome Browser database: 2019 update

Haeussler M, Zweig AS, Tyner C, Speir ML, Rosenbloom KR, Raney BJ, Lee CM, Lee BT, Hinrichs AS, Gonzalez JN, Gibson D, Diekhans M, Clawson H, Casper J, Barber GP, Haussler D, Kuhn RM, Kent WJ.
Nucleic Acids Res. 2019

View Paper (PubMed)

The UCSC Genome Browser database: 2018 update.

Casper J, et al.
Nucleic Acids Res. 2018

View Paper (PubMed) View Publication

The UCSC Genome Browser database: 2021 update.

Navarro Gonzalez J,Zweig AS,Speir ML,Schmelter D,Rosenbloom KR,Raney BJ,Powell CC,Nassar LR,Maulding ND,Lee CM,Lee BT,Hinrichs AS,Fyfe AC,Fernandes JD,Diekhans M,Clawson H,Casper J,Benet-Pages A,Barber GP,Haussler D,Kuhn RM,Haeussler M,Kent WJ
Nucleic Acids Res 2020

View Paper (PubMed) View Publication

The UCSC SARS-CoV-2 Genome Browser.

Fernandes JD,Hinrichs AS,Clawson H,Gonzalez JN,Lee BT,Nassar LR,Raney BJ,Rosenbloom KR,Nerli S,Rao AA,Schmelter D,Fyfe A,Maulding N,Zweig AS,Lowe TM,Ares M Jr,Corbet-Detig R,Kent WJ,Haussler D,Haeussler M
Nat Genet 2020

View Paper (PubMed) View Publication

The UCSC repeat browser allows discovery and visualization of evolutionary conflict across repeat families.

Fernandes JD,Zamudio-Hurtado A,Clawson H,Kent WJ,Haussler D,Salama SR,Haeussler M
Mob DNA 2020

View Paper (PubMed) View Publication

Ultrafast Sample Placement on Existing Trees (UShER) Empowers Real-Time Phylogenetics for the SARS-CoV-2 Pandemic.

Turakhia Y,Thornlow B,Hinrichs AS,De Maio N,Gozashti L,Lanfear R,Haussler D,Corbett-Detig R
bioRxiv 2020

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

No semantic standards defined

Models and Formats

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by BrianLee ORCID

Funds

National Human Genome Research Institute (NHGRI), Bethesda, MD, USA (Government body)

Maintains

Genomics Institute, University of California, Santa Cruz, CA, USA (University)

UCSC Genome Browser database

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