lumiRatAllUNIPROT
(Package: lumiRatAll.db) :
Map Uniprot accession numbers with Entrez Gene identifiers
lumiRatAllUNIPROT is an R object that contains mappings between the manufacturer identifiers and Uniprot accession numbers.
● Data Source:
BioConductor
● Keywords: datasets
● Alias: lumiRatAllUNIPROT, lumiRatAllUNIPROT2PROBE
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lumiRatAll_dbconn
(Package: lumiRatAll.db) :
Collect information about the package annotation DB
Some convenience functions for getting a connection object to (or collecting information about) the package annotation DB.
● Data Source:
BioConductor
● Keywords: datasets, utilities
● Alias: lumiRatAll_dbInfo, lumiRatAll_dbconn, lumiRatAll_dbfile, lumiRatAll_dbschema
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lumiRatIDMapping
(Package: lumiRatIDMapping) :
Illumina ID Mapping information of all Rat expression chips
Welcome to the lumiRatIDMapping ID mapping Package. The purpose of this package is to provide ID mappings between different types of Illumina identifiers of Rat Expression chips and nuIDs, and also mappings from nuIDs to the the most recent Rattus norvegicus RefSeq release and Entez_Gene_ID. The library includes the data tables corresponding to all released Illumian Rat Expression chips before the package releasing date. Each table includes columns "Search_key" ("Search_Key"), "Target" ("ILMN_Gene"), "Accession", "Symbol", "ProbeId" ("Probe_Id") and "nuID". It also includes a nuID_MappingInfo table, which keeps the mapping information of nuID to Accession ID, Entrez_Gene_ID and Symbol. For the version after 1.8.0, all mapping information was based on Illumina manifest files. Information from new versions of manifest files will replace the old ones with the same probe id. The package is supposed to be used together with the Bioconductor lumi package.
● Data Source:
BioConductor
● Keywords: datasets
● Alias: lumiRatIDMapping
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Some convenience functions for getting a connection object to (or collecting information about) the package annotation DB.
● Data Source:
BioConductor
● Keywords: datasets, utilities
● Alias: lumiRatIDMapping_dbInfo, lumiRatIDMapping_dbconn, lumiRatIDMapping_dbfile
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lumiRatIDMapping_nuID
(Package: lumiRatIDMapping) :
Mapping nuIDs of Illumina Rat chips to the most recent Rattus norvegicus RefSeq release
We mapped nuIDs of Illumina Rat chips by BLASTing each probe sequence (converted from nuID) against the the most recent Rattus norvegicus RefSeq release. The mapping also includes the mapping quality information.
● Data Source:
BioConductor
● Keywords: datasets, utilities
● Alias: lumiRatIDMapping_nuID
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example.lumi
(Package: lumi) :
Example Illumina Expression data in LumiBatch class
Example data as a LumiBatch object which is a subset of Barnes data (Barnes, 2005)
● Data Source:
BioConductor
● Keywords: datasets
● Alias: example.lumi
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example.lumiMethy
(Package: lumi) :
Example Illumina Infinium Methylation data in MethyLumiM class
An example Illumina Infinium Methylation27k dataset, which includes a control and treatment dataset with both technique and biological replicates
● Data Source:
BioConductor
● Keywords: datasets
● Alias: example.lumiMethy
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example.methyTitration
(Package: lumi) :
Example Illumina Infinium Methylation titration data in MethyLumiM class
An example Illumina Infinium Methylation27k dataset, which includes a titration dataset
● Data Source:
BioConductor
● Keywords: datasets
● Alias: example.methyTitration
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harvard
(Package: lungExpression) :
A Harvard study on lung cancer gene expression
A Harvard study on lung cancer gene expression. Data is represented as an ExpressionSet.
● Data Source:
BioConductor
● Keywords: datasets
● Alias: harvard
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michigan
(Package: lungExpression) :
A Michigan study on lung cancer gene expression
A Michigan study on lung cancer gene expression. Data is represented as an ExpressionSet.
● Data Source:
BioConductor
● Keywords: datasets
● Alias: michigan
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