Illumina Human Methylation 450k annotation data


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Documentation for package ‘IlluminaHumanMethylation450k.db’ version 1.4.6

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IlluminaHumanMethylation450k Bioconductor annotation data package
IlluminaHumanMethylation450k.db Bioconductor annotation data package
IlluminaHumanMethylation450kACCNUM Map Manufacturer identifiers to Accession Numbers
IlluminaHumanMethylation450kALIAS2PROBE Map between Common Gene Symbol Identifiers and Manufacturer Identifiers
IlluminaHumanMethylation450kBLAME Who checked the latest build of these annotations into version control?
IlluminaHumanMethylation450kBUILD Divulge the GoldenPath genome build ID for these annotations.
IlluminaHumanMethylation450kCHR Map Manufacturer IDs to Chromosomes
IlluminaHumanMethylation450kCHR36 Chromosome annotations against genome build 36
IlluminaHumanMethylation450kCHR37 Chromosome annotations against genome build 37
IlluminaHumanMethylation450kCHRLENGTHS A named vector for the length of each of the chromosomes
IlluminaHumanMethylation450kCHRLOC Map Manufacturer IDs to Chromosomal Location
IlluminaHumanMethylation450kCHRLOCEND Map Manufacturer IDs to Chromosomal Location
IlluminaHumanMethylation450kCOLORCHANNEL Color Channel for locus assay
IlluminaHumanMethylation450kCPG36 CpG location annotations against genome build 36
IlluminaHumanMethylation450kCPG37 CpG location annotations against genome build 37
IlluminaHumanMethylation450kCPGCOORDINATE Map Manufacturer IDs to genomic coordinate
IlluminaHumanMethylation450kCPGILOCATION Map Illumina probeIDs to the the nearest UCSC CpG island, if any
IlluminaHumanMethylation450kCPGINAME Map Illumina probeIDs to the the nearest UCSC CpG island, if any
IlluminaHumanMethylation450kCPGIRELATION Map Illumina probeIDs to the the nearest UCSC CpG island, if any
IlluminaHumanMethylation450kCPGS Number of CpG dinucleotides in target genomic sequence
IlluminaHumanMethylation450kDESIGN Probe design type for HumanMethylation450k arrays
IlluminaHumanMethylation450kDHS Is the probe targeted at a DNAse hypersensitive site in the genome?
IlluminaHumanMethylation450kDMR Is the probe targeted at a differentially methylated region? What sort?
IlluminaHumanMethylation450kENHANCER Is the probe associated with an enhancer binding site?
IlluminaHumanMethylation450kENSEMBL Map Ensembl gene accession numbers with Entrez Gene identifiers
IlluminaHumanMethylation450kENSEMBL2PROBE Map Ensembl gene accession numbers with Entrez Gene identifiers
IlluminaHumanMethylation450kENTREZID Map between Manufacturer Identifiers and Entrez Gene
IlluminaHumanMethylation450kENZYME Map between Manufacturer IDs and Enzyme Commission (EC) Numbers
IlluminaHumanMethylation450kENZYME2PROBE Map between Enzyme Commission Numbers and Manufacturer Identifiers
IlluminaHumanMethylation450kFANTOM Is the probe associated with an enhancer binding site?
IlluminaHumanMethylation450kGENEBODY Determine whether a probe maps into a gene body
IlluminaHumanMethylation450kGENENAME Map between Manufacturer IDs and Genes
IlluminaHumanMethylation450kGO Map between Manufacturer IDs and Gene Ontology (GO)
IlluminaHumanMethylation450kGO2ALLPROBES Map between Gene Ontology (GO) Identifiers and all Manufacturer Identifiers in the subtree
IlluminaHumanMethylation450kGO2PROBE Map between Gene Ontology (GO) and Manufacturer Identifiers
IlluminaHumanMethylation450kISCPGISLAND Determine whether a probe is within a CpG island
IlluminaHumanMethylation450kLOCUSID Map between Manufacturer Identifiers and Entrez Gene
IlluminaHumanMethylation450kMAP Map between Manufacturer Identifiers and cytogenetic maps/bands
IlluminaHumanMethylation450kMAPCOUNTS Number of mapped keys for the maps in package IlluminaHumanMethylation450k.db
IlluminaHumanMethylation450kMETHYL27 Determine whether a probe is also found on the 27k chip
IlluminaHumanMethylation450kNUID Map Illumina probe IDs to the NuID representation of the target sequence
IlluminaHumanMethylation450kOMIM Map between Manufacturer Identifiers and Mendelian Inheritance in Man (MIM) identifiers
IlluminaHumanMethylation450kORGANISM The Organism information for IlluminaHumanMethylation450k
IlluminaHumanMethylation450kORGPKG The Organism information for IlluminaHumanMethylation450k
IlluminaHumanMethylation450kPATH Mappings between probe identifiers and KEGG pathway identifiers
IlluminaHumanMethylation450kPATH2PROBE Map between Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway identifiers and Manufacturer Identifiers
IlluminaHumanMethylation450kPFAM Map Manufacturer IDs to Pfam IDs
IlluminaHumanMethylation450kPMID Map between Manufacturer Identifiers and PubMed Identifiers
IlluminaHumanMethylation450kPMID2PROBE Map between PubMed Identifiers and Manufacturer Identifiers
IlluminaHumanMethylation450kPROBELOCATION Map Illumina probe IDs to the location of the target sequence
IlluminaHumanMethylation450kPROSITE Map Manufacturer IDs to PROSITE ID
IlluminaHumanMethylation450kRANDOM Determine whether a probe was randomly selected in the design phase.
IlluminaHumanMethylation450kREFSEQ Map between Manufacturer Identifiers and RefSeq Identifiers
IlluminaHumanMethylation450kREGULATORYGROUP Map Illumina probeIDs to the the nearest UCSC regulatory feature, if any
IlluminaHumanMethylation450kREGULATORYLOCATION Map Illumina probeIDs to the the nearest UCSC regulatory feature, if any
IlluminaHumanMethylation450kREGULATORYNAME Map Illumina probeIDs to the the nearest UCSC regulatory feature, if any
IlluminaHumanMethylation450kSVNID What is the in-house Subversion ID of this annotation package?
IlluminaHumanMethylation450kSYMBOL Map between Manufacturer Identifiers and Gene Symbols
IlluminaHumanMethylation450kUNIGENE Map between Manufacturer Identifiers and UniGene cluster identifiers
IlluminaHumanMethylation450kUNIPROT Map Uniprot accession numbers with Entrez Gene identifiers
IlluminaHumanMethylation450kUNIPROT2PROBE Map Uniprot accession numbers with Entrez Gene identifiers
IlluminaHumanMethylation450k_dbconn Collect information about the package annotation DB
IlluminaHumanMethylation450k_dbfile Collect information about the package annotation DB
IlluminaHumanMethylation450k_dbInfo Collect information about the package annotation DB
IlluminaHumanMethylation450k_dbschema Collect information about the package annotation DB
IlluminaHumanMethylation450k_get27k Retrieve 27k probe IDs by design and/or color channel for processing
IlluminaHumanMethylation450k_getControls Retrieve control probe addresses, optionally by control probe type
IlluminaHumanMethylation450k_getProbeOrdering Retrieve probe IDs in the order loaded from the manifest
IlluminaHumanMethylation450k_getProbes Retrieve probe addresses by design and/or color channel for processing