# Illumina Human Methylation 450k annotation data

## Documentation for package ‘IlluminaHumanMethylation450k.db’ version 1.4.6

- DESCRIPTION file.
- Overview of user guides and package vignettes; browse directory.

## Help Pages

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