LOCUSID	LocusLink identifier	"This is an R environment object containing key and value pairs for the mappings between  probe identifiers (key) and LocusLink ids (values). Keys can be accessed using ls(name) and values using get(key, name) multiget(keys, name). Values may be vectors of length 1 or greater depending on whether a given probe identifier can be mapped to only one or more LocusLink ids. NA is assigned to probe identifiers that can not be mapped to a LocusLink id at this time. "	LL	Y
CURRENTLOCUSID	Previous LocusLink id if merged	This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and current locus ids (values). Keys can be accessed using R ls and values using get or multiget command. Values may be vectors of length 1 or greater depending on whether a given probe identifier can be mapped to only one or more current locus ids. NA is assigned to probe identifiers that can not be mapped to a current locus id at this time. 	LL	Y
LOCUSTYPE	Type of locus	This is an R environment object containing key and value pairs for the mappings between  probe identifiers (key) and  locus type (values). Keys can be accessed using R ls and values using get or multiget command. Values may be vectors of length 1 or greater depending on whether a given probe identifier can be mapped to only one or more locus type. NA is assigned to probe identifiers that can not be mapped to a locus type at this time. 	LL	Y
NG	RefSeq accession for genomic region records	This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and the RefSeq accession for genomic region (nucleotide) records (value). Keys can be accessed using ls and values using get or multiget. Values may be vectors of length 1 or greater depending on whether a given probe id can be mapped to only one or more RefSeq accession for genomic region records. NA is used for probe ids that can not be mapped to a RefSeq accession for genomic region records at this time. 	LL	Y
NM	RefSeq accession for a mRNA record	This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and the RefSeq accession for a mRNA record (value). Keys can be accessed using ls and values using get or multiget. Values may be vectors of length 1 or greater depending on whether a given probe id can be mapped to only one or more RefSeq accession for a mRNA record. NA is used for probe ids that can not be mapped to a RefSeq accession for a mRNA record at this time. 	LL	Y
NC	Accession for chromosome RefSeq records	This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and the accession for chromosome RefSeq records (value). Keys can be accessed using ls and values using get or multiget. Values may be vectors of length 1 or greater depending on whether a given probe id can be mapped to only one or more accession for chromosome RefSeq records. NA is used for probe ids that can not be mapped to an accession for chromosome RefSeq records at this time. 	LL	Y
NP	RefSeq accession for a protein record	This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and the RefSeq accession for a protein record (value). Keys can be accessed using ls and values using get or multiget. Values may be vectors of length 1 or greater depending on whether a given probe id can be mapped to only one or more RefSeq accessions for a protein record. NA is used for probe ids that can not be mapped to a RefSeq accession for a protein record at this time. 	LL	Y
PRODUCT	Name of the product of transcript.	This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and the name of the product of transcript of the underlying gene (value). Keys can be accessed using ls and values using get or multiget. Values may be vectors of length 1 or greater depending on whether a given probe id can be mapped to only one or more products. NA is used for probe ids that can not be mapped to a product at this time. 	LL	Y
ACCNUM	GenBank accession number	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and GenBank accession numbers (value). Keys can be accessed using ls(name) and values using get(key, name) or multiget (keys, name). Values are vectors of length 1. NA is assigned to probe identifiers that can not be mapped to a GenBank accession number. Mappings between probe ids and GenBank accession numbers are assumed to be provided by users. "	LL	Y
SYMBOL	Symbol used for gene reports	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and gene symbols (value), which are symbols used to report genes. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. NA is assigned to probe identifiers that can not be mapped to any gene symbol at this time. "	LL	Y
GENENAME	Gene Description used for gene reports	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and gene names (value), which are  descriptions used for gene reports. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of  length 1. NA is assigned to probe identifiers that can not be mapped to any gene name at this time. "	LL	Y
SUMMARY	A summary description of the gene	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and gene summaries (value), which are descriptions of genes, their products, significances, and mutant phenotypes. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. NA is assigned to probe identifiers that can not be mapped to any summary at this time. "	LL	Y
UNIGENE	UniGene cluster identifier associated with a gene	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and UniGene cluster ids (value). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name) . Values may be vectors of length 1 or greater depending on whether a given probe identifier can be mapped to only one or more UniGene cluster ids. NA is assigned to probe identifiers that can not be mapped to any UniGene cluster id at this time. Mappings are obtained using data from LocusLink (www.ncbi.nlm.nih.gov/LocusLink) based on unified mappings between probe identifiers and LocusLink ids."	LL	Y
CHR	Chromosome assignment	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and the chromosome the corresponding genes reside (value). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. NA is assigned to probe identifiers that can not be mapped to any chromosome at this time. "	LL	Y
MAP	Cytoband location of gene 	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and cytoband locations (value). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. NA is assigned to probe identifiers that can not be mapped to any cytoband at this time. "	LL	Y
PMID	PubMed unique identifier	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and PubMed ids (value), which are subsets of publications associated with the underlying genes. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values may be vectors of length 1 or greater depending on whether a given probe identifier can be mapped to only one or more publications. NA is assigned to probe identifiers that can not be mapped to any publication at this time. "	LL	Y
GRIF	PubMed unique identifier	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and unique PubMed ids (value). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. NA is assigned to probe identifiers that can not be mapped to any unique PubMed id. "	LL	Y
SUMFUNC	A brief summary of the function of the products of a gene	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and summaries of the function (value), which are brief descriptions of the function of the products of genes. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. NA is assigned to probe identifiers that can not be mapped to any summary of function at this time.  "	LL	Y
GO	Gene Ontology identifier	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and Gene Ontology identifiers (value) defined by Gene Ontology consortium. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are named vectors of length 1 or greater depending on whether a given probe identifier can be mapped to only one or more Gene Ontology ids. Names for values are the evidence codes for the GO ids. Descriptions for evidence codes are provided by Gene Ontology Consortium (\url{http://www.geneontology.org/doc/GO.evidence.html}). NA is assigned to probe identifiers that can not be mapped to any Gene Ontology id at this time. Mappings between Gene Ontology ids an Gene Ontology terms and other information are available in a separate data package named GO. "	LL	Y
OMIM	MIM (Mendelian Inheritance in Man) number	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and MIM (Mendelian Inheritance in Man) number . Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1 or greater depending on whether a given probe identifier can be mapped to only one or MIM numbers. NA is assigned to probe identifiers that can not be mapped to any MIM number at this time. Mappings between probe ids and MIM numbers are obtained from NCBI."	LL	Y
NM	NM (RefSeq accession for mRNA) id	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and NM (RefSeq accession for mRNA) ids. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. NA is assigned to probe identifiers that can not be mapped to any NM id at this time. Mappings between probe ids and NM numbers are obtained from NCBI."	LL	Y
NP	NM (RefSeq accession for protein) id	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and NP (RefSeq accession for protein) ids. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. NA is assigned to probe identifiers that can not be mapped to any NP id at this time. Mappings between probe ids and NP ids are obtained from NCBI."	LL	Y
CHRLOC	Chromosomal location 	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and transcription strating  positions of genes on chromosomes (value). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are named vectors of length 1 or more depending on whether a given probe id can be mapped to a single or multiple chromosomes. The names give the chromosome number of concern. NA is assigned to probe identifiers that can not be mapped to any chromosomal location data at this time. When a gene can not be placed on a chromosome with confidence, ""random"" is appended to the end of the name for a chromosomal location value. Mappings were obtained using refLint.txt.gz and refGene.txt.gz file from Golden Path (\\url{http://www.genome.ucsc.edu/goldenPath/}) from the latest release."	GP	Y
CHRORI	Chromosomal orientation	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and chromosomal orientation of genes (value). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are named vectors of length 1 or more depending on whether a given probe id can be mapped to a single or multiple chromosomes. The names give the chromosome number of concern. NA is assigned to probe identifiers that can not be mapped to any chromosomal orientation data at this time. Mappings are obtained using data from LocusLink (www.ncbi.nlm.nih.gov/LocusLink) and Human Genome Project (http://genome.cse.ucsc.edu/goldenPath) based on unified mappings between probe identifiers and LocusLink ids and LocusLink ids and gene locations.  "	GP	Y
PATH	KEGG pathway identifier	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and pathway identifiers defined by KEGG (value). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values may be vectors of length 1 or greater depending on whether a given probe identifier can be associated with only one or more pathways. NA is assigned to probe identifiers that can not be  associated with any pathway at this time. Mappings between pathway ids to pathway names can be found in a separate data package named KEGG. "	KEGG	Y
ENZYME	Enzyme commission number	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and Enzyme Commission numbers (value) with the leading EC: portion omitted. Keys can be accessed using ls(name) and values using get(key, name)"	KEGG	Y
BPPARENTS	GO ids of the immediate parents under biological process	"This is an R environment object containing key and value pairs for the mappings between GO ids and the GO ids of the direct parents under biological process(BP). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are named vectors of length 1 or greater depending on whether a given GO id has only one or more parents. The name(s) of value(s) is(are) the association code (isa or partof) between the GO id and its direct parents. Biological process is defined as the broad biological goals, such as mitosis or purine metabolism, that are accomplished by ordered assemblies of molecular functions as defined by Gene Ontology Consortium.  "	GO	N
CCPARENTS	GO ids of the immediate parents under cellular component	"This is an R environment object containing key and value pairs for the mappings between GO ids and the GO ids of the direct parents under cellular component(CC). Keys can be accessed using ls(name) and values using get or multiget(keys, name). Values are named vectors of length 1 or greater depending on whether a given GO id has only one or more direct parents. The name(s) of value(s) is(are) the association code (isa or partof) between the GO id and its direct parents. Cellular component is defined as the subcellular structures, locations, and macromolecular complexes; examples include nucleus, telomere, and origin recognition complex as defined by Gene Ontology Consortium. "	GO	N
MFPARENTS	GO ids of the immediate parents under molecular function	"This is an R environment object containing key and value pairs for the mappings between GO ids and GO ids of the direct parents under molecular function(MF). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are named vectors of length 1 or greater depending on whether a given GO id has only one or more direct parents. The name(s) of value(s) is(are) the association code (isa or partof) between the GO id and its direct parents. Molecular function is defined as the tasks performed by individual gene products; examples are transcription factor and DNA helicase as defined by Gene Ontology Consortium. "	GO	N
BPCHILDREN	GO ids of the immediate children under biological process	"This is an R environment object containing key and value pairs for the mappings between GO ids and the GO ids of the direct children under biological process(BP). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values may be vectors of length 1 or greater depending on whether a given GO id has only one or more children. Biological process is defined as the broad biological goals, such as mitosis or purine metabolism, that are accomplished by ordered assemblies of molecular functions as defined by Gene Ontology Consortium. "	GO	N
CCCHILDREN	GO ids of the immediate children under cellular component	"This is an R environment object containing key and value pairs for the mappings between GO ids and the GO ids of the direct children under cellular component(CC). Keys can be accessed using ls(name) and values using get or multiget(keys, name). Values may be vectors of length 1 or greater depending on whether a given GO id has only one or more direct children. Cellular component is defined as the subcellular structures, locations, and macromolecular complexes; examples include nucleus, telomere, and origin recognition complex as defined by Gene Ontology Consortium. "	GO	N
MFCHILDREN	GO ids of the immediate children under molecular function	"This is an R environment object containing key and value pairs for the mappings between GO ids and the GO ids of the direct children under cellular component(CC). Keys can be accessed using ls(name) and values using get or multiget(keys, name). Values may be vectors of length 1 or greater depending on whether a given GO id has only one or more direct children. Cellular component is defined as the subcellular structures, locations, and macromolecular complexes; examples include nucleus, telomere, and origin recognition complex as defined by Gene Ontology Consortium. "	GO	N
CATEGORY	"The category (MF, BP, CC) a GO id belongs to"	"This is an R environment object containing key and value pairs for the mappings between GO ids and the one of the three ontology categories defined by Gene Ontology Consortium namely molecular function (MF), biological process(BP), and cellular component(CC). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1 that can be GO (gene ontology top level), MF, BP, or CC. "	GO	N
PATH2PROBE	Mappings between KEGG pathway id and probe id	"This is an R environment object containing key and value pairs for the mappings between KEGG pathway ids and probe identifiers. Keys can be accessed using ls(name) and values using get(keys, name) or multiget(key, name). Values may be vectors of length 1 or greater depending on whether a given pathway id can be mapped to only one or more probe identifiers. Pathway ids can not be mapped to an probe identifier are assigned a value NA. "	KEGG	N
ENZYME2PROBE	Mappings between Enzyme Commission number and probe id.	"This is an R environment object containing key and value pairs for the mappings between Enzyme Commission numbers (key) and probe identifiers (value). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values may be vectors of length 1 or greater depending on whether a given Enzyme Commission number can be mapped to only one or more probe identifiers. Enzyme Commission numbers can not be mapped any an probe identifier are assigned a value NA. GO terms corresponding to a given Enzyme Commission number can be obtained by looking into a data file (KEGGENZYMEID2GO) in data package KEGG. "	KEGG	N
PMID2PROBE	Mappings between PubMed id and probe id	"This is an R environment object containing key and value pairs for the mappings between PubMed ids (key) and probe identifiers (value). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values may be vectors of length 1 or greater depending on whether a given PubMed id can be mapped to only one or more probe identifiers. PubMed ids can not be mapped to any probe identifier are assigned a value NA. "	LL	N
ONTOLOGY	Ontology term defined by Gene Ontology Consortium	"This is an R environment object containing key and value pairs for the mappings between GO ids(key) and GO ontology terms (value). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1.  "	GO	Y
PROBECOUNTS	Counts of probes	"This is an R environment object containing key and value pairs for the mappings between GO ids (key) and counts of probe identifiers (value) that are associated with the GO id and its direct children. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. GO ids that do not have any count is assigned a value NA. "	LL	N
GO2PROBE	Mappings between GO id and probe id	"This is an R environment object containing key and value pairs for the mappings between Gene Ontology ids (key) and probe identifiers (value), which are the probe identifiers that are associated with the corresponding GO id directly or indirectly through the children of the GO id. Values may be vectors of length 1 or greater depending on whether a given GO id can be mapped to only one or more probe identifiers. GO ids can not be mapped to any probe identifier is assigned a value of NA. Mappings between Gene Ontology ids an Gene Ontology terms and other information are available in a separate data package named GO. "	LL	N
GO2ALLPROBES	Mappings between GO id and probe id belonging to a GO id and its parents	"This is an R environment object containing key and value pairs for the mappings between Gene Ontology ids (key) and probe identifiers (value) associated with a given GO id and all the offspring of that GO id. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values may be vectors of length 1 or greater depending on whether a given GO id can be mapped to only one or more probe identifiers. GO ids can not be mapped to any probe identifier is assigned a value of NA. Mappings between Gene Ontology ids an Gene Ontology terms and other information are available in a separate data package named GO. "	LL	N
PATHID2NAME	Mappings between KEGG pathway id and pathway name	"This is an R environment object containing key and value pairs for the mappings between KEGG pathway ids and pathway names. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1.  Data contained here are intended to allow users to map probe ids found in other Bioconductor data packages to pathway names using pathway ids as the linkages. "	KEGG	N
ENZYMEID2NAME	Mappings between Enzyme Commission number and enzyme name	"This is an R environment object containing key and value pairs for the mappings between Enzyme Commission number and Enzyme names. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1.  Data contained here are intended to allow users to map probe ids found in other Bioconductor data packages to enzyme names using Enzyme Commission numbers as the linkages."	KEGG	N
PATHNAME2ID	Mappings between KEGG pathway name to pathway id	"This is an R environment object containing key and value pairs for the mappings between KEGG pathway names and pathway ids. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1.  Data contained here are intended to allow users to map probe ids found in other Bioconductor data packages to pathway names using pathway ids as the linkages."	KEGG	N
ENZYMEID2GO	Mappings between Enzyme Commission id and GO id	"This is an R environment object containing key and value pairs for the mappings between Enzyme Commission numbers and Gene Ontology terms. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. Enzyme Commission numbers that can not be mapped to a GO term are assigned a value NA.  Data contained here are intended to allow users to map probe ids found in other Bioconductor data packages to GO term using Enzyme Commission numbers as the linkages."	KEGG	N
GO2ENZYMEID	Mappings between GO id and Enzyme Commission id	"This is an R environment object containing key and value pairs for the mappings between Gene Ontology terms and Enzyme Commission numbers. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. GO terms can not be mapped to an probe identifier are assigned a value NA.  Data contained here are intended to allow users to map probe ids found in other Bioconductor data packages to Enzyme Commission numbers using GO terms as the linkages or vice versa."	KEGG	N
GO2EVIDENCE	Mappings between GO id and evidence code provided by LocusLink	"This is an R environment object containing key and value pairs for the mappings between GO ids and evidence codes provided by LocusLink. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1 or more depending on whether one or more evidence codes are provided to  given GO id. GO ids with no evidence code provided are assigned a value NA. "	LL	N
BPID2TERM	Mappings between GO id and GO term under biological process	"This is an R environment object containing key and values pairs for the mappings between Gene Ontology ids and the corresponding GO terms under biological process defined by Gene Ontology Consortium. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. Data contained here are intended to allow users to map probe ids found in other Bioconductor data packages to GO terms using GO ids as the linkages."	GO	N
CCID2TERM	Mappings between GO id and GO term under cellular component	"This is an R environment object containing key and values pairs for the mappings between GO ids and the corresponding GO terms under cellular component defined by Gene Ontology Consortium. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. Data contained here are intended to allow users to map probe ids found in other Bioconductor data packages to GO terms using GO ids as the linkages."	GO	N
MFID2TERM	Mappings between GO id and GO term under molecular function	"This is an R environment object containing key and values pairs for the mappings between GO ids and the corresponding GO terms under molecular function defined by Gene Ontology Consortium. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. Data contained here are intended to allow users to map probe ids found in other Bioconductor data packages to GO terms using GO ids as the linkages."	GO	N
AnnInfo	Information file for source data	"This is an text file containing annotation element names that are used for annotation as keys and lists as values. Each list contains a short (a short description of the key), long (a long description of the key), src (a short name for the source such as LL (LocusLink)), and Y/N indicating whether the key is probe based. The text file will be used to generate the XML file and Rd files for data packages. "	NA	N
AFFY	Affymetrix identifier	Affymetrix identifier	NA	Y
PROBE	Generic identifier	A generic identifier for the target to be annotated	NA	Y
ASSOCIATION	The association between a GO term and the GO term of its parents	"This is an R environment object containing key and value pairs for the mappings between GO terms and its association with its parent GO terms (is a or part of the parent term). Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are named vectors of length 1 or more depending on wither a given GO term has association with one or more parental GO terms. The name of the gives the GO id to which a given go id is associated either as a part of or is a relationship. GO terms do not have association with any parental GO terms are assigned a value NA. "	GO	N
ORGANISM	Name of the organism	This is a character string for the name of the organism of concern. The name of the organism can be viewed by typing the name of the binary file that will be loaded when the package is loaded by calling library(packageName)	NA	N
CHRLENGTHS	The total lengths of chromosomes	This is a named vector of integers for the total lengths of chromosomes. Names of integers indicate the chromosome number. Total lengths of chromosomes were derived from the Human Genome Project (http://genome.cse.ucsc.edu/goldenPath) by finding out the maximum chromosome location value for each chromosome number and then increasing the value by 1000 bases. 	GP	N
DESCRIPTION	A short description of a probe	"This is an R environment object containing key and value pairs for the mappings between probe ids and descriptive information about the probe. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. Probe ids that can not be mapped to descriptive information are assigned a value NA. "	YG	Y
ORF	Open Reading Frame id	"This is an R environment object containing key and value pairs for the mappings between probe ids and open reading frame ids used for yeasts. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1. Probe ids that can not be mapped to descriptive information are assigned a value NA."	YG	Y
ALIAS	Alia gene names 	"This is an R environment object containing key and value pairs for the mappings between probe ids and alia names used for yeasts. Keys can be accessed using ls(name) and values using get(key, name) or multiget(keys, name). Values are vectors of length 1 or more depending on whether a probe id can be mapped to one or more alia names. Probe ids that can not be mapped to descriptive information are assigned a value NA."	YG	Y
#HGID2LL#	Mappings between internal HomoloGeneIDs to LocusLink ids	"This is an R environment object containing key and value pairs for the mappings between  #ORGANISM# internal HomologGeneIDs (keys) and LocusLink ids (values) of genes of pairwise best matches. Keys can be accessed using ls(name) and values using get(key, name) multiget(keys, name). Values may be vectors of length 1 or greater depending on whether a HomologGeneId has multiple pairwise best matches. Vector names are the scientific names of the species.  Mappings were obtained using data from NCBI (\url{ftp://ftp.ncbi.nih.gov/pub/HomoloGene/hmlg.ftp})"	HG	N
#HGID2GB#	Mappings between internal HomoloGeneIDs to GenBank accession numbers	"This is an R environment object containing key and value pairs for the mappings between  #ORGANISM# internal HomologGeneIDs and GenBank accession numbers. Keys can be accessed using ls(name) and values using get(key, name) multiget(keys, name). Values may be vectors of length 1 or greater depending on whether a HomologGeneId has multiple pairwise best matches. Vector names are the scientific names of the species.  Mappings were obtained using data from NCBI (\url{ftp://ftp.ncbi.nih.gov/pub/HomoloGene/hmlg.ftp})"	HG	N
HGID	Mappings between probe ids and internal HomoloGeneIDS 	"This is an R environment object containing key and value pairs for the mappings between  probe identifiers (key) and internal HomoloGeneIDs (values). Keys can be accessed using ls(name) and values using get(key, name) multiget(keys, name). Values may be vectors of length 1 or greater depending on whether a given probe identifier can be mapped to only one or more internal HomoloGeneIDs. NA is assigned to probe identifiers that can not be mapped to an internal HomoloGeneID at this time. Mappings were obtained using data from NCBI (\url{ftp://ftp.ncbi.nih.gov/pub/HomoloGene/hmlg.ftp})"	HG	Y
#HGID2PS#	Mappings between internal HomoloGeneIDs to percent identity	"This is an R environment object containing key and value pairs for the mappings between  #ORGANISM# internal HomologGeneIDs and prcent similarity of genes of pairwise best matches. Keys can be accessed using ls(name) and values using get(key, name) multiget(keys, name). Values are lists of length 1 or greater depending on whether a HomologGeneID has multiple pairwise best matches. Each element of a list is a homoPS object with a psOrg (scientific name of the organism), psLL (LocusLink id of a gene that is the best match from an organism), psType (type of similarity. B - a reciprocal best best match between 3 or more organisms; b - a reciprocal best match; c - a curated homology relationship), ps (percent similarity value), and psURL (an url to the source of a curated orthology) slots. Objects with psType = B or b will not have any value for psURL and objects with psType = c will not have any value for ps. The value of a given slot of an object can be accessed by using psOrg(xxx) for the psOrg slot of object xxx, for example. Mappings were obtained using data from NCBI (\url{ftp://ftp.ncbi.nih.gov/pub/HomoloGene/hmlg.ftp})"	HG	N
#HGID2HGID#	Mappings between internal HomoloGeneIDs of two organisms 	"This is an R environment object containing key and value pairs for the mappings between  #ORGANISM# internal HomologGeneIDs (keys) and the internal HomoloGeneIDs (Values) of other organisms that are best matches of the HomologGeneIDs represented by keys. Keys can be obtained by using (ls(name) and values using get(key, name) multiget(keys, name). Values are named vectors of length 1 or greater depending on whether the HomologGeneID given as a ksy has multiple pairwise best matches. Vector names are strings of organism scientific names.  Mappings were obtained using data from NCBI (\url{ftp://ftp.ncbi.nih.gov/pub/HomoloGene/hmlg.ftp})"	HG	N
#CHRNUM#START	Mappings between LocusLink ids to gene transcription start location	"This is an R environment object containing key and value pairs for the mappings between LocusLink ids (Keys) and the transciption start location for the gene on chromosome number #CHRNUM# corresponding to the LocusLink id (Values). Keys can be accessed using ls(name) and values using get(key, name) multiget(keys, name). Values are named vectors of length 1 derived from the smallest start value found for the LocusLink id. Names of chromosome location values can be ""Confident"" when the gene can be confidently placed on a chromosome and ""Unconfident"" otherwise (denoted by ""\_random"" in UCSC data). Mappings were derived from data provided by UCSC(\url{http://www.genome.ucsc.edu/goldenPath})"	GP	N
#CHRNUM#END	Mappings between LocusLink ids to gene transcription end location	"This is an R environment object containing key and value pairs for the mappings between LocusLink ids (Keys) and the transciption end location for the gene on chromosome number #CHRNUM# corresponding to the LocusLink id (Values). Keys can be accessed using ls(name) and values using get(key, name) multiget(keys, name). Values are named vectors of length 1 derived from the largest end value found for the LocusLink id. Names of chromosome location values can be ""Confident"" when the gene can be confidently placed on a chromosome and ""Unconfident"" otherwise (denoted by ""\_random"" in UCSC data). Mappings were derived from data provided by UCSC(\url{http://www.genome.ucsc.edu/goldenPath})"	GP	N
LOCUSID2CHR	Mappings between LocusLink ids to chromosome number the gene resides	"This is an R environment object containing key and value pairs for the mappings between LocusLink ids (Keys) and the chromosome number the gene resides (values). Keys can be accessed using ls(name) and values using get(key, name) multiget(keys, name). Values are vectors of length 1 or mor depending on whether a give LocusLink id can be mapped to one or more chromosomes. Mappings were derived from data provided by UCSC(\url{http://www.genome.ucsc.edu/goldenPath})"	GP	N
#REPLACEME#	Mappings between two public repository ids	"This is an R environment object containing key and value pairs for the mappings between #KEY#  (Keys) and the #VALUE# (values). Keys can be accessed using ls(name) and values using get(key, name) multiget(keys, name). Values are vectors of length 1 or more depending on whether #KEY# can be mapped to one or more #VALUE# .#OTHERS# Mappings were derived from data provided by LocusLink (\url{http://www.ncbi.nih.gov/LocusLink})"	LL	N
#ONETOONEMAN#	Mappings between keys and values	"This is an R environment object containing key and value pairs for the mappings between #KEY#  (Keys) and the #VALUE# (values). Keys can be accessed using ls(#ENVNAME#) and values using get(#KEY#, #ENVNAME#) or multiget(#KEY#s, #ENVNAME#). Values are vectors of length 1. Mappings were derived from data provided by #DATASOURCE#"	NA	N
#ONETOMANYMAN#	Mappings between keys and values	"This is an R environment object containing key and value pairs for the mappings between #KEY#  (Keys) and the #VALUE# (values). Keys can be accessed using ls(#ENVNAME#) and values using get(#KEY#, #ENVNAME#) or multiget(#KEY#s, #ENVNAME#). Values are vectors of length 1 or more depending on whether #KEY# can be mapped to one or more #VALUE# . Mappings were derived from data provided by #DATASOURCE#"	NA	N
IMAGE	Mappings between probe ids and IMAGE ids	"This is an R environment object containing key and value pairs for the mappings between probe identifiers (key) and IMAGE ids (value). Keys can be accessed using ls(name) and values using get(key, name) or multiget (keys, name). Values are vectors of length 1. NA is assigned to probe identifiers that can not be mapped to IMAGE ids. Mappings between probe ids and IMAGE ids are assumed to be provided by users. "	NA	Y
