spYCCmeta {yeastCC} | R Documentation

## metadata on yeast cell cycle microarray experiment

### Description

data.frame instance with metadata on 800 genes

### Usage

    data(spYCCmeta)

### Format

A data frame with 800 observations on the following 75 variables.

`Process`
  a factor with levels `` `4-nitroquinoline-N-oxide resistance` `ATP synthesis` ...
`Function`
  a factor with levels `` `(1->6)-beta-glucan synthase subunit` `(putative) Glc7p regulatory subunit` ...
`X`
  a logical vector
`Peak`
  a factor with levels `G1` `G2/M` `M/G1` `S` `S/G2`
`Phase.Order`
  a numeric vector
`Cluster.Order`
  a numeric vector
`ORF`
  a factor with levels `` `YAL022C` `YAL040C` `YAL053W` `YAL067C` `YAR003W` `YAR007C` ...
`YPD`
  a factor with levels `` `AAD10` `ACE2` `ADA2` `ADK2` `AFR1` `AGA1` `AGA2` `AGP1` ...
`SGD`
  a factor with levels `` `AAD10` `ACE2` `ADA2` `ADK2` `AFR1` `AGA1` `AGA2` ...
`YPD.1`
  a factor with levels `` `YPD`
`SGD.1`
  a factor with levels `` `SGD`
`MIPS`
  a factor with levels `` `MIPS`
`n1`
  a numeric vector
`n2`
  a numeric vector
`Geomean`
  a numeric vector
`Absolute`
  a numeric vector
`g1`
  a numeric vector
`g2`
  a numeric vector
`Geomean.1`
  a numeric vector
`Absolute.1`
  a numeric vector
`Deletion`
  a factor with levels `irrelevant` `lethal` `undocumented` `viable`
`Known.`
  a factor with levels `Known` `New` `New`
`Description`
  a factor with levels `` `Inhibitor of Cdc28p/Cln1p and Cdc28p/Cln2p complexes involved in cell cycle arrest for mating` `1,3-beta-D-glucan synthase` `3\'-Phosphoadenylylsulfate reductase; part of the sulfate assimilation pathway` ...
`Aggregate.Score`
  a numeric vector
`Phase`
  a numeric vector
`No..Elements`
  a numeric vector
`Most.Relevant.Promoter.Elements`
  a factor with levels `` `AATAGATGACCCGATTTGGAAAAAGGTAAACAACAATG` `ATTTGATTGCCGAAAGAGGCAAAAC GTAAATAGGTTGT` `C 156 TCTGCCAGCCAA` `C 253 AAAGCCAGCCAT` `C 256 TATGCCAGCCAA` `C 276 AAGGCCAGCCTC` `C 293 TTGACCAGCTAA` ...
`X.1`
  a factor with levels `` `ATATAGCGACCGAATCAGGAAAAG GTCAACAACGAAG` `C 102 CGAGCCAGCATT` `C 252 AAGACCAGCATG` `C 301 AGTGCCAGCAAA` `C 496 GAAGCCAGCACA` `C 550 GCGGCCAGCAAC` `c 106 attACGCGaaaat` `c 112 aaaACGCGagaaa` `c 121 ggaACGCGacgc` ...
`X.2`
  a factor with levels `` `C 125 GCAACCAGCTCT` `C 146 CAAGCCAGCCAT` `C 195 CGCACCAGCAAC` `C 212 TATACCAGCGTT` `C 245 TAAACCAGCGCA` `C 402 TATGCCAGCAAA` `c 112 ttaACGCGatcga` `c 115 agtACGCGaaagg` `c 123 acaACGCGaacac` `c 127 gtgACGCGaaaaa` ...
`X.3`
  a factor with levels `` `C 307 AAGACCAGCATT` `c 163 ctgACGCGcgaaa` `c 190 aatACGCGagaaa` `c 220 tagACGCGcctta` `c 241 cgaACGCGaaact` `c 275 aaaACGCGaccgt` `c 282 aagACGCGatttt` `c 289 attACGCGcatta` `c 290 aggACGCGaaact` ...
`X.4`
  a factor with levels `` `C 200 CAAACCAGCATC` `c 117 gtcACGCGaaaaa` `c 314 cctACGCGaaagt` `c 338 caaACGCGaaaaa` `c 359 acgACGCGccttc` `c 382 gttACGCGaagtc` `c 384 tcaACGCGaattt` `c 397 aaaACGCGaaaac` `c 440 gtgACGCGcggtt` ...
`X.5`
  a factor with levels `` `C 306 GGAGCCAGCGCG` `c 467 accACGCGaaaag` `c 588 gaaACGCGccaaa` `w 266 ATAACCAGCAAA` `w 383 cagACGCGagaac` `w 478 GGAGCCAGCGCG` `w401 tatCGCGAAAatt`
`X.6`
  a factor with levels `` `C 337 AGAGCCAGCAAG` `C 417 TCGGCCAGCAAT` `c 501 acaACGCGaaaaa` `w 370 gcgACGCGaaaaa` `w 447 AGAGCCAGCAAG`
`X.7`
  a factor with levels `` `C 388 GGAACCAGCAGA` `w 396 GGAACCAGCAGA`
`Number`
  a numeric vector
`SCB`
  a factor with levels `` `c 103 gacCACGAAAttt` `c 105 atgCACGAAAaag` `c 106 ctaCACGAAAcac` `c 108 tacCACGAAAgta` `c 110 ccaCACGAAAaga` `c 123 agaCACGAAAtgt` `c 127 acaCACGAAAacg` `c 181 cagCACGAAAtgg` ...
`SCB.1`
  a factor with levels `` `c178 tgaCACGAAAaac` `c232 gaaCACGAAAtgc` `c539 gtaCACGAAAttc` `w269 agcCACGAAAtgc` `w347 tgaCACGAAAtgt` `w541 agtCACGAAAcgc` `w601 tgtCACGAAAagt`
`SCB.2`
  a factor with levels `` `c330 aacCACGAAAaaa` `c582 agtCACGAAAcgc` `w467 attCACGAAAtaa`
`SCB.3`
  a factor with levels `` `w435 atcCACGAAAatc`
`X.8`
  a factor with levels `` `w252 aacCACGAAAagt`
`Number.1`
  a numeric vector
`SCB_d`
  a factor with levels `` `c 156 gatCGCGAAAttt` `c 184 cgaCGCGAAAatg` `c 218 cagCGCGAAAagt` `c 222 tatCGCGAAAaaa` `c 229 tgaCGCGAAAcgc` `c 237 tatCGCGAAAcga` `c 238 atcCGCGAAAgga` `c 283 aagCGCGAAAcaa` ....
`SCB_d.1`
  a factor with levels `` `c 126 tttCGCGAAActg` `c 415 tttCGCGAAAtct` `c 566 ttcCGCGAAAaaa` `c 592 aggCGCGAAAtac` `c 633 aaaCGCGAAAtgt` `c242 gaaCGCGAAActt` `c297 ctcCGCGAAAaat` `c306 tcgCGCGAAAaga` ...
`SCB_d.2`
  a factor with levels `` `c468 ccaCGCGAAAaga` `c508 tttCGCGAAAtct`
`SCB_d.3`
  a factor with levels `` `c502 caaCGCGAAAaat`
`Number.2`
  a numeric vector
`MCB`
  a factor with levels `` `w 126 gcaACGCGTcgc` `w 187 caaACGCGTaca` `w 207 ctcACGCGTcgg` `w 209 attACGCGTtta` `w 226 cagACGCGTtgc` `w 228 acaACGCGTctt` `w 23 acaACGCGTgct` `w 267 cccACGCGTagg` ...
`MCB.1`
  a factor with levels `` `w111 gaaACGCGTtct` `w124 ttgACGCGTttc` `w128 gtgACGCGTtat` `w130 agaACGCGTtct` `w131 gcgACGCGTaac` `w138 aagACGCGTgaa` `w139 attACGCGTtta` `w153 ctaACGCGTttt` ...
`MCB.2`
  a factor with levels `` `w374 taaACGCGTcat`
`MCB.3`
  a factor with levels `` `w309 aggACGCGTaaa`
`Number.3`
  a numeric vector
`MCB_d`
  a factor with levels `` `c 106 attACGCGaaaat` `c 109 acaACGCGactgg` `c 112 aaaACGCGagaaa` `c 115 agtACGCGaaagg` `c 117 gtcACGCGaaaaa` `c 121 ggaACGCGacgc` `c 127 gtgACGCGaaaaa` `c 129 acaACGCGcccga` ...
`MCB_d.1`
  a factor with levels `` `c 123 acaACGCGaacac` `c 136 aatACGCGattgg` `c 147 gcaACGCGagaga` `c 158 tctACGCGcgaag` `c 163 ctgACGCGcgaaa` `c 176 gcgACGCGgttgt` `c 187 agtACGCGatttg` `c 189 gaaACGCGggcac` ...
`MCB_d.2`
  a factor with levels `` `c 112 ttaACGCGatcga` `c 220 tagACGCGcctta` `c 294 ttcACGCGcttaa` `c 382 gttACGCGaagtc` `c 477 gcaACGCGcctgg` `c 501 acaACGCGaaaaa` `c 549 attACGCGcacg` `c 557 tgtACGCGcgaac` ...
`MCB_d.3`
  a factor with levels `` `c 617 gaaACGCGcagta` `w 50 gtaACGCGctttt`
`X.9`
  a factor with levels `` `c 359 acgACGCGccttc`
`Number.4`
  a numeric vector
`SFF`
  a factor with levels `` `AATAGATGACCCGATTTGGAAAAAGGTAAACAACAATG` `ATTTGATTGCCGAAAGAGGCAAAAC GTAAATAGGTTGT` `CAAAACAAACCCAATAAAGAAAATCCAAAATATAGAAC` `GTACTTTAACCTGTTTAGGAAAAAG GTAAACAATAACA` `TCGAACAATTCTAAAAAGGTAAAT AAAAACAATGGTA` ...
`Number.5`
  a factor with levels `` `1` `2` `3` `4` `ATATAGCGACCGAATCAGGAAAAGGTCAACAACGAAG`
`Swi5`
  a factor with levels `` `C 102 CGAGCCAGCATT` `C 156 TCTGCCAGCCAA` `C 200 CAAACCAGCATC` `C 252 AAGACCAGCATG` `C 253 AAAGCCAGCCAT` `C 256 TATGCCAGCCAA` `C 276 AAGGCCAGCCTC` `C 293 TTGACCAGCTAA` ...
`Swi5.1`
  a factor with levels `` `C 125 GCAACCAGCTCT` `C 146 CAAGCCAGCCAT` `C 195 CGCACCAGCAAC` `C 245 TAAACCAGCGCA` `C 301 AGTGCCAGCAAA` `C 306 GGAGCCAGCGCG` `C 307 AAGACCAGCATT` `C 402 TATGCCAGCAAA` ...
`Swi5.2`
  a factor with levels `` `C 212 TATACCAGCGTT` `C 337 AGAGCCAGCAAG` `c 19 AGAACCAGCTGA` `c 320 ACCACCAGCTTA` `c 545 ACCACCAGCGTA` `c 569 TTCACCAGCGGC` `c 642 GAGACCAGCGGA` `c 651 ATCACCAGCAAA` ...
`Swi5.3`
  a factor with levels `` `C 388 GGAACCAGCAGA` `C 417 TCGGCCAGCAAT` `c 336 TTTACCAGCTCA` `c 363 TGCACCAGCATT` `c 494 CTGGCCAGCAAG` `w 396 GGAACCAGCAGA`
`Number.6`
  a numeric vector
`Swi5e`
  a factor with levels `` `c 102 CGAGCCAGCATT` `c 137 TAGGCCAGCAAA` `c 155 ACAACCAGCAGT` `c 156 CTAACCAGCAAG` `c 16 AGAGCCAGCAGA` `c 174 TAAACCAGCATT` `c 184 ATGGCCAGCATA` `c 200 CAAACCAGCATC` ...
`Swi5e.1`
  a factor with levels `` `c 222 TTGACCAGCGCC` `c 256 TAAACCAGCAAA` `c 306 GGAGCCAGCGCG` `c 307 AAGACCAGCATT` `c 637 GGAGCCAGCGAT` `w 265 TAAACCAGCAAT` `w 266 ATAACCAGCAAA` `w 467 TGAGCCAGCAAT` `w 478 GGAGCCAGCGCG` `w 536 GAAACCAGCAAC` `w 554 ATGGCCAGCACC`
`Swi5e.2`
  a factor with levels `` `c 337 AGAGCCAGCAAG` `c 417 TCGGCCAGCAAT` `c 642 GAGACCAGCGGA` `w 447 AGAGCCAGCAAG`
`Swi5e.3`
  a factor with levels `` `c 388 GGAACCAGCAGA` `w 396 GGAACCAGCAGA`
`Number.7`
  a numeric vector
`ECB`
  a factor with levels `` `c 185 TTACCCATTTAGGAAA` `c 221 TTACCCAATTAGGAAA` `c 251 TTTCCCTTTAAGGAAA` `c 258 TTTCCCAAAAAGGAAA` `c 387 TTTCCCTTTTAGGAAA` `c 394 TTACCCACTTAGGAAA` `w 154 TTTCCCTTTTAGGAAA` `w 177 TTACCCACTTAGGAAA` `w 229 TTACCCAGAAAGGAAA` `w 378 TTTCCCTAATAGGAAA` `w 453 TTTCCCGTTTAGGAAA` `w 595 TTTCCCACTAAGGAAA`
`Number.8`
  a numeric vector
`STE12`
  a factor with levels `` `c 243 CCTTTTTCAGTTTCTATTTTTAACACTGAAACT` `w 112 CCCTATTTGGTTGCAATTCAATTCCGTGAAACC` `w 119 CCCAATGTAGAAAAGTACATCATATGAAACA` `w 218 CCTAATTGGGTAAGTACATGATGAAACA` `w 224 CCCAAAAAGGAAATTTACATGTTAAATGAAACC` ...
`MIG1.sites`
  a factor with levels `` `c 114 AATAGACTGGGG` `c 137 TCTATCCTGGGG` `c 147 TGAATGCTGGGG` `c 165 AATAAAGTGGGG` `c 215 TATAATGCGGGG` `c 304 AAATCGCCGGGG` `c 332 AAATATCTGGGG` `c 368 AATTGCGCGGGG` ...
`X.10`
  a factor with levels `` `c 161 AGTTTGGTGGGG` `c 262 AAGATGGTGGGG` `c 498 AAAAAACCGGGG` `c 499 AAAAATGCGGGG` `w 296 TATTCGGCGGGG` `w 578 CTTTTGCCGGGG`
`X.11`
  a logical vector

### Details

taken from the Spellman support web site.

### Source

cellcycle-www.stanford.edu

### References

PMID 9843569

### Examples

    data(spYCCmeta)
    spYCCmeta[1:5,1:6]

[Package yeastCC version 1.2.8 Index]