Important genes in the Colon cancer microarray data - (Oct/02/2006 )
Hi!
Does anyone recognize some of the genes (identified by probe identifiers) below as being important to the description of the Colon cancer dataset (http://www.lsi.us.es/~aguilar/datasets.html)? Is there a reference for it?
M85169
X69910
M27190
H25136
M34175
H02630
T96832
H65355
Z19002
R71251
U14973
U37012
D25216
J05032
D28137
J04026
J04794
T67921
R80427
X55362
M76378
R49565
U05875
H04235
M22050
H89481
D00265
X83301
H51196
T54767
H26965
H15662
T51571
U05291
H30734
K03192
T95046
T74906
R62549
X06614
M64673
X16356
D13138
T95291
X51345
R80855
X02157
X67235
R02593
M31994
Thank you in advance!
Hi there,
Go to the following website:
http://www.ebi.ac.uk/embl/index.html
Look on the right hand side where you will see "EMBL Fetch". This will fetch the record by the ID you supply.
So, in the case of M85169, the database will retrieve the following information:
ID M85169; SV 1; linear; mRNA; STD; HUM; 3311 BP.
AC M85169;
DT 27-MAY-1992 (Rel. 32, Created)
DT 04-MAR-2000 (Rel. 63, Last updated, Version 6)
DE Human homologue of yeast sec7 mRNA, complete cds.
KW homologous region.
OS Homo sapiens (human)
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae;
OC Homo.
RN [1]
RP 1-3311
RX DOI; 10.1016/0167-4781(92)90055-5
RX PUBMED; 1511013.
RA Liu L., Pohajdak B.;
RT "Cloning and sequencing a human cDNA from cytolytic NK/T cells with
RT homology to yeast SEC7";
RL Biochim. Biophys. Acta 1132(1):75-78(1992).
DR GDB; 188683.
DR GDB; 188684.
DR H-InvDB; HIT000196609.
FH Key Location/Qualifiers
FH
FT source 1..3311
FT /organism="Homo sapiens"
FT /mol_type="mRNA"
FT /cell_type="cytolytic NK/T"
FT /tissue_lib="NK subtracted from Jurkat"
FT /db_xref="taxon:9606"
FT CDS 70..1266
FT /codon_start=1
FT /note="yeast sec7 gene homologue"
FT /db_xref="GDB:9955571"
FT /db_xref="GOA:Q15438"
FT /db_xref="HGNC:9501"
FT /db_xref="InterPro:IPR000904"
FT /db_xref="InterPro:IPR001849"
FT /db_xref="InterPro:IPR011993"
FT /db_xref="PDB:1BC9"
FT /db_xref="UniProtKB/Swiss-Prot:Q15438"
FT /protein_id="AAA36602.1"
FT /translation="MEEDDSYVPSDLTAEERQELENIRRRKQELLADIQRLKDEIAEVA
FT NEIENLGSTEERKNMQRNKQVAMGRKKFNMDPKKGIQFLIENDLLKNTCEDIAQFLYKG
FT EGLNKTAIGDYLGERDEFNIQVLHAFVELHEFTDLNLVQALRQFLWSFRLPGEAQKIDR
FT MMEAFAQRYCQCNNGVFQSTDTCYVLSFAIIMLNTSLHNPNVKDKPTVERFIAMNRGIN
FT DGGDLPEELLRNLYESIKNEPFKIPEDDGNDLTHTFFNPDREGWLLKLGGGRVKTWKRR
FT WFILTDNCLYYFEYTTDKEPRGIIPLENLSIREVEDSKKPNCFELYIPDNKDQVIKACK
FT TEADGRVVEGNHTVYRISAPTPEEKEEWIKCIKAAISRDPFYEMLAARKKKVSSTKRH"
FT misc_feature 108
FT /function="N-linked glycosylation site"
FT misc_feature 197
FT /function="N-linked glycosylation site"
FT misc_feature 309
FT /function="N-linked glycosylation site"
FT misc_feature 351
FT /function="N-linked glycosylation site"
FT misc_feature 1234..1260
FT /function="PKC site"
FT polyA_signal 3278
FT polyA_site 3301
SQ Sequence 3311 BP; 784 A; 820 C; 953 G; 754 T; 0 other;
gcgagcgggg gcgcgggtgg cgcggcggga cgcgagcggc gagccggagc gcgagcccgc 60
tcccgcacca tggaggagga cgacagctac gttcccagtg acctgacagc agaggagcgt 120
caagaactgg agaacatccg acggagaaaa caggagctgc tggctgacat tcagaggctg 180
aaggatgaga tagcagaagt agctaatgaa attgaaaacc tgggatccac agaggaaagg 240
aaaaacatgc agaggaacaa acaggtagcc atgggcagga aaaaatttaa tatggaccct 300
aaaaagggga tccagttctt aatagagaac gacctcctga agaacacttg tgaagacatt 360
gcccagttct tatataaagg cgaagggctc aacaagacag ccatcggcga ctacctaggg 420
gagagagatg agtttaatat ccaggttctt catgcatttg tggagctgca tgagttcact 480
gatcttaatc tcgtccaggc actacggcag ttcctgtgga gcttccggct acccggagag 540
gcccagaaga tcgaccggat gatggaggcg tttgcccagc gatattgtca gtgcaataat 600
ggcgtgttcc agtccacgga tacttgttac gtcctctcct ttgccatcat catgttgaac 660
accagtctgc acaaccccaa tgtcaaagat aagcccactg tggagaggtt cattgccatg 720
aaccgaggca tcaatgatgg gggagacctg ccggaggagc tcctccggaa tctctatgag 780
agcataaaaa atgaaccctt taaaatccca gaagacgacg ggaatgacct cactcacact 840
ttcttcaatc cagaccgaga aggctggcta ttgaaactcg gaggtggcag ggtaaagact 900
tggaagagac gctggttcat tctgactgac aactgccttt actactttga gtataccacg 960
gataaggagc cccgtggaat catcccttta gagaatctga gtatccggga agtggaggac 1020
tccaaaaaac caaactgctt tgagctttat atccccgaca ataaagacca agttatcaag 1080
gcctgcaaga ccgaggctga cgggcgggtg gtggagggga accacactgt ttaccggatc 1140
tcagctccga cgcccgagga gaaggaggag tggattaagt gcattaaagc agccatcagc 1200
agggaccctt tctacgaaat gctcgcagca cggaaaaaga aggtctcctc cacgaagcga 1260
cactgagcgt gcagccaagg gcgttggtct gcgggggcct tggagctcct gctcttctcc 1320
cgcacctcca tggatgcact gctgccgagc agagcgtcct ctgccaggcc ccgccctgga 1380
ttcctagaga ctagcttcag cttttgctat tttttttaag tgggagaagg gtgggcagtt 1440
atcactgggg aagagaggac cggccacctg tccagcatgg gctccagagc cttcctctct 1500
cacagggcag agctcttgtc ggcagggcag cctcctggcc agtttctctg ctcagtgttc 1560
tggtagcaga gctcagagcc aactgtttac ctcttggttg tccccgtgaa gaagccttca 1620
aaccctgcac cataaataca tgtgtccata tattattata tgttaagaga aaaaggtgga 1680
aaggaagaga agccacatac tataaagatc tatttttttt ttttaagaga gaacgtaggg 1740
ctgttcaggt gcattctgcc ctggctgcgc tggggagctt ctccctggag aagagcacct 1800
ggggctgcgg ccaaggggca tcagcctggg cccgcggcag ggcctggcct gcctctcctg 1860
tgctgtggga gctcgctgcc tggtgcttgt cttggcgaga tggacaggtg aggtcgagga 1920
cgcagagggc agaggcccag tggagcctca gacggcacag tcagagtcgg gggcctgcct 1980
ggccggggtc gcagtcggca gcagcgtgca gtccggcatc tcccgcggat gcttttccat 2040
cccaagtgcc tgcggagccc gaggagagga gagagctgac tggacgctta cgttattttc 2100
ctccttcaga atccaagttc ttgttgggct ttaaagtaga aagtcagcat tttccttgag 2160
ctaaatacct aataaccaaa actgtgagga aggttatcgg gacagaggtt ccggataacc 2220
tgtttcattt tgggttttct tcctcttccc cagactccag tcctcgttct agaggaagga 2280
gtaggacttc cccgatcccc gtagcttcag ctttttctgc ctcaaaacca gccctaactg 2340
gactactctg gatgcatttt gtggtgggcc ccctagaggg aagatgggcc tttatctgct 2400
ccgtggggtg cactggagtg aggggggtgg ccgggctgcc tctcgcatct ctgtcttccc 2460
ctgcaggcgc tgtgtgagct ggccctgccc ctcctcatta cagtatgaag ggagccgtga 2520
cacgcagcat tttcctgccg ttctctcagg gactctcagg gcagctcctg ccactccgcc 2580
agggccagca tgccagtcca ggcagagcag gtggctggct gtctggccgt ctcgccccgc 2640
ccctccacag gaccctggac cagggcggtg cagggcgcag ccccgaggag gcaggtggag 2700
gagctgcggg ttttcacagg gccgcgtcgc cacggctcct ctgatccttt agggttggcg 2760
agcatctctg gaaatagctt ttgcagagga gtggtgggag gaatagaggg ggacagtctg 2820
tcacctccct ccccgccact ttgtgtagat cctacctgga gggaatggct ttaggcactt 2880
ttgtgccaga gcttgtgagg gtgacagaag agggtccagg ctggaaacct gaactttctg 2940
ggtgggagaa ccaggtggtg cctgccgagg tctgggcgtg tttgggccgg tgctggagcc 3000
tgtccagctg gcccgggccc tggcctggtt ctcaagtgtt tcctagacag agaggcacct 3060
gggtcagtat tagtctattt atcagaggtg taaataatct atgtatagtt tttctccttt 3120
tagattattt tgtatttgtt taaaagaagt tttgtcaaaa tacaaaaata taaagaaatg 3180
actgaaagtt gttgacaggg tttttaagaa ataattattc taattgtttt tgtttgtttg 3240
tttttgcctt gtaaactagc gccaaggaac tgcagcaaat aaactccaac tctgcccaag 3300
caaaaaaaaa a 3311
//
This entry doesn't mention anything about colon cancer but you can check out the reference to see if there's anything related to the disease.
On the other hand, you can try OMIM (a database catalog of human genes and genetic disorders) to find any genes related to colon cancer. It's available on NCBI and the website is:
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=OMIM
Hope this helps
Good Luck! 
Thank you!