Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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Filtered Gene Value Type network_comparison Network Comparison Type Interaction Map Rank description green red
Results: HTML CSV LaTeX Showing element 3180 to 3229 of 77072 in total
Filtered  : 0
Value Type  : Ranked
Network Comparison Type  : Divided
network_comparison
Interaction Map
Rank
description
green
red
1.05259 Low confidence 525 importin alpha-2 subunit (karyopherin alpha-2 subunit) (srp1-alpha) (rag cohort protein 1). [swissprot;acc:p52292] 10573.9 11130
1.05311 High confidence 342 gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 10609 10074
1.05312 Low confidence 524 40s ribosomal protein s26. [swissprot;acc:p02383] 11262.9 10694.8
1.05348 523 chromodomain-helicase-dna-binding protein 1 (chd-1). [swissprot;acc:o14646] 11561.3 10974.4
1.05351 522 glycine cleavage system h protein, mitochondrial precursor. [swissprot;acc:p23434] 11120.5 10555.7
1.05366 High confidence 341 ferritin heavy polypeptide-like 17. [swissprot;acc:q9bxu8] 9169.98 8702.94
1.05374 340 guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] 10792.3 11372.3
1.05384 Low confidence 521 60s ribosomal protein l39. [swissprot;acc:p02404] 12300.8 11672.4
1.05406 High confidence 339 tfiih basal transcription factor complex p44 subunit (basic transcription factor 2 44 kda subunit) (btf2-p44) (general transcription factor iih polypeptide 2). [swissprot;acc:q13888] 10903.3 10344.1
1.05416 Low confidence 520 dna topoisomerase i (ec 5.99.1.2). [swissprot;acc:p11387] 10982.6 10418.3
1.05438 519 daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959] 12486.3 11842.3
1.0547 High confidence 338 hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [swissprot;acc:p46597] 10571.4 11149.7
1.0548 Low confidence 518 espin. [refseq;acc:nm_031475] 14545.8 13790.1
1.055 517 rwd domain containing 1; ptd013 protein; cgi-24 protein. [refseq;acc:nm_015952] 12854.2 12184.1
1.0553 516 ubiquitin-conjugating enzyme e2-18 kda ubch7 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (ubcm4) (e2-f1) (l-ubc). [swissprot;acc:p51966] 11832.5 11212.4
1.0554 515 alcohol dehydrogenase class iii chi chain (ec 1.1.1.1) (glutathione- dependent formaldehyde dehydrogenase) (ec 1.2.1.1) (fdh). [swissprot;acc:p11766] 12290.5 11645.4
1.05541 High confidence 337 glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 1 (ec 2.6.1.16) (hexosephosphate aminotransferase 1) (d-fructose-6- phosphate amidotransferase 1) (gfat 1) (gfat1). [swissprot;acc:q06210] 12273.2 12953.2
1.0556 332 myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533] 7697.5 8125.5
333 myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]
334 myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]
335 myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]
336 myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]
1.05594 Low confidence 514 heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107] 11580 10966.5
1.05597 513 cg4853 gene product. [refseq;acc:nm_145313] 14671.5 13893.9
1.05604 512 helicase ski2w (helicase-like protein) (hlp). [swissprot;acc:q15477] 11116.2 10526.3
1.05644 High confidence 331 40s ribosomal protein s3a. [swissprot;acc:p49241] 10992.4 10405.1
1.05668 330 pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152] 13018.5 12320.2
1.05681 Low confidence 511 zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623] 10716 11324.8
1.05701 High confidence 329 signal-induced proliferation-associated 1-like 1. [refseq;acc:nm_015556] 15115.5 15977.3
1.05717 328 putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] 11520 10897
1.05727 Low confidence 510 methyltransferase like 2. [refseq;acc:nm_018396] 12508.3 11830.8
1.05731 509 cln3 protein (battenin) (batten disease protein). [swissprot;acc:q13286] 11175.5 11816
1.05744 508 cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551] 12764 12070.7
1.05751 High confidence 327 3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362] 10466.5 9897.29
1.05772 Low confidence 507 cytochrome p450 3a7 (ec 1.14.14.1) (cypiiia7) (p450-hfla). [swissprot;acc:p24462] 12524.9 11841.4
1.05779 High confidence 326 dead/h (asp-glu-ala-asp/his) box polypeptide 11; dead/h box-11 (chl1-related helicase gene-1); yeast chl1 homolog. [refseq;acc:nm_030655] 11295.6 11948.4
1.05811 325 mstp028 protein. [refseq;acc:nm_031954] 7528.21 7965.66
Low confidence 506
1.05843 High confidence 323 ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [swissprot;acc:p15154] 16427.3 17387.1
324 ras-related c3 botulinum toxin substrate 3 (p21-rac3). [swissprot;acc:o14658]
1.05845 Low confidence 505 importin 9. [refseq;acc:nm_018085] 10602 10016.5
1.05849 504 ero1-like. [refseq;acc:nm_014584] 10148.1 9587.31
1.05859 502 pnas-18. [sptrembl;acc:q9bzu3] 12793.5 12085.4
503 neurofibromin (neurofibromatosis-related protein nf-1) [contains: neurofibromin truncated]. [swissprot;acc:p21359] 11516.1 10878.7
1.05864 High confidence 321 adenine phosphoribosyltransferase (ec 2.4.2.7) (aprt). [swissprot;acc:p07741] 10989.9 11634.4
322 estradiol 17 beta-dehydrogenase 1 (ec 1.1.1.62) (17-beta-hsd 1) (placental 17-beta-hydroxysteroid dehydrogenase) (20 alpha- hydroxysteroid dehydrogenase) (20-alpha-hsd) (e2dh). [swissprot;acc:p14061]
1.0588 Low confidence 501 3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362] 11352.1 10721.7
1.05908 499 udp-glucuronosyltransferase 2b4 precursor, microsomal (ec 2.4.1.17) (udpgt) (hyodeoxycholic acid) (hlug25) (udpgth-1). [swissprot;acc:p06133] 12128.8 12845.4
500 udp-glucuronosyltransferase 2b10 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:p36537] 12129.6 12846.2
1.05928 498 udp-glucuronosyltransferase 2b11 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:o75310] 12143.1 12862.9

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.
- http://analysis.yellowcouch.org/