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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description Filtered Rank Gene Value Type Network Comparison Type Interaction Map red network_comparison green
Results: HTML CSV LaTeX Showing element 451 to 500 of 3730 in total
Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence
description
Filtered
Rank
red
network_comparison
green
ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] 1 2130 5328.73 1.05402 5616.59
ba528a10.3.2 (novel protein similar to kiaa0161, isoform 2) (fragment). [sptrembl;acc:q9bx39] 2968 0.00001 1 0.00001
bactericidal permeability-increasing protein precursor (bpi) (cap 57). [swissprot;acc:p17213] 2338 5123.89 1.04428 5350.78
baculoviral iap repeat-containing protein 5 (apoptosis inhibitor survivin) (apoptosis inhibitor 4). [swissprot;acc:o15392] 0 348 14357.1 1.0664 13463.1
1 2024 5976.81 1.05807 6323.87
bag-family molecular chaperone regulator-1 (bcl-2 binding athanogene- 1) (bag-1) (glucocorticoid receptor-associated protein rap46). [swissprot;acc:q99933] 1322 6439.79 1.08066 6959.21
bag-family molecular chaperone regulator-2. [swissprot;acc:o95816] 2471 7765.3 1.03074 8004
bag-family molecular chaperone regulator-3 (bcl-2 binding athanogene- 3) (bag-3) (bcl-2-binding protein bis) (docking protein cair-1). [swissprot;acc:o95817] 417 4522.71 1.15708 5233.14
bai1-associated protein 1; ww domain-containing protein 3; atrophin-1 interacting protein 3. [refseq;acc:nm_004742] 2365 5254.55 1.04301 5480.56
bai1-associated protein 3; bai-associated protein 3. [refseq;acc:nm_003933] 394 4490.28 1.16301 5222.25
band 4.1-like protein 1 (neuronal protein 4.1) (4.1n). [swissprot;acc:q9h4g0] 969 7813.34 1.09684 8569.95
band 4.1-like protein 2 (generally expressed protein 4.1) (4.1g). [swissprot;acc:o43491] 971 7813.36 8569.97
band 4.1-like protein 3 (4.1b) (differentially expressed in adenocarcinoma of the lung protein 1) (dal-1). [swissprot;acc:q9y2j2] 970 7813.45 8570.07
bardet-biedl syndrome 7 protein isoform a; bbs2-like 1. [refseq;acc:nm_176824] 2129 5328.73 1.05402 5616.59
barrier-to-autointegration factor (breakpoint cluster region protein 1). [swissprot;acc:o75531] 2804 0.00001 1 0.00001
basic helix-loop-helix domain containing, class b, 5; trinucleotide repeat containing 20. [refseq;acc:nm_152414] 908 11848.8 1.10014 10770.3
basic proline-rich peptide p-e (ib-9). [swissprot;acc:p02811] 0 108 292 1.44178 421
1 1920 6262.66 1.0623 6652.85
bax inhibitor-1 (bi-1) (testis enhanced gene transcript). [swissprot;acc:p55061] 2950 0.00001 1 0.00001
bcl-6 interacting corepressor isoform 1. [refseq;acc:nm_017745] 2776
beclin 1 (coiled-coil myosin-like bcl2-interacting protein) (protein gt197). [swissprot;acc:q14457] 2650 9150.44 1.00914 9234.09
bet3 homolog. [swissprot;acc:o43617] 352 17396.9 1.17745 20483.9
beta adducin (erythrocyte adducin beta subunit). [swissprot;acc:p35612] 1368 5793.29 1.07858 6248.51
beta enolase (ec 4.2.1.11) (2-phospho-d-glycerate hydro-lyase) (skeletal muscle enolase) (mse) (enolase 3). [swissprot;acc:p13929] 944 6597.98 1.09746 7241
beta-1,4 mannosyltransferase. [refseq;acc:nm_019109] 143 9275.1 1.30826 7089.65
beta-1-syntrophin (59 kda dystrophin-associated protein a1, basic component 1) (dapa1b) (tax interaction protein 43) (tip-43) (syntrophin 2) (bsyn2). [swissprot;acc:q13884] 1764 5829.61 1.06667 6218.27
beta-2-syntrophin (59 kda dystrophin-associated protein a1, basic component 2) (syntrophin 3) (snt3) (syntrophin-like) (sntl). [swissprot;acc:q13425] 1765
beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] 68 6475.5 1.59177 10307.5
beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] 67
beta-carotene 15, 15'-dioxygenase; beta-carotene 15,15'-monooxygenase. [refseq;acc:nm_017429] 1673 5791.14 1.0694 6193.02
beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] 0 28 570 4.10072 139
1 1672 5791.14 1.0694 6193.02
beta-catenin (pro2286). [swissprot;acc:p35222] 1029 5635.26 1.0942 6166.09
beta-centractin (actin-related protein 1b) (arp1b). [swissprot;acc:p42025] 1152 5322.74 1.08838 5793.15
beta-soluble nsf attachment protein (snap-beta) (n-ethylmaleimide- sensitive factor attachment protein, beta). [swissprot;acc:q9h115] 2718 5603.24 1.00351 5583.64
beta-ureidopropionase (ec 3.5.1.6) (beta-alanine synthase) (n-carbamoyl-beta-alanine amidohydrolase) (bup-1). [swissprot;acc:q9ubr1] 3145 0.00001 1 0.00001
bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 1 (paps synthethase 1) (papss 1) (sulfurylase kinase 1) (sk1) (sk 1) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o43252] 1844 3591.95 1.06417 3375.34
bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 2 (paps synthethase 2) (papss 2) (sulfurylase kinase 2) (sk2) (sk 2) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o95340] 0 133 252 1.32937 335
1 1842 3591.95 1.06417 3375.34
bifunctional aminoacyl-trna synthetase [includes: glutamyl-trna synthetase (ec 6.1.1.17) (glutamate--trna ligase); prolyl-trna synthetase (ec 6.1.1.15) (proline--trna ligase)]. [swissprot;acc:p07814] 1209 5420.87 1.08609 5887.53
bifunctional purine biosynthesis protein purh [includes: phosphoribosylaminoimidazolecarboxamide formyltransferase (ec 2.1.2.3) (aicar transformylase); imp cyclohydrolase (ec 3.5.4.10) (inosinicase) (imp synthetase) (atic)]. [swissprot;acc:p31939] 2462 5114.15 1.03105 5272.92
bile acid coenzyme a: amino acid n-acyltransferase; glycine n-choloyltransferase. [refseq;acc:nm_001701] 1980 5830.46 1.05939 6176.71
biotin--protein ligase (ec 6.3.4.-) (biotin apo-protein ligase) [includes: biotin--[methylmalonyl-coa-carboxyltransferase] ligase (ec 6.3.4.9); biotin--[propionyl-coa-carboxylase [atp-hydrolyzing]] ligase (ec 6.3.4.10) (holocarboxylase synthetase) (hcs); biotin--[methylcrotonoyl-coa-carboxylase] ligase (ec 6.3.4.11); biotin--[acetyl-coa-carboxylase] ligase (ec 6.3.4.15)]. [swissprot;acc:p50747] 846 5607.43 1.10478 6194.98
block 23. [sptrembl;acc:q8nhw5] 0 293 1943.32 1.11127 2159.55
1 2260 5150.14 1.04615 5387.84
block of proliferation 1. [swissprot;acc:q14137] 470 3796.24 1.1455 4348.59
blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] 0 184 375.07 1.22281 306.727
185 375.322 306.933
1 2270 6568.41 1.0459 6869.9
2272 6568.51 1.04589 6869.97

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/