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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Rank Value Type Gene Interaction Map Network Comparison Type green description network_comparison Filtered red
Results: HTML CSV LaTeX Showing element 601 to 650 of 19268 in total
Value Type  : Ranked
Rank
Interaction Map
Network Comparison Type
green
description
network_comparison
Filtered
red
76 High confidence Divided 362 db83 protein. [swissprot;acc:p57088] 1.25694 1 288
2695 spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813] 1.28905 0 3474
Subtracted 202.668 voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359] 52.025 1 254.693
17069.5 enigma protein; lim domain protein. [refseq;acc:nm_005451] 2593.3 0 14476.2
Low confidence Divided 226.86 nipsnap1 protein. [swissprot;acc:q9bpw8] 1.10017 1 249.584
12345.3 ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] 1.23945 0 9960.27
Subtracted 208.077 diacylglycerol kinase, eta isoform 1. [refseq;acc:nm_152910] 18.904 1 226.981
15320 dok-like protein. [refseq;acc:nm_024872] 2641.5 0 12678.5
77 High confidence Divided 202.668 voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [swissprot;acc:q9y698] 1.2567 1 254.692
11366.5 regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754] 1.28853 0 8821.32
Subtracted 202.668 voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [swissprot;acc:q9y698] 52.024 1 254.692
11350 nanos (fragment). [sptrembl;acc:q8wy41] 2568 0 8782
Low confidence Divided 215.424 putative adenosylhomocysteinase 3 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:q96hn2] 1.09994 1 195.851
13871.6 adenosine deaminase (ec 3.5.4.4) (adenosine aminohydrolase). [swissprot;acc:p00813] 1.23278 0 11252.3
Subtracted 208.077 diacylglycerol kinase, delta (ec 2.7.1.107) (diglyceride kinase) (dgk-delta) (dag kinase delta) (130 kda diacylglycerol kinase) (fragment). [swissprot;acc:q16760] 18.904 1 226.981
11915.2 dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7] 2633.3 0 14548.5
78 High confidence Divided 202.668 voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [swissprot;acc:q8wxs5] 1.2567 1 254.693
9706.12 repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273] 1.27969 0 7584.72
Subtracted 202.668 voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1] 52.023 1 254.691
10406.3 e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409] 2552.63 0 7853.67
Low confidence Divided 231.635 malignant cell expression-enhanced gene/tumor progression-enhanc. [refseq;acc:nm_024298] 1.0978 1 211
13236 histone-lysine n-methyltransferase, h3 lysine-79 specific (ec 2.1.1.43) (histone h3-k79 methyltransferase) (h3-k79-hmtase) (dot1-like protein). [swissprot;acc:q8tek3] 1.23114 0 10751
Subtracted 215.309 dna fragmentation factor 40 kda subunit (ec 3.-.-.-) (dff-40) (caspase-activated deoxyribonuclease) (caspase-activated dnase) (cad) (caspase-activated nuclease) (cpan). [swissprot;acc:o76075] 18.613 1 233.922
13871.6 adenosine deaminase (ec 3.5.4.4) (adenosine aminohydrolase). [swissprot;acc:p00813] 2619.3 0 11252.3
79 High confidence Divided 202.668 voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359] 1.2567 1 254.693
12106.5 nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [swissprot;acc:q9h1b4] 1.27901 0 9465.55
Subtracted 202.646 voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02] 51.968 1 254.614
11366.5 regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754] 2545.18 0 8821.32
Low confidence Divided 208.803 amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410] 1.09742 1 229.144
17020.5 melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] 1.23109 0 13825.5
Subtracted 228.84 dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552] 18.494 1 247.334
12392 latrophilin 2; lectomedin-1; latrophilin homolog 2 (cow). [refseq;acc:nm_012302] 2536 0 9856
80 High confidence Divided 202.668 voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1] 1.25669 1 254.691
11617.9 deltex homolog 1; hdx-1. [refseq;acc:nm_004416] 1.27636 0 9102.34
Subtracted 242.562 son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583] 51.491 1 294.053
11617.9 deltex homolog 1; hdx-1. [refseq;acc:nm_004416] 2515.56 0 9102.34
Low confidence Divided 202.005 rad50-interacting protein 1. [refseq;acc:nm_021930] 1.09499 1 221.194
17020.5 melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] 1.23109 0 13825.5
Subtracted 207.874 transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186] 18.464 1 226.338
16094.8 l-lactate dehydrogenase a chain (ec 1.1.1.27) (ldh-a) (ldh muscle subunit) (ldh-m). [swissprot;acc:p00338] 2491.5 0 18586.3
81 High confidence Divided 202.646 voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02] 1.25645 1 254.614
11356 selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611] 1.2736 0 14463
Subtracted 202.016 homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839] 50.355 1 252.371
10174.1 collagen alpha 5(iv) chain precursor. [swissprot;acc:p29400] 2469.4 0 7704.7
Low confidence Divided 208.281 transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188] 1.09286 1 227.623
17020.5 melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] 1.23109 0 13825.5
Subtracted 228.693 ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2] 18.394 1 247.087
13236 histone-lysine n-methyltransferase, h3 lysine-79 specific (ec 2.1.1.43) (histone h3-k79 methyltransferase) (h3-k79-hmtase) (dot1-like protein). [swissprot;acc:q8tek3] 2485 0 10751
82 High confidence Divided 335.359 guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775] 1.25304 1 267.636
6058 dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6] 1.27212 0 7706.5

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/