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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Gene Value Type description Filtered green Network Comparison Type Rank Interaction Map red network_comparison
Results: HTML CSV LaTeX Showing element 551 to 600 of 38536 in total
Value Type  : Measured
Network Comparison Type  : Divided
description
Filtered
green
Rank
Interaction Map
red
network_comparison
adapter-related protein complex 1 sigma 1b subunit (sigma-adaptin 1b) (adaptor protein complex ap-1 sigma-1b subunit) (golgi adaptor ha1/ap1 adaptin sigma-1b subunit) (clathrin assembly protein complex 1 sigma- 1b small chain) (sigma 1b subunit of ap-1 clathrin) (dc22). [swissprot;acc:p56377] 1 5865.84 2058 High confidence 5552.69 1.0564
8090.39 1553 Low confidence 7825.6 1.03384
adapter-related protein complex 1 sigma 1c subunit (sigma-adaptin 1c) (adaptor protein complex ap-1 sigma-1c subunit) (golgi adaptor ha1/ap1 adaptin sigma-1c subunit) (clathrin assembly protein complex 1 sigma- 1c small chain) (sigma 1c subunit of ap-1 clathrin). [swissprot;acc:q96pc3] 5865.84 2060 High confidence 5552.69 1.0564
8110.43 1667 Low confidence 7848.78 1.03334
adapter-related protein complex 2 alpha 1 subunit (alpha-adaptin a) (adaptor protein complex ap-2 alpha-1 subunit) (clathrin assembly protein complex 2 alpha-a large chain) (100 kda coated vesicle protein a) (plasma membrane adaptor ha2/ap2 adaptin alpha a subunit). [swissprot;acc:o95782] 0 31 412 34 1.09677
1 8038.01 351 7619.78 1.05489
adapter-related protein complex 2 alpha 2 subunit (alpha-adaptin c) (clathrin assembly protein complex 2 alpha-c large chain) (100 kda coated vesicle protein c) (plasma membrane adaptor ha2/ap2 adaptin alpha c subunit) (huntingtin-interacting protein hypj). [swissprot;acc:o94973] 348
adapter-related protein complex 2 beta 1 subunit (beta-adaptin) (plasma membrane adaptor ha2/ap2 adaptin beta subunit) (clathrin assembly protein complex 2 beta large chain) (ap105b). [swissprot;acc:p21851] 5870.11 2050 High confidence 5556.36 1.05647
8009.78 1023 Low confidence 7716.88 1.03796
adapter-related protein complex 3 beta 1 subunit (beta-adaptin 3a) (ap-3 complex beta-3a subunit) (beta-3a-adaptin). [swissprot;acc:o00203] 6916.14 2623 High confidence 6815.24 1.01481
7651.78 4176 Low confidence 7498.13 1.02049
adapter-related protein complex 3 beta 2 subunit (beta-adaptin 3b) (ap-3 complex beta-3b subunit) (beta-3b-adaptin) (neuron-specific vesicle coat protein beta-nap). [swissprot;acc:q13367] 6916.14 2625 High confidence 6815.24 1.01481
7625.01 4184 Low confidence 7472.75 1.02038
adapter-related protein complex 3 delta 1 subunit (delta-adaptin 3) (ap-3 complex delta subunit) (delta-adaptin). [swissprot;acc:o14617] 7900.23 4133 7736.95 1.0211
adapter-related protein complex 3 mu 1 subunit (mu-adaptin 3a) (ap-3 adapter complex mu3a subunit). [swissprot;acc:q9y2t2] 6695.67 2444 High confidence 6478.14 1.03358
8322.17 3897 Low confidence 8132.59 1.02331
adapter-related protein complex 3 mu 2 subunit (clathrin coat assembly protein ap47 homolog 2) (clathrin coat associated protein ap47 homolog 2) (golgi adaptor ap-1 47 kda protein homolog 2) (ha1 47 kda subunit homolog 2) (clathrin assembly protein assembly protein complex 1 medium chain homolog 2) (p47b). [swissprot;acc:p53677] 6695.58 2441 High confidence 6477.82 1.03362
8321.51 3896 Low confidence 8131.89 1.02332
adaptor protein with pleckstrin homology and src homology 2 domains. [refseq;acc:nm_020979] 0.00001 2870 High confidence 0.00001 1
8392.72 3865 Low confidence 8199.38 1.02358
adaptor-associated kinase 1. [refseq;acc:nm_014911] 6048.91 2282 High confidence 5783.73 1.04585
8358.61 2219 Low confidence 8104.37 1.03137
adaptor-related protein complex 1, mu 1 subunit (mu-adaptin 1) (adaptor protein complex ap-1 mu-1 subunit) (golgi adaptor ha1/ap1 adaptin mu-1 subunit) (clathrin assembly protein assembly protein complex 1 medium chain 1) (clathrin coat assembly protein ap47) (clathrin coat associated protein ap47) (ap-mu chain family member mu1a). [swissprot;acc:q9bxs5] 6018.72 2007 High confidence 5684.61 1.05877
8086.72 1067 Low confidence 7794.59 1.03748
adaptor-related protein complex 1, mu 2 subunit (mu-adaptin 2) (adaptor protein complex ap-1 mu-2 subunit) (golgi adaptor ha1/ap1 adaptin mu-2 subunit) (clathrin assembly protein assembly protein complex 1 medium chain 2) (ap-mu chain family member mu1b). [swissprot;acc:q9y6q5] 0 384.843 295 High confidence 426.8 1.10902
5361.78 626 Low confidence 5201.75 1.03076
1 6003.67 2010 High confidence 5671.62 1.05855
8086.18 1063 Low confidence 7793.78 1.03752
adenine phosphoribosyltransferase (ec 2.4.2.7) (aprt). [swissprot;acc:p07741] 0 1922.24 579 1842.51 1.04327
2452.23 374 High confidence 2323.8 1.05527
1 6113.96 2519 5964.17 1.02511
8442.79 2104 Low confidence 8183.03 1.03174
adenomatous polyposis coli like. [refseq;acc:nm_005883] 0 3114.19 174 2544.19 1.22404
1 6148.55 4706 6234.4 1.01396
adenomatous polyposis coli protein (apc protein). [swissprot;acc:p25054] 6148.69 4710 6233.66 1.01382
adenosine deaminase (ec 3.5.4.4) (adenosine aminohydrolase). [swissprot;acc:p00813] 0 835.57 146 1073.89 1.28522
1 8280.09 1358 8000.32 1.03497
adenosine kinase (ec 2.7.1.20) (ak) (adenosine 5'-phosphotransferase). [swissprot;acc:p55263] 6833.59 1581 High confidence 6376.12 1.07175
8392.72 2072 Low confidence 8133.86 1.03182
adenosylhomocysteinase (ec 3.3.1.1) (s-adenosyl-l-homocysteine hydrolase) (adohcyase). [swissprot;acc:p23526] 6113.35 940 High confidence 5568.96 1.09775
8272.77 3058 Low confidence 8048.72 1.02784
adenovirus 5 e1a-binding protein (bs69 protein). [swissprot;acc:q15326] 6549.03 1851 High confidence 6156.28 1.0638
8244.63 2776 Low confidence 8010.75 1.0292
adenylate cyclase, type v (ec 4.6.1.1) (atp pyrophosphate-lyase) (adenylyl cyclase) (fragment). [swissprot;acc:o95622] 4479.76 401 High confidence 5201.41 1.16109
8194.54 3159 Low confidence 7975.92 1.02741
adenylate cyclase, type vi (ec 4.6.1.1) (atp pyrophosphate-lyase) (ca(2+)-inhibitable adenylyl cyclase). [swissprot;acc:o43306] 4479.76 400 High confidence 5201.41 1.16109
8194.54 3158 Low confidence 7975.92 1.02741
adenylate kinase isoenzyme 2, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p54819] 3569.68 2385 High confidence 3716.43 1.04111
8329 4422 Low confidence 8168.38 1.01966
adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144] 0 1431.5 484 1344.45 1.06475

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/