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 Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1 to 50 of 6456 in total
Value Type	Ranked
Interaction Map High confidence
Filtered 1
Rank description Network Comparison Type red green network_comparison 1 homeobox protein hlx1 (homeobox protein hb24). [source:swissprot;acc:q14774] Subtracted 215 322 107 1 putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [source:refseq;acc:nm_016172] Divided 10 24 2.4 2 hbs1-like. [source:refseq;acc:nm_006620] Subtracted 215 322 107 2 mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [source:swissprot;acc:o60476] Divided 15 28 1.86667 3 cytohesin 1 (sec7 homolog b2-1). [source:swissprot;acc:q15438] Divided 15 28 1.86667 3 rad50-interacting protein 1. [source:refseq;acc:nm_021930] Subtracted 337 232 105 4 cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [source:swissprot;acc:q99418] Divided 15 28 1.86667 4 rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [source:swissprot;acc:q9byz6] Subtracted 337 232 105 5 cytohesin 4. [source:swissprot;acc:q9uia0] Divided 15 28 1.86667 5 xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [source:refseq;acc:nm_007266] Subtracted 212 309 97 6 cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [source:swissprot;acc:o43739] Divided 15 28 1.86667 6 protein x 0004. [source:refseq;acc:nm_016301] Subtracted 212 309 97 7 homeobox protein hlx1 (homeobox protein hb24). [source:swissprot;acc:q14774] Divided 215 322 1.49767 7 protein cgi-126 (protein hspc155). [source:swissprot;acc:q9y3c8] Subtracted 288.754 212.554 76.2 8 hbs1-like. [source:refseq;acc:nm_006620] Divided 215 322 1.49767 8 junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2] Subtracted 288 362 74 9 junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39] Subtracted 288 362 74 9 xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [source:refseq;acc:nm_007266] Divided 212 309 1.45755 10 protein x 0004. [source:refseq;acc:nm_016301] Divided 212 309 1.45755 10 sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [source:swissprot;acc:o60906] Subtracted 288 362 74 11 db83 protein. [source:swissprot;acc:p57088] Subtracted 288 362 74 11 rad50-interacting protein 1. [source:refseq;acc:nm_021930] Divided 337 232 1.45259 12 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [source:swissprot;acc:o60262] Subtracted 266.856 336.233 69.377 12 rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [source:swissprot;acc:q9byz6] Divided 337 232 1.45259 13 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [source:swissprot;acc:q9ubi6] Subtracted 266.856 336.233 69.377 13 protein cgi-126 (protein hspc155). [source:swissprot;acc:q9y3c8] Divided 288.754 212.554 1.3585 14 cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [source:refseq;acc:nm_052936] Divided 56.6768 75.3531 1.32952 14 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [source:swissprot;acc:p50150] Subtracted 266.863 336.191 69.328 15 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [source:swissprot;acc:p29798] Subtracted 266.863 336.19 69.327 15 microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [source:swissprot;acc:q9gzq8] Divided 56.7244 75.3948 1.32914 16 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [source:swissprot;acc:q9uk08] Subtracted 266.864 336.184 69.32 16 microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [source:swissprot;acc:q9h492] Divided 56.7252 75.3954 1.32913 17 cysteine endopeptidase aut-like isoform b. [source:refseq;acc:nm_178326] Divided 56.7841 75.447 1.32866 17 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [source:swissprot;acc:p30670] Subtracted 266.864 336.182 69.318 18 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [source:swissprot;acc:q04446] Divided 185.678 245.247 1.32082 18 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [source:swissprot;acc:p50151] Subtracted 266.865 336.181 69.316 19 glycogen phosphorylase, brain form (ec 2.4.1.1). [source:swissprot;acc:p11216] Divided 185.678 245.247 1.32082 19 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [source:swissprot;acc:q9y3k8] Subtracted 266.865 336.178 69.313 20 glycogen phosphorylase, liver form (ec 2.4.1.1). [source:swissprot;acc:p06737] Divided 185.678 245.247 1.32082 20 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [source:swissprot;acc:p50152] Subtracted 266.868 336.159 69.291 21 gbp protein isoform a. [source:refseq;acc:nm_017870] Subtracted 325.586 256.492 69.094 21 myosin xv (unconventional myosin-15). [source:swissprot;acc:q9ukn7] Divided 185.678 245.247 1.32082 22 glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [source:swissprot;acc:p11217] Divided 185.678 245.247 1.32082 22 protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [source:refseq;acc:nm_033256] Subtracted 322 253 69 23 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [source:swissprot;acc:q9y2r5] Divided 58 44 1.31818 23 microfibril-associated glycoprotein 4 precursor. [source:swissprot;acc:p55083] Subtracted 322 253 69 24 pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [source:swissprot;acc:q8te04] Divided 58 44 1.31818 24 protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [source:refseq;acc:nm_017726] Subtracted 322 253 69 25 ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [source:swissprot;acc:q15485] Subtracted 322 253 69 25 pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [source:swissprot;acc:q9bz23] Divided 58 44 1.31818 Legend: - Rank is the rank after comparing the two networks - 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.

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