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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


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Rank Value Type Filtered Gene description Network Comparison Type Interaction Map red green network_comparison
Results: HTML CSV LaTeX Showing element 51 to 100 of 38536 in total
Network Comparison Type	Divided
Rank Value Type Filtered description Interaction Map red green network_comparison 4 Measured 1 hbs1-like. [source:refseq;acc:nm_006620] High confidence 2597.5 698.5 3.71868 4 Measured 1 lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [source:swissprot;acc:p13473] Low confidence 2399.5 543.5 4.4149 4 Ranked 0 mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [source:swissprot;acc:q9y6g3] High confidence 8906 21883 2.45711 4 Ranked 0 neurogenic locus notch homolog protein 2 precursor (notch 2) (hn2). [source:swissprot;acc:q04721] Low confidence 9607 20617 2.14604 4 Ranked 1 cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [source:swissprot;acc:q00534] Low confidence 223 330 1.47982 4 Ranked 1 cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [source:swissprot;acc:q99418] High confidence 15 28 1.86667 4 Squared 0 guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [source:swissprot;acc:q9byb4] Low confidence 0.00001 0.823905 82390.5 4 Squared 0 pyridoxine 5'-phosphate oxidase. [source:refseq;acc:nm_018129] High confidence 0.00001 2.81207 281207 4 Squared 1 hbs1-like. [source:refseq;acc:nm_006620] High confidence 1596.92 115.48 13.8285 4 Squared 1 lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [source:swissprot;acc:p13473] Low confidence 1362.75 69.9153 19.4914 4 Rooted 0 homeobox protein hox-a4 (hox-1d) (hox-1.4). [source:swissprot;acc:q00056] Low confidence 0.00001 9.43398 943398 4 Rooted 0 pyridoxine 5'-phosphate oxidase. [source:refseq;acc:nm_018129] High confidence 0.00001 10.4403 1044030 4 Rooted 1 hbs1-like. [source:refseq;acc:nm_006620] High confidence 50.9657 26.4292 1.92839 4 Rooted 1 lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [source:swissprot;acc:p13473] Low confidence 48.9847 23.3131 2.10117 5 Measured 0 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630] High confidence 0.00001 89 8900000 5 Measured 0 jumonji protein. [source:swissprot;acc:q92833] Low confidence 0.00001 17.5166 1751660 5 Measured 1 junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2] High confidence 1153.5 339.5 3.39764 5 Measured 1 oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [source:swissprot;acc:q9bzf3] Low confidence 736.5 2113.5 2.86965 5 Ranked 0 ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [source:swissprot;acc:p55855] High confidence 5510.5 11965.7 2.17144 5 Ranked 0 ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [source:swissprot;acc:o14607] Low confidence 10889.4 19873 1.82499 5 Ranked 1 cytohesin 4. [source:swissprot;acc:q9uia0] High confidence 15 28 1.86667 5 Ranked 1 lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [source:swissprot;acc:p13473] Low confidence 223 330 1.47982 5 Squared 0 carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [source:refseq;acc:nm_021615] Low confidence 0.324024 0.00001 32402.4 5 Squared 0 homeobox protein hox-c4 (hox-3e) (cp19). [source:swissprot;acc:p09017] High confidence 0.00001 1.87479 187479 5 Squared 1 junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2] High confidence 314.926 27.2805 11.544 5 Squared 1 oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [source:swissprot;acc:q9bzf3] Low confidence 128.386 1057.25 8.23493 5 Rooted 0 guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [source:swissprot;acc:q9byb4] Low confidence 0.00001 7.68115 768115 5 Rooted 0 homeobox protein hox-c4 (hox-3e) (cp19). [source:swissprot;acc:p09017] High confidence 0.00001 9.43398 943398 5 Rooted 1 junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2] High confidence 33.9632 18.4255 1.84327 5 Rooted 1 oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [source:swissprot;acc:q9bzf3] Low confidence 27.1385 45.9728 1.69401 6 Measured 0 homeobox protein hox-a4 (hox-1d) (hox-1.4). [source:swissprot;acc:q00056] High confidence 0.00001 89 8900000 6 Measured 0 homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [source:swissprot;acc:q93099] Low confidence 13 0.00001 1300000 6 Measured 1 junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39] High confidence 1153.5 339.5 3.39764 6 Measured 1 oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [source:swissprot;acc:q9h4l5] Low confidence 736.5 2113.5 2.86965 6 Ranked 0 trinucleotide repeat containing 15. [source:refseq;acc:nm_015575] Low confidence 5575.71 9583.37 1.71877 6 Ranked 0 ubiquitin protein ligase. [source:refseq;acc:nm_130466] High confidence 7523 15339.2 2.03897 6 Ranked 1 cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [source:swissprot;acc:o43739] High confidence 15 28 1.86667 6 Ranked 1 oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [source:swissprot;acc:q9bzf3] Low confidence 318 240 1.325 6 Squared 0 carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [source:refseq;acc:nm_004267] Low confidence 0.324024 0.00001 32402.4 6 Squared 0 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630] High confidence 0.00001 1.87479 187479 6 Squared 1 junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39] High confidence 314.926 27.2805 11.544 6 Squared 1 oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [source:swissprot;acc:q9h4l5] Low confidence 128.386 1057.25 8.23493 6 Rooted 0 carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [source:refseq;acc:nm_021615] Low confidence 6.08276 0.00001 608276 6 Rooted 0 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630] High confidence 0.00001 9.43398 943398 6 Rooted 1 junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39] High confidence 33.9632 18.4255 1.84327 6 Rooted 1 oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [source:swissprot;acc:q9h4l5] Low confidence 27.1385 45.9728 1.69401 7 Measured 0 sedlin. [source:swissprot;acc:o14582] High confidence 0.00001 43 4300000 7 Measured 0 tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [source:refseq;acc:nm_007063] Low confidence 2.31962 0.00001 231962 7 Measured 1 oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [source:swissprot;acc:q9bzf2] Low confidence 736.5 2113.5 2.86965 7 Measured 1 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] High confidence 1153.5 339.5 3.39764 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.

- http://analysis.yellowcouch.org/