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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Filtered description Value Type green Rank Gene network_comparison Interaction Map red Network Comparison Type
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Network Comparison Type Divided
description Value Type green Rank network_comparison Interaction Map red 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [source:swissprot;acc:q04446] Measured 851.77 131 1.31954 Low confidence 645.504 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [source:swissprot;acc:q04446] Measured 934.348 37 2.79409 High confidence 334.401 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [source:swissprot;acc:q04446] Ranked 13590.3 629 1.02915 Low confidence 13205.3 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [source:swissprot;acc:q04446] Ranked 13895.8 242 1.09822 High confidence 15260.6 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [source:swissprot;acc:q04446] Squared 1034.13 37 10.2338 High confidence 101.05 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [source:swissprot;acc:q04446] Squared 1268.51 146 1.63527 Low confidence 775.72 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [source:swissprot;acc:q04446] Rooted 17.0804 537 1.04801 Low confidence 16.298 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [source:swissprot;acc:q04446] Rooted 18.0183 53 1.5213 High confidence 11.844 17-beta-hydroxysteroid dehydrogenase type vii-like. [source:refseq;acc:nm_182829] Measured 4869.42 778 1.00902 Low confidence 4825.89 17-beta-hydroxysteroid dehydrogenase type vii-like. [source:refseq;acc:nm_182829] Ranked 10050.9 627 1.02953 Low confidence 10347.7 17-beta-hydroxysteroid dehydrogenase type vii-like. [source:refseq;acc:nm_182829] Squared 40451 815 1.00447 Low confidence 40270.8 17-beta-hydroxysteroid dehydrogenase type vii-like. [source:refseq;acc:nm_182829] Rooted 39.5126 768 1.0106 Low confidence 39.0982 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [source:swissprot;acc:o15528] Measured 26.1599 19 11.6763 High confidence 305.45 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [source:swissprot;acc:o15528] Measured 181.734 171 1.22585 Low confidence 222.779 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [source:swissprot;acc:o15528] Ranked 14695.2 384 1.08587 Low confidence 13533.1 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [source:swissprot;acc:o15528] Ranked 18499.2 47 1.42943 High confidence 12941.7 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [source:swissprot;acc:o15528] Squared 0.344399 26 128.828 High confidence 44.3683 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [source:swissprot;acc:o15528] Squared 296.481 697 1.03806 Low confidence 307.765 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [source:swissprot;acc:o15528] Rooted 3.80565 26 3.62106 High confidence 13.7805 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [source:swissprot;acc:o15528] Rooted 9.42485 131 1.20585 Low confidence 11.365 26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [source:swissprot;acc:o75832] Measured 1609.88 771 1.01017 Low confidence 1593.68 26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [source:swissprot;acc:o75832] Measured 2642.79 451 1.01545 High confidence 2683.61 26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [source:swissprot;acc:o75832] Ranked 10806 379 1.03909 High confidence 11228.4 26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [source:swissprot;acc:o75832] Ranked 11854.2 825 1.00181 Low confidence 11832.8 26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [source:swissprot;acc:o75832] Squared 6490.54 763 1.01738 Low confidence 6603.33 26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [source:swissprot;acc:o75832] Squared 7355.46 316 1.17196 High confidence 8620.27 26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [source:swissprot;acc:o75832] Rooted 23.2445 793 1.00582 Low confidence 23.11 26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [source:swissprot;acc:o75832] Rooted 32.0298 370 1.04188 High confidence 30.7424 26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [source:swissprot;acc:o00232] Measured 2263.85 474 1.00763 High confidence 2281.12 26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [source:swissprot;acc:o00232] Measured 2331.31 785 1.00797 Low confidence 2349.9 26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [source:swissprot;acc:o00232] Ranked 11538 665 1.02285 Low confidence 11801.6 26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [source:swissprot;acc:o00232] Ranked 11748.1 495 1.00195 High confidence 11725.2 26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [source:swissprot;acc:o00232] Squared 5878.56 328 1.14785 High confidence 6747.71 26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [source:swissprot;acc:o00232] Squared 14694 591 1.07533 Low confidence 15800.9 26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [source:swissprot;acc:o00232] Rooted 26.5693 728 1.01548 Low confidence 26.1642 26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [source:swissprot;acc:o00232] Rooted 28.5146 458 1.01531 High confidence 28.0847 3 beta-hydroxysteroid dehydrogenase (fragments). [source:sptrembl;acc:q9udk8] Measured 5046.33 492 1.00159 High confidence 5038.33 3 beta-hydroxysteroid dehydrogenase (fragments). [source:sptrembl;acc:q9udk8] Measured 5046.33 822 1.00159 Low confidence 5038.33 3 beta-hydroxysteroid dehydrogenase (fragments). [source:sptrembl;acc:q9udk8] Ranked 11512.3 299 1.07178 High confidence 12338.7 3 beta-hydroxysteroid dehydrogenase (fragments). [source:sptrembl;acc:q9udk8] Ranked 11512.3 453 1.07178 Low confidence 12338.7 3 beta-hydroxysteroid dehydrogenase (fragments). [source:sptrembl;acc:q9udk8] Squared 17901.1 493 1 High confidence 17901.1 3 beta-hydroxysteroid dehydrogenase (fragments). [source:sptrembl;acc:q9udk8] Squared 17901.1 836 1 Low confidence 17901.1 3 beta-hydroxysteroid dehydrogenase (fragments). [source:sptrembl;acc:q9udk8] Rooted 44.9836 438 1.025 High confidence 43.8864 3 beta-hydroxysteroid dehydrogenase (fragments). [source:sptrembl;acc:q9udk8] Rooted 44.9836 662 1.025 Low confidence 43.8864 3-hydroxyisobutyryl-coenzyme a hydrolase. [source:refseq;acc:nm_014362] Measured 1932.95 581 1.04278 Low confidence 2015.65 3-hydroxyisobutyryl-coenzyme a hydrolase. [source:refseq;acc:nm_014362] Measured 2853.65 438 1.0252 High confidence 2925.57 3-hydroxyisobutyryl-coenzyme a hydrolase. [source:refseq;acc:nm_014362] Ranked 10466.5 327 1.05751 High confidence 9897.29 3-hydroxyisobutyryl-coenzyme a hydrolase. [source:refseq;acc:nm_014362] Ranked 11352.1 501 1.0588 Low confidence 10721.7 3-hydroxyisobutyryl-coenzyme a hydrolase. [source:refseq;acc:nm_014362] Squared 10485.1 703 1.03494 Low confidence 10851.4 3-hydroxyisobutyryl-coenzyme a hydrolase. [source:refseq;acc:nm_014362] Squared 18218.3 477 1.0074 High confidence 18353.1 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/