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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Gene Rank Interaction Map description Value Type Network Comparison Type network_comparison red Filtered green
Results: HTML CSV LaTeX Showing element 501 to 550 of 19268 in total
Value Type  : Ranked
Rank
Interaction Map
description
Network Comparison Type
network_comparison
red
Filtered
green
63 Low confidence 60s ribosomal protein l37a. [swissprot;acc:p12751] Divided 1.27551 12374.3 0 15783.5
dynamin-like 120 kda protein, mitochondrial precursor (optic atrophy 1 gene protein). [swissprot;acc:o60313] Subtracted 3061.4 11636.2 14697.6
jun dimerization protein. [refseq;acc:nm_130469] 20.072 202.802 1 182.73
putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580] Divided 1.10749 265.688 239.902
64 High confidence ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511] Subtracted 56.223 260.532 204.309
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] Divided 1.25965 266.868 336.159
hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543] Subtracted 2982.25 8152.55 0 11134.8
similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] Divided 1.33563 15264 20387
Low confidence early hematopoietic zinc finger. [refseq;acc:nm_015461] Subtracted 3053.05 5850.23 8903.28
fos-related antigen 2. [swissprot;acc:p15408] 19.832 202.793 1 182.961
selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611] Divided 1.2736 14463 0 11356
transcription factor jun-d. [swissprot;acc:p17535] 1.10552 202.709 1 183.361
65 High confidence e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409] 1.32502 7853.67 0 10406.3
guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] 1.25807 267.136 1 336.077
oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] Subtracted 2933.17 8519.83 0 11453
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007] 56.221 187.457 1 243.678
Low confidence alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] Divided 1.27245 10172.1 0 12943.5
p28 ing5. [refseq;acc:nm_032329] Subtracted 3027.33 12418.8 9391.47
protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] 19.818 202.792 1 182.974
transcription factor jun-b. [swissprot;acc:p17275] Divided 1.10546 202.728 183.388
66 High confidence guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] 1.25807 267.136 336.077
heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174] 1.32449 11461 0 15180
nadh-ubiquinone oxidoreductase 13 kda-b subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-b) (ci-13kd-b) (complex i subunit b13). [swissprot;acc:q16718] Subtracted 2921 9830 6909
uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48] 56.22 187.458 1 243.678
Low confidence blocked early in transport 1 homolog (s. cerevisiae) like; golgi snare 15 kda protein. [refseq;acc:nm_016526] 3019.5 11290 0 8270.5
fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 19.773 202.79 1 183.017
kinesin-like protein kif13b (kinesin-like protein gakin). [swissprot;acc:q9nqt8] Divided 1.26584 7923.89 0 10030.4
mitochondrial tumor suppressor gene 1; transcription factor mtsg1; at2 receptor-interacting protein 1; erythroid differentiation-related gene. [refseq;acc:nm_020749] 1.10518 221.902 1 200.783
67 High confidence guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087] 1.25805 267.14 336.075
presenilin enhancer 2; hematopoietic stem/progenitor cells protein mds033. [refseq;acc:nm_172341] 1.32408 10793.5 0 14291.5
purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491] Subtracted 2890.74 8932.56 11823.3
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [swissprot;acc:q00005] 56.219 187.458 1 243.677
Low confidence dynamin-like 120 kda protein, mitochondrial precursor (optic atrophy 1 gene protein). [swissprot;acc:o60313] Divided 1.26309 11636.2 0 14697.6
protein kinase, lysine deficient 3. [refseq;acc:nm_020922] Subtracted 2996 13320.5 10324.5
putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865] 19.699 195.817 1 215.516
retinoblastoma-associated factor 600. [refseq;acc:nm_020765] Divided 1.10505 165.535 149.799
68 High confidence 40s ribosomal protein s26. [swissprot;acc:p02383] Subtracted 2828.3 14269.7 0 17098
guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086] Divided 1.25805 267.139 1 336.075
purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491] 1.32362 8932.56 0 11823.3
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, gamma isoform (pp2a, subunit b, b-gamma isoform) (pp2a, subunit b, b55-gamma isoform) (pp2a, subunit b, pr55-gamma isoform) (pp2a, subunit b, r2-gamma isoform) (imypno1). [swissprot;acc:q9y2t4] Subtracted 56.211 187.462 1 243.673
Low confidence 60s ribosomal protein l37a. [swissprot;acc:p12751] Divided 1.10455 239.692 217.005
fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757] Subtracted 2929.23 9449.27 0 12378.5
potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 19.573 225.735 1 245.308
repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273] Divided 1.25899 7803.58 0 9824.6
69 High confidence collagen alpha 5(iv) chain precursor. [swissprot;acc:p29400] 1.32051 7704.7 10174.1
elongation factor ts, mitochondrial precursor (ef-ts) (ef-tsmt). [swissprot;acc:p43897] Subtracted 2825.9 16290.7 13464.8
guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488] Divided 1.25805 267.14 1 336.075
nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09] Subtracted 55.819 284.753 228.934
Low confidence nadh-ubiquinone oxidoreductase 13 kda-b subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-b) (ci-13kd-b) (complex i subunit b13). [swissprot;acc:q16718] 2921 9830 0 6909
putative adenosylhomocysteinase 3 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:q96hn2] 19.573 195.851 1 215.424

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/