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 Gene Interaction Map Network Comparison Type description green network_comparison Filtered red
Results: HTML CSV LaTeX Showing element 501 to 550 of 19268 in total
Value Type  : Ranked
Rank
Interaction Map
Network Comparison Type
description
green
network_comparison
Filtered
red
63 Low confidence Divided 60s ribosomal protein l37a. [swissprot;acc:p12751] 15783.5 1.27551 0 12374.3
putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580] 239.902 1.10749 1 265.688
Subtracted dynamin-like 120 kda protein, mitochondrial precursor (optic atrophy 1 gene protein). [swissprot;acc:o60313] 14697.6 3061.4 0 11636.2
jun dimerization protein. [refseq;acc:nm_130469] 182.73 20.072 1 202.802
64 High confidence Divided guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] 336.159 1.25965 266.868
similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] 20387 1.33563 0 15264
Subtracted 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] 204.309 56.223 1 260.532
hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543] 11134.8 2982.25 0 8152.55
Low confidence Divided selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611] 11356 1.2736 14463
transcription factor jun-d. [swissprot;acc:p17535] 183.361 1.10552 1 202.709
Subtracted early hematopoietic zinc finger. [refseq;acc:nm_015461] 8903.28 3053.05 0 5850.23
fos-related antigen 2. [swissprot;acc:p15408] 182.961 19.832 1 202.793
65 High confidence Divided e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409] 10406.3 1.32502 0 7853.67
guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] 336.077 1.25807 1 267.136
Subtracted oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] 11453 2933.17 0 8519.83
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] 243.678 56.221 1 187.457
Low confidence Divided alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 12943.5 1.27245 0 10172.1
transcription factor jun-b. [swissprot;acc:p17275] 183.388 1.10546 1 202.728
Subtracted p28 ing5. [refseq;acc:nm_032329] 9391.47 3027.33 0 12418.8
protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] 182.974 19.818 1 202.792
66 High confidence Divided guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] 336.077 1.25807 267.136
heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174] 15180 1.32449 0 11461
Subtracted 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] 6909 2921 9830
uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48] 243.678 56.22 1 187.458
Low confidence Divided kinesin-like protein kif13b (kinesin-like protein gakin). [swissprot;acc:q9nqt8] 10030.4 1.26584 0 7923.89
mitochondrial tumor suppressor gene 1; transcription factor mtsg1; at2 receptor-interacting protein 1; erythroid differentiation-related gene. [refseq;acc:nm_020749] 200.783 1.10518 1 221.902
Subtracted blocked early in transport 1 homolog (s. cerevisiae) like; golgi snare 15 kda protein. [refseq;acc:nm_016526] 8270.5 3019.5 0 11290
fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 183.017 19.773 1 202.79
67 High confidence Divided guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087] 336.075 1.25805 267.14
presenilin enhancer 2; hematopoietic stem/progenitor cells protein mds033. [refseq;acc:nm_172341] 14291.5 1.32408 0 10793.5
Subtracted purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491] 11823.3 2890.74 8932.56
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] 243.677 56.219 1 187.458
Low confidence Divided dynamin-like 120 kda protein, mitochondrial precursor (optic atrophy 1 gene protein). [swissprot;acc:o60313] 14697.6 1.26309 0 11636.2
retinoblastoma-associated factor 600. [refseq;acc:nm_020765] 149.799 1.10505 1 165.535
Subtracted protein kinase, lysine deficient 3. [refseq;acc:nm_020922] 10324.5 2996 0 13320.5
putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865] 215.516 19.699 1 195.817
68 High confidence Divided guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086] 336.075 1.25805 267.139
purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491] 11823.3 1.32362 0 8932.56
Subtracted 40s ribosomal protein s26. [swissprot;acc:p02383] 17098 2828.3 14269.7
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] 243.673 56.211 1 187.462
Low confidence Divided 60s ribosomal protein l37a. [swissprot;acc:p12751] 217.005 1.10455 239.692
repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273] 9824.6 1.25899 0 7803.58
Subtracted fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757] 12378.5 2929.23 9449.27
potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 245.308 19.573 1 225.735
69 High confidence Divided collagen alpha 5(iv) chain precursor. [swissprot;acc:p29400] 10174.1 1.32051 0 7704.7
guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488] 336.075 1.25805 1 267.14
Subtracted elongation factor ts, mitochondrial precursor (ef-ts) (ef-tsmt). [swissprot;acc:p43897] 13464.8 2825.9 0 16290.7
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] 228.934 55.819 1 284.753
Low confidence Divided testis-specific protein tex28. [swissprot;acc:o15482] 235.017 1.10425 259.517
transcription elongation factor a protein 1 (transcription elongation factor s-ii protein 1) (transcription elongation factor tfiis.o). [swissprot;acc:p23193] 12610.3 1.25855 0 15870.7

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/