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.


Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Value Type Rank Filtered description Gene green Network Comparison Type Interaction Map network_comparison red
Results: HTML CSV LaTeX Showing element 501 to 550 of 19268 in total
Value Type  : Ranked
Rank
Filtered
description
green
Network Comparison Type
Interaction Map
network_comparison
red
63 1 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] 336.178 Divided High confidence 1.25973 266.865
jun dimerization protein. [refseq;acc:nm_130469] 182.73 Subtracted Low confidence 20.072 202.802
nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952] 204.309 High confidence 56.223 260.532
putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580] 239.902 Divided Low confidence 1.10749 265.688
64 0 early hematopoietic zinc finger. [refseq;acc:nm_015461] 8903.28 Subtracted 3053.05 5850.23
hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543] 11134.8 High confidence 2982.25 8152.55
selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611] 11356 Divided Low confidence 1.2736 14463
similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] 20387 High confidence 1.33563 15264
1 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 Subtracted 56.223 260.532
fos-related antigen 2. [swissprot;acc:p15408] 182.961 Low confidence 19.832 202.793
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] 336.159 Divided High confidence 1.25965 266.868
transcription factor jun-d. [swissprot;acc:p17535] 183.361 Low confidence 1.10552 202.709
65 0 alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 12943.5 1.27245 10172.1
e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409] 10406.3 High confidence 1.32502 7853.67
oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] 11453 Subtracted 2933.17 8519.83
p28 ing5. [refseq;acc:nm_032329] 9391.47 Low confidence 3027.33 12418.8
1 guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] 336.077 Divided High confidence 1.25807 267.136
protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] 182.974 Subtracted Low confidence 19.818 202.792
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 High confidence 56.221 187.457
transcription factor jun-b. [swissprot;acc:p17275] 183.388 Divided Low confidence 1.10546 202.728
66 0 blocked early in transport 1 homolog (s. cerevisiae) like; golgi snare 15 kda protein. [refseq;acc:nm_016526] 8270.5 Subtracted 3019.5 11290
heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174] 15180 Divided High confidence 1.32449 11461
kinesin-like protein kif13b (kinesin-like protein gakin). [swissprot;acc:q9nqt8] 10030.4 Low confidence 1.26584 7923.89
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 Subtracted High confidence 2921 9830
1 fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 183.017 Low confidence 19.773 202.79
guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] 336.077 Divided High confidence 1.25807 267.136
mitochondrial tumor suppressor gene 1; transcription factor mtsg1; at2 receptor-interacting protein 1; erythroid differentiation-related gene. [refseq;acc:nm_020749] 200.783 Low confidence 1.10518 221.902
uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48] 243.678 Subtracted High confidence 56.22 187.458
67 0 dynamin-like 120 kda protein, mitochondrial precursor (optic atrophy 1 gene protein). [swissprot;acc:o60313] 14697.6 Divided Low confidence 1.26309 11636.2
presenilin enhancer 2; hematopoietic stem/progenitor cells protein mds033. [refseq;acc:nm_172341] 14291.5 High confidence 1.32408 10793.5
protein kinase, lysine deficient 3. [refseq;acc:nm_020922] 10324.5 Subtracted Low confidence 2996 13320.5
purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491] 11823.3 High confidence 2890.74 8932.56
1 guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087] 336.075 Divided 1.25805 267.14
putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865] 215.516 Subtracted Low confidence 19.699 195.817
retinoblastoma-associated factor 600. [refseq;acc:nm_020765] 149.799 Divided 1.10505 165.535
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 Subtracted High confidence 56.219 187.458
68 0 40s ribosomal protein s26. [swissprot;acc:p02383] 17098 2828.3 14269.7
fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757] 12378.5 Low confidence 2929.23 9449.27
purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491] 11823.3 Divided High confidence 1.32362 8932.56
repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273] 9824.6 Low confidence 1.25899 7803.58
1 60s ribosomal protein l37a. [swissprot;acc:p12751] 217.005 1.10455 239.692
guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086] 336.075 High confidence 1.25805 267.139
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 Subtracted Low confidence 19.573 225.735
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 High confidence 56.211 187.462
69 0 collagen alpha 5(iv) chain precursor. [swissprot;acc:p29400] 10174.1 Divided 1.32051 7704.7
elongation factor ts, mitochondrial precursor (ef-ts) (ef-tsmt). [swissprot;acc:p43897] 13464.8 Subtracted 2825.9 16290.7
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 Low confidence 2921 9830
transcription elongation factor a protein 1 (transcription elongation factor s-ii protein 1) (transcription elongation factor tfiis.o). [swissprot;acc:p23193] 12610.3 Divided 1.25855 15870.7
1 guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488] 336.075 High confidence 1.25805 267.14
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 Subtracted 55.819 284.753

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/