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 Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1875 to 1924 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
938 sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] Subtracted 212.442 205.087 7.355
splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459] Divided 220.246 212.618 1.03588
939 breast cancer type 1 susceptibility protein. [swissprot;acc:p38398] 216.501 224.27
brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [refseq;acc:nm_020732] Subtracted 212.44 205.085 7.355
940 calcium-dependent protease, small subunit (calpain regulatory subunit) (calcium-activated neutral proteinase) (canp). [swissprot;acc:p04632] Divided 212.442 205.088 1.03586
Subtracted 7.354
941 swi/snf-related, matrix-associated, actin-dependent regulator of chromatin subfamily f member 1 (swi-snf complex protein p270) (b120). [swissprot;acc:o14497] Divided 212.437 205.083 1.03586
Subtracted 7.354
942 grancalcin. [swissprot;acc:p28676] Divided 212.442 205.088 1.03586
Subtracted 7.354
943 programmed cell death protein 6 (probable calcium-binding protein alg- 2). [swissprot;acc:o75340] 212.437 205.083
sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] Divided 212.442 205.087 1.03586
944 arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [refseq;acc:nm_021069] Subtracted 212.51 205.191 7.319
programmed cell death protein 6 (probable calcium-binding protein alg- 2). [swissprot;acc:o75340] Divided 212.437 205.083 1.03586
945 brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [refseq;acc:nm_020732] 212.44 205.085
dihydropyrimidine dehydrogenase [nadp+] precursor (ec 1.3.1.2) (dpd) (dhpdhase) (dihydrouracil dehydrogenase) (dihydrothymine dehydrogenase). [swissprot;acc:q12882] Subtracted 229.116 221.823 7.293
946 dynein intermediate chain 2, cytosolic (dh ic-2) (cytoplasmic dynein intermediate chain 2). [swissprot;acc:q13409] 225.557 218.271 7.286
histone h4. [swissprot;acc:p02304] Divided 227.765 219.902 1.03576
947 arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [refseq;acc:nm_021069] 212.51 205.191 1.03567
stem cell growth factor; lymphocyte secreted c-type lectin; lymphocyte secreted c-type lectin. [refseq;acc:nm_002975] Subtracted 177.776 170.499 7.277
948 sprouty homolog 4 (spry-4). [swissprot;acc:q9c004] 225.167 217.922 7.245
target of myb protein 1. [swissprot;acc:o60784] Divided 217.254 209.824 1.03541
949 huntingtin-associated protein-interacting protein (duo protein). [swissprot;acc:o60229] 217.253 209.826 1.0354
sprouty homolog 3 (spry-3). [swissprot;acc:o43610] Subtracted 225.167 217.922 7.245
950 dna-repair protein complementing xp-g cells (xeroderma pigmentosum group g complementing protein) (dna excision repair protein ercc-5). [swissprot;acc:p28715] Divided 252.873 261.821 1.03539
sprouty homolog 1 (spry-1) (fragment). [swissprot;acc:o43609] Subtracted 225.167 217.922 7.245
951 sprouty homolog 2 (spry-2). [swissprot;acc:o43597]
triple functional domain protein (ptprf interacting protein). [swissprot;acc:o75962] Divided 217.253 209.827 1.03539
952 dynein intermediate chain 1, cytosolic (dh ic-1) (cytoplasmic dynein intermediate chain 1). [swissprot;acc:o14576] Subtracted 225.448 218.232 7.216
target of myb1-like 2; target of myb1 (chicken) homolog-like 2. [refseq;acc:nm_144678] Divided 217.252 209.83 1.03537
953 c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596] Subtracted 178.033 170.82 7.213
polymyositis/scleroderma autoantigen 2 (autoantigen pm/scl 2) (polymyositis/scleroderma autoantigen 100 kda) (pm/scl-100) (p100 polymyositis-scleroderma overlap syndrome associated autoantigen). [swissprot;acc:q01780] Divided 198.494 205.466 1.03512
954 maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708] 267.447 276.773 1.03487
thioredoxin-like; pkc-interacting cousin of thioredoxin. [refseq;acc:nm_006541] Subtracted 228.412 235.609 7.197
955 bai1-associated protein 1; ww domain-containing protein 3; atrophin-1 interacting protein 3. [refseq;acc:nm_004742] 221.73 228.906 7.176
mitochondrial 60s ribosomal protein l27 (l27mt) (hspc250). [swissprot;acc:q9p0m9] Divided 231.163 239.205 1.03479
956 t-complex protein 1, alpha subunit (tcp-1-alpha) (cct-alpha). [swissprot;acc:p17987] Subtracted 135.379 128.225 7.154
vinexin (sh3-containing adaptor molecule-1) (scam-1). [swissprot;acc:o60504] Divided 211.812 204.732 1.03458
957 a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [swissprot;acc:p10398] 129.913 134.399 1.03453
ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [swissprot;acc:q9nzl6] Subtracted 168.592 161.452 7.14
958 raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [swissprot;acc:p04049] Divided 129.921 134.406 1.03452
serine protease htra2, mitochondrial precursor (ec 3.4.21.-) (high temperature requirement protein a2) (htra2) (omi stress-regulated endoprotease) (serine proteinase omi). [swissprot;acc:o43464] Subtracted 218.459 211.338 7.121
959 guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388] Divided 237.558 229.677 1.03431
probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105] Subtracted 218.461 211.343 7.118
960 probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110] 218.462 211.345 7.117
zuotin related factor-1 (m-phase phosphoprotein 11). [swissprot;acc:q99543] Divided 237.558 229.677 1.03431
961 serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743] Subtracted 218.468 211.357 7.111
serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, epsilon isoform (pp2a, b subunit, b' epsilon isoform) (pp2a, b subunit, b56 epsilon isoform) (pp2a, b subunit, pr61 epsilon isoform) (pp2a, b subunit, r5 epsilon isoform). [swissprot;acc:q16537] Divided 130.066 134.527 1.0343
962 cyclin g2. [swissprot;acc:q16589]
mitotic spindle assembly checkpoint protein mad2b (mad2-like 2) (hrev7). [swissprot;acc:q9ui95] Subtracted 219.656 212.547 7.109

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/