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 Hugo Value Type Network Comparison Type Interaction Map Filtered red network_comparison green
Results: HTML CSV LaTeX Showing element 1891 to 1940 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Hugo
Network Comparison Type
red
network_comparison
green
946 dynein intermediate chain 2, cytosolic (dh ic-2) (cytoplasmic dynein intermediate chain 2). [swissprot;acc:q13409] DYNC1I2 Subtracted 225.557 7.286 218.271
histone h4. [swissprot;acc:p02304] no value Divided 227.765 1.03576 219.902
947 arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [refseq;acc:nm_021069] SORBS2 212.51 1.03567 205.191
stem cell growth factor; lymphocyte secreted c-type lectin; lymphocyte secreted c-type lectin. [refseq;acc:nm_002975] CLEC11A Subtracted 177.776 7.277 170.499
948 sprouty homolog 4 (spry-4). [swissprot;acc:q9c004] no value 225.167 7.245 217.922
target of myb protein 1. [swissprot;acc:o60784] TOM1 Divided 217.254 1.03541 209.824
949 huntingtin-associated protein-interacting protein (duo protein). [swissprot;acc:o60229] no value 217.253 1.0354 209.826
sprouty homolog 3 (spry-3). [swissprot;acc:o43610] SPRY3 Subtracted 225.167 7.245 217.922
950 dna-repair protein complementing xp-g cells (xeroderma pigmentosum group g complementing protein) (dna excision repair protein ercc-5). [swissprot;acc:p28715] ERCC5 Divided 252.873 1.03539 261.821
sprouty homolog 1 (spry-1) (fragment). [swissprot;acc:o43609] SPRY1 Subtracted 225.167 7.245 217.922
951 sprouty homolog 2 (spry-2). [swissprot;acc:o43597] SPRY2
triple functional domain protein (ptprf interacting protein). [swissprot;acc:o75962] TRIO Divided 217.253 1.03539 209.827
952 dynein intermediate chain 1, cytosolic (dh ic-1) (cytoplasmic dynein intermediate chain 1). [swissprot;acc:o14576] DYNC1I1 Subtracted 225.448 7.216 218.232
target of myb1-like 2; target of myb1 (chicken) homolog-like 2. [refseq;acc:nm_144678] TOM1L2 Divided 217.252 1.03537 209.83
953 c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596] CLEC3A Subtracted 178.033 7.213 170.82
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] EXOSC10 Divided 198.494 1.03512 205.466
954 maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708] GSTZ1 267.447 1.03487 276.773
thioredoxin-like; pkc-interacting cousin of thioredoxin. [refseq;acc:nm_006541] GLRX3 Subtracted 228.412 7.197 235.609
955 bai1-associated protein 1; ww domain-containing protein 3; atrophin-1 interacting protein 3. [refseq;acc:nm_004742] MAGI1 221.73 7.176 228.906
mitochondrial 60s ribosomal protein l27 (l27mt) (hspc250). [swissprot;acc:q9p0m9] MRPL27 Divided 231.163 1.03479 239.205
956 t-complex protein 1, alpha subunit (tcp-1-alpha) (cct-alpha). [swissprot;acc:p17987] TCP1 Subtracted 135.379 7.154 128.225
vinexin (sh3-containing adaptor molecule-1) (scam-1). [swissprot;acc:o60504] SORBS3 Divided 211.812 1.03458 204.732
957 a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [swissprot;acc:p10398] ARAF 129.913 1.03453 134.399
ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [swissprot;acc:q9nzl6] RGL1 Subtracted 168.592 7.14 161.452
958 raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [swissprot;acc:p04049] RAF1 Divided 129.921 1.03452 134.406
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] HTRA2 Subtracted 218.459 7.121 211.338
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] no value Divided 237.558 1.03431 229.677
probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105] HTRA4 Subtracted 218.461 7.118 211.343
960 probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110] HTRA3 218.462 7.117 211.345
zuotin related factor-1 (m-phase phosphoprotein 11). [swissprot;acc:q99543] ZRF1 Divided 237.558 1.03431 229.677
961 serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743] HTRA1 Subtracted 218.468 7.111 211.357
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] PPP2R5E Divided 130.066 1.0343 134.527
962 cyclin g2. [swissprot;acc:q16589] CCNG2
mitotic spindle assembly checkpoint protein mad2b (mad2-like 2) (hrev7). [swissprot;acc:q9ui95] MAD2L2 Subtracted 219.656 7.109 212.547
963 cyclin g1 (cyclin g). [swissprot;acc:p51959] CCNG1 Divided 130.066 1.0343 134.527
mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3] no value Subtracted 219.656 7.109 212.547
964 nuclear pore complex protein nup88 (nucleoporin nup88) (88 kda nuclear pore complex protein). [swissprot;acc:q99567] NUP88
serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [swissprot;acc:q15172] PPP2R5A Divided 130.066 1.0343 134.527
965 partitioning defective-6 homolog gamma (par-6 gamma) (par6d). [swissprot;acc:q9byg4] PARD6G 211.987 1.03426 204.964
tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [swissprot;acc:p05452] CLEC3B Subtracted 178.514 7.094 171.42
966 tubby protein homolog. [swissprot;acc:p50607] TUB Divided 211.987 1.03426 204.964
vinexin (sh3-containing adaptor molecule-1) (scam-1). [swissprot;acc:o60504] SORBS3 Subtracted 211.812 7.08 204.732
967 dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [swissprot;acc:q9y2s0] no value 231.277 7.079 238.356
protein kinase c, iota type (ec 2.7.1.37) (npkc-iota) (atypical protein kinase c-lamda/iota) (apkc-lambda/iota). [swissprot;acc:p41743] PRKCI Divided 211.987 1.03426 204.964
968 homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] no value Subtracted 132.413 7.024 125.389
numb protein homolog (h-numb) (protein s171). [swissprot;acc:p49757] NUMB Divided 211.987 1.03426 204.964
969 homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483] HOXB4 Subtracted 132.413 7.024 125.389
tbc1 domain family member 5. [swissprot;acc:q92609] TBC1D5 Divided 211.987 1.03426 204.964
970 homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444] HOXC5 Subtracted 132.413 7.024 125.389
tubby related protein 1 (tubby-like protein 1). [swissprot;acc:o00294] TULP1 Divided 211.987 1.03426 204.964

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
- Hugo is the HGNC identifier if it exists
- 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/