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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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 [...,...].
Rank description Gene Hugo Network Comparison Type Value Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 873 to 922 of 16578 in total
Value Type  : Ranked
Filtered  : 1
Rank
description
Hugo
Network Comparison Type
Interaction Map
red
green
network_comparison
219 40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] no value Subtracted High confidence 242.339 266.986 24.647
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] NFYA Low confidence 214.032 204.284 9.748
myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055] MYH3 Divided High confidence 112 126 1.125
transcription regulator protein bach1 (btb and cnc homolog 1) (ha2303). [swissprot;acc:o14867] BACH1 Low confidence 172.647 164.44 1.04991
220 mitochondrial ribosomal protein l2. [refseq;acc:nm_015950] MRPL2 Subtracted High confidence 242.339 266.986 24.647
myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882] MYH1 Divided 112 126 1.125
nuclear factor erythroid 2 related factor 2 (nf-e2 related factor 2) (nfe2-related factor 2) (nuclear factor, erythroid derived 2, like 2) (hebp1). [swissprot;acc:q16236] NFE2L2 Low confidence 172.647 164.44 1.04991
toll-like receptor 2 precursor (toll/interleukin 1 receptor-like protein 4). [swissprot;acc:o60603] TLR2 Subtracted 207.926 198.276 9.65
221 myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883] no value Divided High confidence 112 126 1.125
protein translation factor sui1 homolog gc20. [swissprot;acc:o60739] EIF1B Subtracted 242.627 267.151 24.524
ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464] no value Low confidence 189.373 179.829 9.544
transcription regulator protein bach2 (btb and cnc homolog 2). [swissprot;acc:q9byv9] BACH2 Divided 172.647 164.44 1.04991
222 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] no value Subtracted High confidence 242.153 266.673 24.52
dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430] MYH7B Divided 112 126 1.125
peripheral plasma membrane protein cask (ec 2.7.1.-) (hcask) (calcium/calmodulin-dependent serine protein kinase) (lin-2 homolog). [swissprot;acc:o14936] CASK Subtracted Low confidence 212.056 202.524 9.532
ubiquitin-conjugating enzyme e2 e1 (ec 6.3.2.19) (ubiquitin-protein ligase e1) (ubiquitin carrier protein e1) (ubch6). [swissprot;acc:p51965] UBE2E1 Divided 203.935 214.089 1.04979
223 general transcription factor iiic, polypeptide 3, 102kda; general transcription factor iiic, polypeptide 3 (102kd); transcription factor iiic, 102 kd. [refseq;acc:nm_012086] GTF3C3 217.228 206.926
myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3] MYH13 High confidence 112 126 1.125
serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4] SRR Subtracted 242.153 266.673 24.52
single-minded homolog 1. [swissprot;acc:p81133] SIM1 Low confidence 212.056 202.524 9.532
224 60s ribosomal protein l34. [swissprot;acc:p49207] RPL34 High confidence 242.153 266.673 24.52
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] NFYC Low confidence 209.649 200.129 9.52
oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [swissprot;acc:q16348] SLC15A2 Divided High confidence 185.969 165.623 1.12285
ubiquitin-conjugating enzyme e2e 3; ubiquitin carrier protein; ubiquitin-protein ligase. [refseq;acc:nm_006357] UBE2E4P Low confidence 203.933 214.059 1.04965
225 ankyrin repeat domain protein 7 (testis-specific protein tsa806). [swissprot;acc:q92527] ANKRD7 Subtracted 216.855 207.34 9.515
oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [swissprot;acc:p46059] SLC15A1 Divided 201.41 191.974 1.04915
protein transport protein sec61 alpha subunit isoform 2 (sec61 alpha- 2). [swissprot;acc:q9y2r3] SEC61A2 Subtracted High confidence 242.153 266.673 24.52
small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] SNRPD2 Divided 226.471 201.769 1.12243
226 ba526d8.2 (novel protein similar to kiaa1074). [sptrembl;acc:q9h560] ANKRD19 Subtracted Low confidence 216.845 207.333 9.512
cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747] COMP Divided High confidence 239.991 269.238 1.12187
lymphoid enhancer binding factor 1 (lef-1) (t cell-specific transcription factor 1-alpha) (tcf1-alpha). [swissprot;acc:q9uju2] LEF1 Low confidence 208.289 198.538 1.04911
protein transport protein sec61 alpha subunit isoform 1 (sec61 alpha- 1). [swissprot;acc:p38378] SEC61A1 Subtracted High confidence 242.153 266.673 24.52
227 breast cancer antigen ny-br-1. [refseq;acc:nm_052997] ANKRD30A Low confidence 216.842 207.332 9.51
c1 domain-containing phosphatase and tensin-like protein isoform 2; putative protein tyrosine phosphatase; c1 domain-containing phosphatase and tensin-like protein; tensin 2. [refseq;acc:nm_015319] TENC1 Divided 216.404 206.277 1.04909
methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [swissprot;acc:p53582] METAP1 Subtracted High confidence 244.126 268.604 24.478
thrombospondin 3 precursor. [swissprot;acc:p49746] THBS3 Divided 239.99 269.234 1.12186
228 methionine aminopeptidase 2 (ec 3.4.11.18) (metap 2) (peptidase m 2) (initiation factor 2 associated 67 kda glycoprotein) (p67) (p67eif2). [swissprot;acc:p50579] METAP2 Subtracted 244.126 268.604 24.478
ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424] RPS6KC1 Low confidence 189.45 179.944 9.506
sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489] SH2D3C Divided High confidence 226.411 202.088 1.12036
u1 small nuclear ribonucleoprotein a (u1 snrnp a protein). [swissprot;acc:p09012] SNRPA Low confidence 202.727 193.31 1.04871
229 60s ribosomal protein l3-like. [swissprot;acc:q92901] RPL3L Subtracted High confidence 242.195 266.663 24.468
breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567] BCAR3 Divided 226.401 202.094 1.12028
sodium/hydrogen exchanger 6 (na(+)/h(+) exchanger 6) (nhe-6). [swissprot;acc:q92581] no value Subtracted Low confidence 216.546 207.063 9.483
toll-like receptor 2 precursor (toll/interleukin 1 receptor-like protein 4). [swissprot;acc:o60603] TLR2 Divided 207.926 198.276 1.04867
230 cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291] CSRP1 High confidence 239.35 267.915 1.11934
jm1 protein. [refseq;acc:nm_014008] CCDC22 Low confidence 216.308 206.292 1.04855
protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567] EIF1 Subtracted High confidence 242.694 267.017 24.323
senescence downregulated leo1-like. [refseq;acc:nm_138792] LEO1 Low confidence 216.546 207.063 9.483
231 likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745] SHCBP1 Divided High confidence 239.336 267.881 1.11927
mitochondrial import inner membrane translocase subunit tim23. [swissprot;acc:o14925] TIMM23 Low confidence 220.722 210.645 1.04784

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/