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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Gene description Rank Value Type Filtered network_comparison Network Comparison Type Interaction Map green red
Results: HTML CSV LaTeX Showing element 401 to 450 of 3730 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
description
Rank
Filtered
network_comparison
green
red
atp synthase alpha chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p25705] 1658 1 1.01443 214.826 217.925
atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539] 241 1.11785 254.15 227.357
atp synthase beta chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p06576] 1655 1.01445 215.942 219.062
atp synthase coupling factor 6, mitochondrial precursor (ec 3.6.3.14) (f6). [swissprot;acc:p18859] 2893 1 0.00001 0.00001
atp synthase coupling factor b, mitochondrial precursor. [swissprot;acc:q99766] 2022 1.00893 210.464 208.601
atp synthase delta chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p30049] 1687 1.01393 212.386 215.345
atp synthase f chain, mitochondrial (ec 3.6.3.14). [swissprot;acc:p56134] 2644 1.00119 194.328 194.097
atp synthase g chain, mitochondrial (ec 3.6.3.14) (atpase subunit g). [swissprot;acc:o75964] 2834 1 0.00001 0.00001
atp synthase gamma chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p36542] 1563 1.01648 214.739 218.277
atp synthase mitochondrial f1 complex assembly factor 2. [refseq;acc:nm_145691] 456 1.07779 226.578 210.225
atp synthase oligomycin sensitivity conferral protein, mitochondrial precursor (ec 3.6.3.14) (oscp). [swissprot;acc:p48047] 1564 1.01648 214.739 218.277
atp-binding cassette, sub-family c, member 10; multidrug resistance-associated protein 7. [refseq;acc:nm_033450] 2209 1.00645 200.413 199.129
atp-binding cassette, sub-family d, member 3 (70 kda peroxisomal membrane protein) (pmp70). [swissprot;acc:p28288] 2166 1.00673 214.481 215.925
atp-citrate synthase (ec 2.3.3.8) (atp-citrate (pro-s-)-lyase) (citrate cleavage enzyme). [swissprot;acc:p53396] 2689 1.00081 213.619 213.792
atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [swissprot;acc:o76031] 224 0 1.10413 8889.93 9815.6
1871 1 1.01081 225.228 222.819
atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [swissprot;acc:p12956] 426 0 1.02805 9676.67 9412.67
2727 1 1.00033 220.927 221.001
atp-dependent dna helicase ii, 80 kda subunit (lupus ku autoantigen protein p86) (ku86) (ku80) (86 kda subunit of ku antigen) (thyroid- lupus autoantigen) (tlaa) (ctc box binding factor 85 kda subunit) (ctcbf) (ctc85) (nuclear factor iv) (dna-repair protein xrcc5). [swissprot;acc:p13010] 2728
atp-dependent dna helicase q5 (recq protein-like 5) (recq5). [swissprot;acc:o94762] 1703 1.01363 219.024 216.079
atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [swissprot;acc:q9nvp1] 529 1.06856 235.506 251.653
atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7] 328 1.09888 235.183 258.437
atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072] 428 1.0811 234.808 253.852
atp-dependent rna helicase rok1; atp-dependent rna helicase. [refseq;acc:nm_007010] 990 1.03367 235.373 243.297
atpase inhibitor, mitochondrial precursor. [swissprot;acc:q9uii2] 1365 1.02194 223.736 228.644
atpase, h+ transporting, lysosomal 38kda, v0 subunit d isoform 2. [refseq;acc:nm_152565] 1126 1.02742 212.656 218.487
atpase, h+ transporting, lysosomal v0 subunit a isoform 4; vacuolar proton pump 116 kda accessory subunit; vacuolar proton pump, subunit 2; h(+)-transporting two-sector atpase, noncatalytic accessory protein 1b; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 1b; renal tubular acidosis; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 2 (38kd). [refseq;acc:nm_020632] 1120 1.02752 212.676 218.528
atrophin-1 (dentatorubral-pallidoluysian atrophy protein). [swissprot;acc:p54259] 1384 1.02148 213.876 218.471
atrophin-1 interacting protein 1; activin receptor interacting protein 1; likely ortholog of mouse activin receptor interacting protein 1; atrophin-1 interacting protein a; membrane associated guanylate kinase 2; activin receptor interacting p. [refseq;acc:nm_012301] 1035 1.03157 228.68 221.682
au rna-binding protein/enoyl-coenzyme a hydratase precursor; au rna-binding protein/enoyl-coenzyme a hydratase; 3-methylglutaconyl-coa hydratase; mga type i. [refseq;acc:nm_001698] 2913 1 0.00001 0.00001
autoantigen ngp-1. [swissprot;acc:q13823] 670 1.05694 236.817 250.302
autophagy protein 12-like (apg12-like). [swissprot;acc:o94817] 1729 1.01304 190.028 187.582
autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0] 1540 1.01721 236.015 240.077
axonemal dynein light intermediate polypeptide 1 (inner dynein arm light chain, axonemal) (hp28). [swissprot;acc:o14645] 2003 1.00923 206.41 208.315
b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844] 1559 1.01655 192.996 196.191
b-cell lymphoma 3-encoded protein (bcl-3 protein). [swissprot;acc:p20749] 2655 1.0011 201.667 201.445
b-cell lymphoma 6 protein (bcl-6) (zinc finger protein 51) (laz-3 protein) (bcl-5). [swissprot;acc:p41182] 1556 1.01656 192.996 196.192
b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056] 980 1.03396 134.713 130.289
b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681] 181 1.16294 267.265 229.818
ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5] 244 1.11785 254.15 227.357
ba138e2.1.2 (formin-binding protein 17 (fbp17), isoform 2). [sptrembl;acc:q96lh6] 464 1.07686 226.764 210.578
ba203i16.1 (hypothetical protein kiaa0970). [sptrembl;acc:q9h1w1] 3117 1 0.00001 0.00001
ba207c16.2 (fragment). [sptrembl;acc:q9nql7] 2599 1.00142 211.361 211.662
ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9] 307 0 1.06856 1021 1091
2148 1 1.00686 219.366 217.871
ba304i5.1 (novel lipase) (fragment). [sptrembl;acc:q96lg2] 2115 1.007 213.14 214.632
ba305p22.3 (breast carcinoma amplified sequence 4). [sptrembl;acc:q8ndy6] 931 1.03637 164.917 159.13
ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36] 452 1.07784 207.972 224.161
464 0 1.01494 9928.08 10076.4
ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] 24 1.66289 8257 13730.5

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/