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 Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 4958 to 5007 of 29840 in total
Interaction Map  : High confidence
Rank
description
Value Type
Network Comparison Type
Filtered
red
green
network_comparison
310 spectrin beta chain, brain 4 (spectrin, non-erythroid beta chain 4) (beta-v spectrin) (bspecv). [swissprot;acc:q9nrc6] Squared Divided 0 36765.6 31220.1 1.17763
spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834] Rooted Subtracted 1 56.9506 64.7888 7.8382
squamous cell carcinoma antigen recognized by t cells 1; u4/u6.u5 tri-snrnp-associated 110 kda protein; ige autoantigen; sart1(259) protein; sart1(800) protein. [refseq;acc:nm_005146] Measured Divided 4909.79 5878.79 1.19736
311 1-acyl-sn-glycerol-3-phosphate acyltransferase delta (ec 2.3.1.51) (1- agp acyltransferase 4) (1-agpat 4) (lysophosphatidic acid acyltransferase-delta) (lpaat-delta) (1-acylglycerol-3-phosphate o- acyltransferase 4). [swissprot;acc:q9nrz5] Squared 30566.4 38866.5 1.27154
40s ribosomal protein s28. [swissprot;acc:p25112] Subtracted 30682.9 38183.6 7500.7
60s ribosomal protein l23 (l17). [swissprot;acc:p23131] Ranked Divided 0 10253.5 9622.45 1.06558
amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410] Measured Subtracted 1 2820.51 3897.1 1076.59
atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [swissprot;acc:o76031] Squared Divided 0 1326.34 1126.71 1.17718
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] Subtracted 122.543 53.9854 68.5576
glycine receptor alpha-3 chain precursor. [swissprot;acc:o75311] Measured 470.251 384.733 85.518
histone h2b. [refseq;acc:nm_175055] Rooted 29.6319 31.1848 1.5529
melanoma antigen, family b, 6. [refseq;acc:nm_173523] Ranked 1 88.2482 110.265 22.0168
melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] 0 16321 15577 744
myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623] Rooted Divided 1 95.0526 85.3206 1.11406
protein translation factor sui1 homolog gc20. [swissprot;acc:o60739] Ranked 242.627 267.151 1.10108
ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713] Rooted Subtracted 62.3337 70.0738 7.7401
segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997] Measured Divided 4981.52 5964.58 1.19734
sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] Rooted 0 31.7744 33.8609 1.06567
transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653] Measured 3117.17 2833.94 1.09994
312 60s ribosomal protein l3-like. [swissprot;acc:q92901] Ranked 1 242.195 266.663 1.10103
adenine phosphoribosyltransferase (ec 2.4.2.7) (aprt). [swissprot;acc:p07741] Rooted 0 25.2821 26.9306 1.0652
axonemal dynein light intermediate polypeptide 1 (inner dynein arm light chain, axonemal) (hp28). [swissprot;acc:o14645] Squared Subtracted 1 33044.3 40524.8 7480.5
dyskerin (nucleolar protein nap57) (cbf5 homolog). [swissprot;acc:o60832] Measured Divided 0 3455.43 3800.29 1.0998
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] Ranked 11959.8 12731.1 1.06449
histone h2b.e (h2b/e). [swissprot;acc:q99879] Rooted Subtracted 29.632 31.1848 1.5528
likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033] Measured 287.903 372.961 85.058
max protein. [swissprot;acc:p25912] 1 4640.26 5704.87 1064.61
melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] Ranked 0 16321 15577 744
melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] 1 88.2482 110.265 22.0168
methyltransferase like 2. [refseq;acc:nm_018396] Squared Divided 71576.8 56326.7 1.27074
myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535] Rooted 95.0526 85.3206 1.11406
nostrin. [refseq;acc:nm_052946] Subtracted 59.6399 51.9242 7.7157
tigger transposable element derived 6. [refseq;acc:nm_030953] Squared 0 14.8773 83.3977 68.5204
u6 snrna-associated sm-like protein lsm7. [swissprot;acc:q9uk45] Measured Divided 1 4598.21 5500.48 1.19622
ubiquitous tropomodulin (u-tmod) (tropomodulin 3). [swissprot;acc:q9nyl9] Squared 0 25325.5 29804.9 1.17687
313 60s acidic ribosomal protein p1. [swissprot;acc:p05386] Measured 6131.07 6739.34 1.09921
60s ribosomal protein l18a. [swissprot;acc:q02543] Subtracted 2688.7 2604.71 83.99
cytoplasmic dynein light chain (t-complex testis-specific protein 1 homolog) (protein cw-1). [swissprot;acc:q15763] Squared Divided 1 71576.8 56326.7 1.27074
eap30 subunit of ell complex. [refseq;acc:nm_007241] Rooted Subtracted 59.6399 51.9242 7.7157
estradiol 17 beta-dehydrogenase 1 (ec 1.1.1.62) (17-beta-hsd 1) (placental 17-beta-hydroxysteroid dehydrogenase) (20 alpha- hydroxysteroid dehydrogenase) (20-alpha-hsd) (e2dh). [swissprot;acc:p14061] Divided 0 25.2821 26.9306 1.0652
fibulin-2 precursor. [swissprot;acc:p98095] Squared Subtracted 1 45189.6 52666.2 7476.6
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] Ranked Divided 0 11935.6 12698.9 1.06395
histone h2b.c (h2b/c). [swissprot;acc:q99880] Rooted Subtracted 29.633 31.1851 1.5521
melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] Ranked 16321 15577 744
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] 1 88.2482 110.265 22.0168
myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2] Rooted Divided 95.0526 85.3206 1.11406
protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236] Measured 21644.2 18098.7 1.1959
ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713] Ranked 232.473 211.207 1.10069
sorting nexin 9 (sh3 and px domain-containing protein 1) (sdp1 protein). [swissprot;acc:q9y5x1] Squared 0 25325.5 29804.9 1.17687
tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208] Subtracted 14.8569 83.2781 68.4212

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/