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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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Value Type Filtered green description network_comparison Interaction Map red Gene Rank Network Comparison Type
Results: HTML CSV LaTeX Showing element 951 to 1000 of 38536 in total
Value Type  : Measured
Filtered  : 0
Network Comparison Type  : Divided
green
description
network_comparison
Interaction Map
red
Rank
2081.91 suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169] 1.10104 High confidence 1890.86 309
2082.4 forkhead box protein j1 (forkhead-related protein fkhl13) (hepatocyte nuclear factor 3 forkhead homolog 4) (hfh-4). [swissprot;acc:q92949] 1.01366 Low confidence 2110.84 735
2083.09 dead (asp-glu-ala-asp) box polypeptide 47; hqp0256 protein. [refseq;acc:nm_016355] 1.081 1927.01 445
2084.19 putative forkhead box protein kiaa1041. [swissprot;acc:q9upw0] 1.01321 2111.72 741
2084.43 splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393] 1.04523 1994.23 574
2085.71 heat shock 70 kda protein 6 (heat shock 70 kda protein b'). [swissprot;acc:p17066] 1.07814 2248.68 454
2086.58 sam-domain protein samsn-1 (sam domain, sh3 domain and nuclear localisation signals protein 1). [swissprot;acc:q9nsi8] 1.12439 1855.74 360
2091.88 integral membrane protein cii-3b. [sptrembl;acc:o75609] 1.10051 2302.14 407
2092.23 heat shock 70 kda protein 1-hom (hsp70-hom). [swissprot;acc:p34931] 1.07815 2255.73 452
2098.88 rna binding protein. [refseq;acc:nm_032509] 1.06999 1961.58 474
2105.24 alpha-amylase, salivary precursor (ec 3.2.1.1) (1,4-alpha-d-glucan glucanohydrolase). [swissprot;acc:p04745] 1.04919 2208.8 566
2118.44 protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236] 1.25858 1683.2 156
2120 erythropoietin 4 immediate early response; uncharacterized hypothalamus protein ht010. [refseq;acc:nm_018471] 1.05047 2227 562
2123.41 clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675] 1.0382 2045.28 593
2124.28 ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] 1.01976 2083.11 686
2126.4 transducin-like enhancer protein 1 (esg1). [swissprot;acc:q04724] 1.03291 2196.39 617
2133.83 ran-binding protein 2-like 1 isoform 2; sperm membrane protein bs-63; ran-binding protein 2-like 1. [refseq;acc:nm_032260] 1.03004 High confidence 2071.59 426
2134.56 1.03079 2070.81 425
2138.64 cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570] 1.06825 Low confidence 2002 478
2143.8 dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9] 1.02313 2095.34 672
histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351] 671
2147.67 histone h3.1 (h3/a) (h3/c) (h3/d) (h3/f) (h3/h) (h3/i) (h3/j) (h3/k) (h3/l). [swissprot;acc:p16106] 1.02696 2091.28 644
2155.63 heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107] 1.06327 2292.02 487
2159.55 block 23. [sptrembl;acc:q8nhw5] 1.11127 High confidence 1943.32 293
2164.92 e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409] 1.06151 2039.47 367
2171.71 microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268] 1.0148 Low confidence 2140.04 725
2173.93 prefoldin subunit 3 (von hippel-lindau binding protein 1) (vhl binding protein-1) (vbp-1) (hibbj46). [swissprot;acc:q15765] 1.05254 2065.42 551
2179.77 similar to ribosomal protein, large, p0. [sptrembl;acc:q96fq9] 1.11151 High confidence 1961.09 291
2192.97 zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623] 1.05582 Low confidence 2077.04 521
2194.28 40s ribosomal protein s12. [swissprot;acc:p25398] 1.025 2140.77 661
2194.52 arp2/3 complex 41 kda subunit (p41-arc) (actin-related protein 2/3 complex subunit 1b). [swissprot;acc:o15143] 1.07624 High confidence 2039.07 337
2194.81 pms1 protein homolog 2 (dna mismatch repair protein pms2). [swissprot;acc:p54278] 1.11694 Low confidence 2451.47 371
2202 voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02] 1.1296 High confidence 1949.36 260
2202.68 udp-glucuronosyltransferase 2b17 precursor, microsomal (ec 2.4.1.17) (udpgt) (c19-steroid specific udp-glucuronosyltransferase). [swissprot;acc:o75795] 1.02832 Low confidence 2142.01 638
2206.07 60s ribosomal protein l7. [swissprot;acc:p18124] 1.15183 High confidence 1915.27 224
2206.08 udp-glucuronosyltransferase 2b15 precursor, microsomal (ec 2.4.1.17) (udpgt) (udpgth-3) (hlug4). [swissprot;acc:p54855] 1.0285 Low confidence 2144.94 636
2208.1 fos-related antigen 2. [swissprot;acc:p15408] 1.46454 High confidence 3233.86 105
2217.3 40s ribosomal protein s29. [swissprot;acc:p30054] 1.12795 Low confidence 1965.77 356
2218.51 histone h2b.q (h2b/q) (h2b-gl105). [swissprot;acc:q16778] 1.04086 High confidence 2131.42 393
2218.58 histone h2b.d (h2b/d). [swissprot;acc:q99877] 1.04084 2131.52 394
2218.82 histone h2b.s (h2b/s). [swissprot;acc:p57053] 1.04081 2131.83 395
2218.89 histone h2b. [refseq;acc:nm_175055] 1.0408 2131.91 396
2218.9 histone h2b.e (h2b/e). [swissprot;acc:q99879] 1.04079 2131.93 397
2218.98 histone h2b.c (h2b/c). [swissprot;acc:q99880] 1.04078 2132.04 398
2220.68 hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [swissprot;acc:p46597] 1.06988 2075.64 344
2227.75 protein disulfide isomerase precursor (pdi) (ec 5.3.4.1) (prolyl 4- hydroxylase beta subunit) (cellular thyroid hormone binding protein) (p55). [swissprot;acc:p07237] 1.0545 Low confidence 2112.62 540
2238.85 glycogenin-2 (ec 2.4.1.186) (gn-2) (gn2). [swissprot;acc:o15488] 1.04688 2138.59 570
2241.22 testis-specific chromodomain y protein 1. [swissprot;acc:q9y6f8] 1.1284 2528.99 353
2241.49 testis-specific chromodomain protein y protein 2. [swissprot;acc:q9y6f7] 1.12837 2529.23 354
2243.69 p28 ing5. [refseq;acc:nm_032329] 1.13707 High confidence 2551.23 237

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.
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