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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Rank Gene Value Type description Network Comparison Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 1001 to 1050 of 8289 in total
Value Type  : Measured
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
green
red
network_comparison
501 dpy-30-like protein. [swissprot;acc:q9c005] Low confidence 8430.24 8037.92 1.04881
glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [swissprot;acc:q99259] High confidence 4093.05 4682.87 1.1441
502 ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [swissprot;acc:p23921] 7907.05 6913.6 1.1437
similar to hepatocellular carcinoma-associated antigen hca557b. [refseq;acc:nm_145280] Low confidence 9279.83 8847.94 1.04881
503 hepatocellularcarcinoma-associated antigen hca557a. [refseq;acc:nm_015433]
tumor suppressor p53-binding protein 2 (p53-binding protein 2) (53bp2) (bcl2-binding protein) (bbp). [swissprot;acc:q13625] High confidence 13277.9 15182.5 1.14344
504 enoyl-coa hydratase, mitochondrial precursor (ec 4.2.1.17) (short chain enoyl-coa hydratase) (sceh) (enoyl-coa hydratase 1). [swissprot;acc:p30084] 11511 10067.9 1.14334
protein cgi-100 precursor. [swissprot;acc:q9y3a6] Low confidence 9582.26 9136.68 1.04877
505 signal transduction protein cbl-b (sh3-binding protein cbl-b). [swissprot;acc:q13191] High confidence 7838.3 6856.71 1.14316
solute carrier family 13, member 3 (sodium-dependent high-affinity dicarboxylate transporter 2) (na(+)/dicarboxylate cotransporter 3) (nadc-3) (hnadc3). [swissprot;acc:q8wwt9] Low confidence 9324.41 8890.93 1.04876
506 eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [swissprot;acc:p56537] High confidence 4450.98 3893.85 1.14308
solute carrier family 13, member 2 (renal sodium/dicarboxylate cotransporter) (na(+)/dicarboxylate cotransporter 1) (nadc-1). [swissprot;acc:q13183] Low confidence 9324.32 8890.86 1.04875
507 cbl e3 ubiquitin protein ligase (ec 6.3.2.-) (signal transduction protein cbl) (proto-oncogene c-cbl). [swissprot;acc:p22681] High confidence 7858.38 6875.08 1.14302
solute carrier family 13, member 4 (na+/sulfate cotransporter sut-1). [swissprot;acc:q9ukg4] Low confidence 9323.45 8890.11 1.04874
508 1-acyl-sn-glycerol-3-phosphate acyltransferase beta (ec 2.3.1.51) (1- agp acyltransferase 2) (1-agpat 2) (lysophosphatidic acid acyltransferase-beta) (lpaat-beta) (1-acylglycerol-3-phosphate o- acyltransferase 2). [swissprot;acc:o15120] High confidence 8636.87 7556.75 1.14293
solute carrier family 13, member 1 (renal sodium/sulfate cotransporter) (na(+)/sulfate cotransporter) (hnasi-1). [swissprot;acc:q9bzw2] Low confidence 9323.44 8890.11 1.04874
509 1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (ec 2.3.1.51) (1- agp acyltransferase 1) (1-agpat 1) (lysophosphatidic acid acyltransferase-alpha) (lpaat-alpha) (1-acylglycerol-3-phosphate o- acyltransferase 1) (g15 protein). [swissprot;acc:q99943] High confidence 8630.06 7551.8 1.14278
repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273] Low confidence 8598.12 8198.63 1.04873
510 dynein intermediate chain 1, cytosolic (dh ic-1) (cytoplasmic dynein intermediate chain 1). [swissprot;acc:o14576] 7336.04 6995.22 1.04872
growth factor receptor-bound protein 2 (grb2 adapter protein) (sh2/sh3 adapter grb2) (ash protein). [swissprot;acc:p29354] High confidence 6826.24 5975.11 1.14245
511 large neutral amino acids transporter small subunit 1 (l-type amino acid transporter 1) (4f2 light chain) (4f2 lc) (4f2lc) (cd98 light chain) (integral membrane protein e16) (hlat1). [swissprot;acc:q01650] Low confidence 8357.56 7970.13 1.04861
serine/threonine-protein kinase nek2 (ec 2.7.1.37) (nima-related protein kinase 2) (nima-like protein kinase 1) (hspk 21). [swissprot;acc:p51955] High confidence 6826.24 5975.11 1.14245
512 heterogeneous nuclear ribonucleoprotein f (hnrnp f). [swissprot;acc:p52597] Low confidence 7613.31 7260.72 1.04856
small glutamine rich protein with tetratricopeptide repeats 2. [refseq;acc:nm_019072] High confidence 12338.5 10807.4 1.14167
513 1-acyl-sn-glycerol-3-phosphate acyltransferase gamma (ec 2.3.1.51) (1- agp acyltransferase 3) (1-agpat 3) (lysophosphatidic acid acyltransferase-gamma) (lpaat-gamma) (1-acylglycerol-3-phosphate o- acyltransferase 3). [swissprot;acc:q9nrz7] 8543.66 7485.08 1.14143
pyrroline 5-carboxylate reductase isoform. [refseq;acc:nm_013328] Low confidence 8868.63 8458.7 1.04846
514 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] High confidence 8532.02 7477 1.1411
disks large-associated protein 3 (dap-3) (sap90/psd-95-associated protein 3) (sapap3) (psd-95/sap90 binding protein 3) (fragment). [swissprot;acc:o95886] Low confidence 6776.72 7104.55 1.04838
515 pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322] 8864.47 8455.54 1.04836
transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186] High confidence 4439.07 3890.53 1.14099
516 f-actin capping protein alpha-1 subunit (capz alpha-1). [swissprot;acc:p52907] Low confidence 7810.66 7450.95 1.04828
n-acetylgalactosamine kinase (ec 2.7.1.-) (galnac kinase) (galactokinase 2). [swissprot;acc:q01415] High confidence 5600.61 4910.6 1.14051
517 dynein intermediate chain 2, cytosolic (dh ic-2) (cytoplasmic dynein intermediate chain 2). [swissprot;acc:q13409] Low confidence 7349.22 7011.57 1.04816
galactose-1-phosphate uridylyltransferase (ec 2.7.7.12) (gal-1-p uridylyltransferase) (udp-glucose--hexose-1-phosphate uridylyltransferase). [swissprot;acc:p07902] High confidence 5600.61 4910.6 1.14051
518 conserved oligomeric golgi complex subunit 5 (13s golgi transport complex 90 kda subunit) (gtc-90) (golgi transport complex 1). [swissprot;acc:q9up83] Low confidence 7675.44 7322.99 1.04813
udp-glucose 4-epimerase (ec 5.1.3.2) (galactowaldenase) (udp- galactose 4-epimerase). [swissprot;acc:q14376] High confidence 5600.61 4910.6 1.14051
519 dna repair protein rad51 homolog 1 (hrad51) (hsrad51). [swissprot;acc:q06609] Low confidence 8452.01 8064.19 1.04809
glycogen [starch] synthase, muscle (ec 2.4.1.11). [swissprot;acc:p13807] High confidence 10994.9 9648.27 1.13957
520 disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6] Low confidence 6781.51 7107.45 1.04806
endo-beta-n-acetylglucosaminidase. [refseq;acc:nm_022759] High confidence 10986.4 9642.22 1.13941
521 cellular repressor of e1a-stimulated genes. [refseq;acc:nm_003851] Low confidence 6783.73 7108.79 1.04792
u4/u6-associated rna splicing factor. [refseq;acc:nm_004698] High confidence 6142.07 5390.78 1.13937
522 cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836] Low confidence 6783.88 7108.88 1.04791
glycogen [starch] synthase, liver (ec 2.4.1.11). [swissprot;acc:p54840] High confidence 10976.2 9634.98 1.1392
523 aquaporin 4 (wch4) (mercurial-insensitive water channel) (miwc). [swissprot;acc:p55087] 12117.8 10640.2 1.13887
polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195] Low confidence 8025.15 7659.62 1.04772
524 aquaporin 5. [swissprot;acc:p55064] High confidence 12117.6 10640 1.13887
disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490] Low confidence 6787.41 7111.02 1.04768
525 disks large-associated protein 4 (dap-4) (sap90/psd-95-associated protein 4) (sapap4) (psd-95/sap90 binding protein 4). [swissprot;acc:q9y2h0]
lens fiber major intrinsic protein (mip26) (mp26) (aquaporin 0). [swissprot;acc:p30301] High confidence 12117.3 10639.8 1.13887

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/