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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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 [...,...].
Value Type Filtered green Rank Gene Interaction Map description network_comparison red Network Comparison Type
Results: HTML CSV LaTeX Showing element 451 to 500 of 19268 in total
Value Type  : Ranked
Filtered  : 0
green
Rank
Interaction Map
description
network_comparison
red
Network Comparison Type
7562.05 28 High confidence p28 ing5. [refseq;acc:nm_032329] 1.60337 12124.8 Divided
38 4562.75 Subtracted
7586.42 438 histone h3.1 (h3/a) (h3/c) (h3/d) (h3/f) (h3/h) (h3/i) (h3/j) (h3/k) (h3/l). [swissprot;acc:p16106] 1.0228 7759.36 Divided
458 172.94 Subtracted
7597.61 15 Low confidence adenomatous polyposis coli like. [refseq;acc:nm_005883] 1.5892 12074.1 Divided
22 4476.49 Subtracted
7603 95 High confidence pp3111 protein. [refseq;acc:nm_022156] 1.22926 6185 Divided
169 1418 Subtracted
7697.5 332 myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533] 1.0556 8125.5 Divided
333 myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]
334 myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]
335 myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]
336 myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]
373 myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533] 428 Subtracted
374 myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]
375 myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]
376 myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]
377 myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]
7734.5 291 Low confidence ubiquinol-cytochrome c reductase complex 7.2 kda protein (ec 1.10.2.2) (cytochrome c1, nonheme 7 kda protein) (complex iii subunit x) (7.2 kda cytochrome c1-associated protein subunit) (hspc119). [swissprot;acc:q9udw1] 1.1233 6885.5 Divided
318 849 Subtracted
7759.61 272 High confidence sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772] 1.08321 7163.55 Divided
339 596.06 Subtracted
7790.78 445 histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351] 1.02237 7965.06 Divided
446 dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9]
456 histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351] 174.28 Subtracted
457 dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9]
7797.69 154 Low confidence transcription factor e2f2 (e2f-2). [swissprot;acc:q14209] 1.14504 6809.95 Divided
265 987.74 Subtracted
7863.63 148 High confidence spectrin beta chain, brain 4 (spectrin, non-erythroid beta chain 4) (beta-v spectrin) (bspecv). [swissprot;acc:q9nrc6] 1.164 6755.71 Divided
226 1107.92 Subtracted
7867 22 Low confidence cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [swissprot;acc:q9ubr2] 1.46371 11515 Divided
33 3648 Subtracted
7868 104 High confidence prefoldin subunit 3 (von hippel-lindau binding protein 1) (vhl binding protein-1) (vbp-1) (hibbj46). [swissprot;acc:q15765] 1.21314 9545 Divided
143 1677 Subtracted
7869.25 57 Low confidence testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562] 1.30622 10279 Divided
86 2409.75 Subtracted
7870.3 200 High confidence peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570] 1.11644 8786.74 Divided
263 916.44 Subtracted
7893.05 134 Low confidence sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] 1.1669 9210.38 Divided
184 1317.33 Subtracted
7918.04 654 dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692] 1.02377 7734.23 Divided
708 183.81 Subtracted
7957.08 529 peroxisomal acyl-coenzyme a thioester hydrolase 2a (ec 3.1.2.2) (peroxisomal long-chain acyl-coa thioesterase 2) (zap128). [swissprot;acc:p49753] 1.05139 8366.02 Divided
596 408.94 Subtracted
7991.74 594 versican core protein precursor (large fibroblast proteoglycan) (chondroitin sulfate proteoglycan core protein 2) (pg-m) (glial hyaluronate-binding protein) (ghap). [swissprot;acc:p13611] 1.03942 8306.79 Divided
626 315.05 Subtracted
7997.65 593 hyaluronan and proteoglycan link protein 3. [refseq;acc:nm_178232] 1.0395 8313.58 Divided
625 315.93 Subtracted
7998 592 transmembrane 6 superfamily member 2 (fragment). [swissprot;acc:q9bzw4] 1.03951 8313.99 Divided
624 315.99 Subtracted

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/