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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 680 to 729 of 3228 in total
Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
description
red
green
network_comparison
680 adenylosuccinate synthetase (ec 6.3.4.4) (imp--aspartate ligase) (adss) (ampsase). [swissprot;acc:p30520] 6503.03 7282.5 1.11986
681 ribosomal protein l24-like; 60s ribosomal protein l30 isolog; my024 protein; homolog of yeast ribosomal like protein 24. [refseq;acc:nm_016304] 7170.83 8029.64 1.11976
682 syntaxin 12. [refseq;acc:nm_177424] 5552.92 6217.59 1.1197
683 sh3-containing grb2-like protein 1 (sh3 domain protein 2b) (extra eleven-nineteen leukemia fusion gene) (een) (een fusion partner of mll). [swissprot;acc:q99961] 7139.5 7994.06 1.11969
684 eukaryotic translation initiation factor 3 subunit 9 (eif-3 eta) (eif3 p116) (eif3 p110) (eif3b). [swissprot;acc:p55884] 4359.82 4880.99 1.11954
685 metaxin 1. [swissprot;acc:q13505] 9327.58 10442.2 1.1195
686 5'-amp-activated protein kinase, gamma-1 subunit (ampk gamma-1 chain) (ampkg). [swissprot;acc:p54619] 6920.69 7747.63 1.11949
687 5'-amp-activated protein kinase, catalytic alpha-2 chain (ec 2.7.1.-) (ampk alpha-2 chain). [swissprot;acc:p54646] 6920.71 7747.65
688 5'-amp-activated protein kinase, catalytic alpha-1 chain (ec 2.7.1.-) (ampk alpha-1 chain). [swissprot;acc:q13131] 6920.67 7747.6
689 5'-amp-activated protein kinase, beta-2 subunit (ampk beta-2 chain). [swissprot;acc:o43741] 6920.69 7747.63
690 5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [swissprot;acc:q9ugi9]
691 5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478]
692 5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [swissprot;acc:q9ugj0]
693 j kappa-recombination signal binding protein (rbp-j kappa). [swissprot;acc:q06330] 7725.1 8647.74 1.11943
694 human immunodeficiency virus type i enhancer binding protein 3. [refseq;acc:nm_024503]
695 zinc finger protein 40 (human immunodeficiency virus type i enhancer- binding protein 1) (hiv-ep1) (major histocompatibility complex binding protein 1) (mbp-1) (positive regulatory domain ii binding factor 1) (prdii-bf1). [swissprot;acc:p15822]
696 human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [swissprot;acc:p31629]
697 sh3-containing grb2-like protein 2 (sh3 domain protein 2a) (endophilin 1) (een-b1). [swissprot;acc:q99962] 7105.27 7953.71 1.11941
698 armet protein precursor (arginine-rich protein). [swissprot;acc:p55145] 7101.95 7949.85 1.11939
699 histidine decarboxylase (ec 4.1.1.22) (hdc). [swissprot;acc:p19113] 7101.94 7949.84
700 40s ribosomal protein s28. [swissprot;acc:p25112] 7161.14 8015.92 1.11936
701 importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060] 7802.31 8731.82 1.11913
702 sh3-containing grb2-like protein 3 (sh3 domain protein 2c) (een-b2). [swissprot;acc:q99963] 7067.46 7909.27 1.11911
703 nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594] 6912.56 7735.12 1.11899
704 alpha-nac protein. [sptrembl;acc:q9h009] 6912.27 7734.68 1.11898
705 small gtp-binding tumor suppressor 1. [refseq;acc:nm_145173] 6912.09 7734.41 1.11897
706 di-ras2. [refseq;acc:nm_017594] 6912.08 7734.39
707 c18b11 homolog (44.9kd). [refseq;acc:nm_152260] 5317.78 5944.25 1.11781
708 z-protein (protein cgi-119) (s1r protein). [swissprot;acc:q9hc24]
709 pp1201 protein. [refseq;acc:nm_022152]
710 lifeguard; kiaa0950 protein. [refseq;acc:nm_012306]
711 sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772]
712 sterol regulatory element binding protein-1 (srebp-1) (sterol regulatory element-binding transcription factor 1). [swissprot;acc:p36956]
713 upf0202 protein kiaa1709. [swissprot;acc:q9h0a0] 3996.81 4465.61 1.11729
714 dihydropyrimidine dehydrogenase [nadp+] precursor (ec 1.3.1.2) (dpd) (dhpdhase) (dihydrouracil dehydrogenase) (dihydrothymine dehydrogenase). [swissprot;acc:q12882] 5222.71 5834.57 1.11715
715 dendritic cell protein. [refseq;acc:nm_006360] 6593.17 7364.55 1.117
716 potential carboxypeptidase-like protein x2 precursor. [swissprot;acc:q8n436]
717 carboxypeptidase n catalytic chain precursor (ec 3.4.17.3) (arginine carboxypeptidase) (kininase 1) (serum carboxypeptidase n) (scpn) (anaphylatoxin inactivator) (plasma carboxypeptidase b). [swissprot;acc:p15169]
718 cpz gene product. [refseq;acc:nm_003652]
719 carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870]
720 potential carboxypeptidase x precursor (ec 3.4.17.-) (metallocarboxypeptidase cpx-1). [swissprot;acc:q96sm3]
721 syntaxin 7. [swissprot;acc:o15400] 5580.97 6233.52 1.11692
722 histidyl-trna synthetase homolog (ec 6.1.1.21) (histidine--trna ligase homolog) (hisrs). [swissprot;acc:p49590] 8061.05 9002.33 1.11677
723 histidyl-trna synthetase (ec 6.1.1.21) (histidine--trna ligase) (hisrs). [swissprot;acc:p12081] 8056.09 8996.46 1.11673
724 phenylalanyl-trna synthetase alpha chain (ec 6.1.1.20) (phenylalanine- -trna ligase alpha chain) (phers) (cml33). [swissprot;acc:q9y285] 5384.41 6012.82 1.11671
725 phenylalanine-trna synthetase. [refseq;acc:nm_006567]
726 dna mismatch repair protein mlh3 (mutl protein homolog 3). [swissprot;acc:q9uhc1] 6327.86 7064.13 1.11635
727 60s ribosomal protein l24 (l30). [swissprot;acc:p38663] 7087.23 7911.25 1.11627
728 hcv ns3-transactivated protein 1. [refseq;acc:nm_019048] 6000.23 6696.89 1.11611
729 vacuolar atp synthase catalytic subunit a, ubiquitous isoform (ec 3.6.3.14) (v-atpase a subunit 1) (vacuolar proton pump alpha subunit 1) (v-atpase 69 kda subunit 1) (isoform va68). [swissprot;acc:p38606]

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/