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 Hugo Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 351 to 400 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
Value Type
description
red
green
network_comparison
88 KCND2 Measured potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 2411.93 1695.45 1.42259
PSEN2 Rooted presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810] 37.3005 48.4141 1.29795
89 CTH Measured cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929] 2414.22 1698.12 1.4217
HRAS Squared transforming protein p21/h-ras-1 (c-h-ras). [swissprot;acc:p01112] 105473 64132.3 1.64462
MAGEA6 Ranked melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] 88.2482 110.265 1.24949
SKP1A Rooted s-phase kinase-associated protein 1a (cyclin a/cdk2-associated protein p19) (p19a) (p19skp1) (rna polymerase ii elongation factor-like protein) (organ of corti protein 2) (ocp-ii protein) (ocp-2) (transcription elongation factor b) (siii). [swissprot;acc:p34991] 37.3005 48.4141 1.29795
90 no value Squared transforming protein n-ras. [swissprot;acc:p01111] 105469 64130.2 1.64461
FBXW7 Rooted f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315] 37.3005 48.4141 1.29795
KCND3 Measured potassium voltage-gated channel, shal-related subfamily, member 3 isoform 1; sha1-related potassium channel kv4.3; voltage-gated k+ channel; potassium ionic channel kv4.3; voltage-gated potassium channel kv4.3. [refseq;acc:nm_004980] 2414.77 1698.75 1.4215
NDN Ranked necdin. [swissprot;acc:q99608] 88.2482 110.265 1.24949
91 CUL2 Rooted cullin homolog 2 (cul-2). [swissprot;acc:q13617] 37.3005 48.4141 1.29795
KCND1 Measured potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979] 2416.53 1700.8 1.42082
MAGED1 Ranked melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] 88.2482 110.265 1.24949
RALGDS Squared ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967] 90432.9 56304.2 1.60615
92 MAGEF1 Ranked melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] 88.2482 110.265 1.24949
NCBP2L Measured dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] 4117.67 5801.04 1.40882
PITRM1 Squared metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] 29570.7 18601.8 1.58967
PSEN1 Rooted presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768] 37.3005 48.4141 1.29795
93 no value Measured formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892] 4245.52 5942.75 1.39977
ALG1 Squared beta-1,4 mannosyltransferase. [refseq;acc:nm_019109] 29567 18601.6 1.58949
CUL1 Rooted cullin homolog 1 (cul-1). [swissprot;acc:q13616] 37.3005 48.4141 1.29795
MAGEB6B Ranked melanoma antigen, family b, 6. [refseq;acc:nm_173523] 88.2482 110.265 1.24949
94 no value Measured huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404] 4247.86 5941.88 1.39879
Ranked melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] 88.2482 110.265 1.24949
RBM15B Rooted chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286] 47.6504 36.9304 1.29028
RGL1 Squared ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [swissprot;acc:q9nzl6] 84857.8 53402.4 1.58903
95 MAGEA9 Ranked melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] 88.2482 110.265 1.24949
PPP1R7 Squared protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712] 256169 162517 1.57626
RGS19 Rooted regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795] 47.6504 36.9304 1.29028
SON Measured son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583] 2397.19 3343.62 1.39481
96 no value Squared atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915] 7744.68 4959.41 1.56161
LASS2 Measured lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075] 4110.14 5694.99 1.3856
MAGEA8 Ranked melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] 88.2482 110.265 1.24949
RBM15 Rooted putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] 47.6504 36.9304 1.29028
97 APBA1 Measured 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] 2820.51 3897.1 1.3817
CPSF4 Squared cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [refseq;acc:nm_006693] 227160 146079 1.55505
MAGEC1 Ranked melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] 88.2482 110.265 1.24949
RGS20 Rooted regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081] 47.6504 36.9304 1.29028
98 KIAA1012 Squared trs85 homolog. [swissprot;acc:q9y2l5] 227160 146079 1.55505
LBX1 Rooted transcription factor lbx1. [swissprot;acc:p52954] 47.6504 36.9304 1.29028
MAGEA4 Ranked melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] 88.2482 110.265 1.24949
PSEN2 Measured presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810] 2353.63 3225.65 1.3705
99 no value Ranked melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] 88.2482 110.265 1.24949
GPSM2 Rooted mosaic protein lgn. [swissprot;acc:p81274] 47.6504 36.9304 1.29028
SKP1A Measured s-phase kinase-associated protein 1a (cyclin a/cdk2-associated protein p19) (p19a) (p19skp1) (rna polymerase ii elongation factor-like protein) (organ of corti protein 2) (ocp-ii protein) (ocp-2) (transcription elongation factor b) (siii). [swissprot;acc:p34991] 2353.63 3225.65 1.3705
WDR33 Squared wd-repeat protein wdc146. [swissprot;acc:q9c0j8] 226186 145568 1.55382
100 CPSF1 cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]
FBXW7 Measured f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315] 2353.63 3225.65 1.3705
MAGEA10 Ranked melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] 88.2482 110.265 1.24949
RGS17 Rooted regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6] 47.6504 36.9304 1.29028

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
- Hugo is the HGNC identifier if it exists
- 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/