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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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 [...,...].
Rank Gene description Network Comparison Type Hugo Value Type Interaction Map red Filtered green network_comparison
Results: HTML CSV LaTeX Showing element 63274 to 63323 of 66312 in total
Interaction Map  : Low confidence
Filtered  : 1
Rank
description
Network Comparison Type
Hugo
Value Type
red
green
network_comparison
4682 60s ribosomal protein l12. [swissprot;acc:p30050] Divided no value Rooted 68.8448 70.1221 1.01855
cda11 protein. [refseq;acc:nm_032026] Subtracted TATDN1 Squared 47223.2 46541.8 681.4
hairy/enhancer-of-split related with yrpw motif-like. [refseq;acc:nm_014571] HEYL Ranked 190.009 188.839 1.17
paired box protein pax-6 (oculorhombin) (aniridia, type ii protein). [swissprot;acc:p26367] Divided PAX6 Measured 7480.38 7593.05 1.01506
ring finger protein 38. [refseq;acc:nm_022781] RNF38 Ranked 205.95 204.754 1.00584
sh3-containing protein sh3glb1; sh3-containing protein sh3glb1; cgi-61 protein; endophilin b1; endophilin b1; bax-interacting factor 1; sh3-domain, grb2-like, endophilin b1. [refseq;acc:nm_016009] Subtracted SH3GLB1 Measured 7772.66 7891.94 119.28
udp-glucose 6-dehydrogenase (ec 1.1.1.22) (udp-glc dehydrogenase) (udp-glcdh) (udpgdh). [swissprot;acc:o60701] Divided UGDH Squared 46896.1 46162 1.0159
4683 caspase-7 precursor (ec 3.4.22.-) (ice-like apoptotic protease 3) (ice-lap3) (apoptotic protease mch-3) (cmh-1). [swissprot;acc:p55210] CASP7 Measured 8386.97 8512.88 1.01501
cellular modulator of immune recognition. [refseq;acc:nm_145021] Subtracted MARCH8 Ranked 208.303 207.134 1.169
dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02] Divided no value Rooted 68.8429 70.1181 1.01852
dna-directed rna polymerase i 40 kda polypeptide (ec 2.7.7.6) (rpa40) (rpa39). [swissprot;acc:o15160] POLR1C Ranked 203.603 202.427 1.00581
potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979] Subtracted KCND1 Measured 6053.67 5935.4 118.27
somatostatin receptor type 4 (ss4r). [swissprot;acc:p31391] SSTR4 Rooted 73.8683 75.2506 1.3823
t-cell acute lymphocytic leukemia-2 protein (tal-2 protein). [swissprot;acc:q16559] Divided TAL2 Squared 44525.6 43830.4 1.01586
vacuolar atp synthase subunit g 2 (ec 3.6.3.14) (v-atpase g subunit 2) (vacuolar proton pump g subunit 2) (v-atpase 13 kda subunit 2). [swissprot;acc:o95670] Subtracted no value 42198.8 41521 677.8
4684 40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366] RPS14 Ranked 208.268 209.433 1.165
60s ribosomal protein l12 like protein. [sptrembl;acc:o60886] Divided no value Rooted 68.8421 70.1162 1.01851
60s ribosomal protein l23 (l17). [swissprot;acc:p23131] Ranked 205.529 206.721 1.0058
60s ribosomal protein l36, mitochondrial precursor (l36mt) (brca1- interacting protein 1). [swissprot;acc:q9p0j6] Subtracted MRPL36 Rooted 69.3631 70.7401 1.377
apopain precursor (ec 3.4.22.-) (cysteine protease cpp32) (yama protein) (cpp-32) (caspase-3) (casp-3) (srebp cleavage activity 1) (sca-1). [swissprot;acc:p42574] Divided CASP3 Measured 8386.97 8512.88 1.01501
copper-transporting atpase 1 (ec 3.6.3.4) (copper pump 1) (menkes disease-associated protein). [swissprot;acc:q04656] Subtracted ATP7A Squared 49925.6 50602.2 676.6
katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886] Divided KATNB1 45809.1 45094.7 1.01584
rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316] Subtracted REV1 Measured 8208.12 8326.05 117.93
4685 adp,atp carrier protein, heart/skeletal muscle isoform t1 (adp/atp translocase 1) (adenine nucleotide translocator 1) (ant 1). [swissprot;acc:p12235] SLC25A4 Squared 46225.8 45551.5 674.3
atp-binding cassette, sub-family d, member 2 (adrenoleukodystrophy related protein) (haldr) (adrenoleukodystrophy-like 1). [swissprot;acc:q9ubj2] Divided ABCD2 Measured 7491.7 7603.84 1.01497
glioma amplified on chromosome 1 protein precursor. [swissprot;acc:o75325] Subtracted LRRN2 Ranked 206.04 204.881 1.159
nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7] no value Rooted 71.4563 72.8316 1.3753
serine/threonine-protein kinase plk (ec 2.7.1.-) (plk-1) (serine- threonine protein kinase 13) (stpk13). [swissprot;acc:p53350] Divided PLK1 Squared 38729.7 38130.7 1.01571
smooth muscle cell associated protein-1. [refseq;acc:nm_017979] UNC45A Rooted 71.4045 72.7265 1.01851
splicing factor 3b subunit 4 (spliceosome associated protein 49) (sap 49) (sf3b50) (pre-mrna splicing factor sf3b 49 kda subunit). [swissprot;acc:q15427] SF3B4 Ranked 201.962 200.805 1.00576
tyrosine 3-monooxygenase (ec 1.14.16.2) (tyrosine 3-hydroxylase) (th). [swissprot;acc:p07101] Subtracted TH Measured 8490.93 8607.91 116.98
4686 adp,atp carrier protein, fibroblast isoform (adp/atp translocase 2) (adenine nucleotide translocator 2) (ant 2). [swissprot;acc:p05141] SLC25A5 Squared 46228.3 45554.4 673.9
cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [swissprot;acc:q9ubr2] Divided CTSZ 38729.7 38130.7 1.01571
ctp synthase (ec 6.3.4.2) (utp--ammonia ligase) (ctp synthetase). [swissprot;acc:p17812] CTPS Rooted 75.3516 76.7457 1.0185
endo-beta-n-acetylglucosaminidase. [refseq;acc:nm_022759] no value Measured 8636.33 8765.51 1.01496
hbv px associated protein-8; hepatitis b virus-associated protein. [refseq;acc:nm_016578] RSF1 Ranked 201.962 200.805 1.00576
semaphorin 6b precursor (semaphorin z) (sema z). [swissprot;acc:q9h3t3] Subtracted SEMA6B Measured 8490.93 8607.91 116.98
splicing factor 3b subunit 4 (spliceosome associated protein 49) (sap 49) (sf3b50) (pre-mrna splicing factor sf3b 49 kda subunit). [swissprot;acc:q15427] SF3B4 Ranked 201.962 200.805 1.157
transducin beta-like 1x protein (transducin-beta-like 1, x-linked). [swissprot;acc:o60907] TBL1X Rooted 71.4553 72.8295 1.3742
4687 40s ribosomal protein s5. [swissprot;acc:p46782] Divided RPS5 69.2273 70.5074 1.01849
adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236] Subtracted SLC25A6 Squared 46240.3 45568 672.3
epidermal growth factor receptor substrate 15 (protein eps15) (af-1p protein). [swissprot;acc:p42566] Divided EPS15 Measured 8513.95 8640.73 1.01489
hbv px associated protein-8; hepatitis b virus-associated protein. [refseq;acc:nm_016578] Subtracted RSF1 Ranked 201.962 200.805 1.157
melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] Divided MAGED4 178.882 179.908 1.00574
semaphorin 6c precursor (semaphorin y) (sema y). [swissprot;acc:q9h3t2] Subtracted SEMA6C Measured 8490.93 8607.91 116.98
transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87] TBL1Y Rooted 71.4551 72.829 1.3739
ubiquitin-conjugating enzyme e2 g1 (ec 6.3.2.19) (ubiquitin-protein ligase g1) (ubiquitin carrier protein g1) (e217k) (ubc7). [swissprot;acc:q99462] Divided UBE2G1 Squared 41417.3 40777.8 1.01568
4688 actin-related protein 8. [swissprot;acc:q9h981] ACTR8 Rooted 67.6219 68.8625 1.01835
atp synthase oligomycin sensitivity conferral protein, mitochondrial precursor (ec 3.6.3.14) (oscp). [swissprot;acc:p48047] Subtracted ATP5O 78.046 79.4164 1.3704
density-regulated protein (drp) (drp1 protein) (smooth muscle cell associated protein-3) (smap-3). [swissprot;acc:o43583] Divided DENR Measured 7407 7517.06 1.01486

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/