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.


Navigation/Query Panel:
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 Network Comparison Type Hugo description Value Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 701 to 750 of 8289 in total
Network Comparison Type  : Divided
Value Type  : Ranked
Filtered  : 1
Rank
Hugo
description
Interaction Map
red
green
network_comparison
351 AP2S1 clathrin coat assembly protein ap17 (clathrin coat associated protein ap17) (plasma membrane adaptor ap-2 17 kda protein) (ha2 17 kda subunit) (clathrin assembly protein 2 small chain). [swissprot;acc:p53680] Low confidence 204.762 197.135 1.03869
PEX1 peroxisome biogenesis factor 1 (peroxin-1) (peroxisome biogenesis disorder protein 1). [swissprot;acc:o43933] High confidence 242.14 265.696 1.09728
352 no value adapter-related protein complex 2 alpha 1 subunit (alpha-adaptin a) (adaptor protein complex ap-2 alpha-1 subunit) (clathrin assembly protein complex 2 alpha-a large chain) (100 kda coated vesicle protein a) (plasma membrane adaptor ha2/ap2 adaptin alpha a subunit). [swissprot;acc:o95782] Low confidence 204.762 197.135 1.03869
TXNDC9 protein 1-4 (atp binding protein associated with cell differentiation). [swissprot;acc:o14530] High confidence 242.14 265.696 1.09728
353 GIPC1 rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [swissprot;acc:o14908] 231.73 211.252 1.09694
UBE2G1 ubiquitin-conjugating enzyme e2 g1 (ec 6.3.2.19) (ubiquitin-protein ligase g1) (ubiquitin carrier protein g1) (e217k) (ubc7). [swissprot;acc:q99462] Low confidence 202.962 195.416 1.03862
354 COG3 conserved oligomeric golgi complex component 3 (vesicle docking protein sec34 homolog) (p94). [swissprot;acc:q96jb2] 206.433 198.781 1.03849
STX10 syntaxin 10 (syn10). [swissprot;acc:o60499] High confidence 234.691 257.442 1.09694
355 RPP30 ribonuclease p protein subunit p30 (ec 3.1.26.5) (rnasep protein p30) (rnase p subunit 2). [swissprot;acc:p78346] Low confidence 202.542 210.311 1.03836
STX6 syntaxin 6. [swissprot;acc:o43752] High confidence 234.673 257.414 1.09691
356 no value 60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025] 243.24 266.796 1.09684
SF3A3 splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874] Low confidence 202.387 194.949 1.03815
357 no value 60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635] High confidence 243.12 266.661 1.09683
SF3A1 splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459] Low confidence 202.387 194.949 1.03815
358 MOCS2 molybdenum cofactor synthesis protein 2 large subunit (molybdopterin synthase large subunit) (mpt synthase large subunit) (mocs2b) (moco1- b). [swissprot;acc:o96007] 207.531 199.938 1.03798
RPL10L ribosomal protein l10-like protein. [refseq;acc:nm_080746] High confidence 243.12 266.662 1.09683
359 MOCS3 molybdenum cofactor synthesis protein 3 (molybdopterin synthase sulfurylase) (mpt synthase sulfurylase). [swissprot;acc:o95396] Low confidence 207.531 199.938 1.03798
RPL4 60s ribosomal protein l4 (l1). [swissprot;acc:p36578] High confidence 239.277 262.434 1.09678
360 no value secreted modular calcium-binding protein 1. [refseq;acc:nm_022137] Low confidence 204.231 196.773 1.0379
SEC61G protein transport protein sec61 gamma subunit. [swissprot;acc:p38384] High confidence 243.072 266.559 1.09663
361 MRPL17 mitochondrial ribosomal protein l17; lyst-interacting protein lip2. [refseq;acc:nm_022061] 242.83 266.248 1.09644
PFDN1 prefoldin subunit 1. [swissprot;acc:o60925] Low confidence 204.231 196.773 1.0379
362 SHROOM2 apical-like protein (apxl protein). [swissprot;acc:q13796] High confidence 231.492 211.136 1.09641
SMOC2 secreted modular calcium-binding protein 2; smooth muscle associated protein 2. [refseq;acc:nm_022138] Low confidence 204.231 196.773 1.0379
363 CHDH choline dehydrogenase. [refseq;acc:nm_018397]
SHROOM3 shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [refseq;acc:nm_020859] High confidence 231.481 211.131 1.09639
364 DGCR14 dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8] Low confidence 212.235 204.495 1.03785
POLR2B dna-directed rna polymerase ii 140 kda polypeptide (ec 2.7.7.6) (rna polymerase ii subunit 2) (rpb2). [swissprot;acc:p30876] High confidence 243.208 266.617 1.09625
365 MRPL36 60s ribosomal protein l36, mitochondrial precursor (l36mt) (brca1- interacting protein 1). [swissprot;acc:q9p0j6] 242.744 266.07 1.09609
SPAG7 sperm associated antigen 7. [refseq;acc:nm_004890] Low confidence 117.525 121.959 1.03773
366 RPS5 40s ribosomal protein s5. [swissprot;acc:p46782] High confidence 242.473 265.756 1.09602
ZMIZ1 retinoic acid induced 17; pias-like protein hzimp10. [refseq;acc:nm_020338] Low confidence 207.433 199.944 1.03746
367 HNRPM heterogeneous nuclear ribonucleoprotein m (hnrnp m). [swissprot;acc:p52272] High confidence 234.146 256.627 1.09601
SORBS1 ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385] Low confidence 206.945 199.503 1.0373
368 PUS1 trna pseudouridine synthase a (ec 4.2.1.70) (pseudouridylate synthase i) (pseudouridine synthase i) (uracil hydrolyase). [swissprot;acc:q9y606] High confidence 242.66 265.715 1.09501
SPSB4 spry domain-containing socs box protein ssb-4. [refseq;acc:nm_080862] Low confidence 219.655 211.763 1.03727
369 MRPL12 60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815] High confidence 242.159 265.104 1.09475
MXD1 mad protein (max dimerizer). [swissprot;acc:q05195] Low confidence 205.943 198.554 1.03721
370 AFF1 af-4 protein (proto-oncogene af4) (fel protein). [swissprot;acc:p51825] 219.597 211.722 1.0372
NUDT12 nudix (nucleoside diphosphate linked moiety x)-type motif 12. [refseq;acc:nm_031438] High confidence 242.159 265.104 1.09475
371 AFF2 fragile x mental retardation 2 protein (protein fmr-2) (fmr2p) (ox19 protein) (fragile x e mental retardation syndrome protein). [swissprot;acc:p51816] Low confidence 219.599 211.723 1.0372
RPS6KC1 ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424] High confidence 186.52 170.42 1.09447
372 no value ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]
AFF3 laf-4 protein (lymphoid nuclear protein related to af4). [swissprot;acc:p51826] Low confidence 219.598 211.722 1.0372
373 AFF4 all1 fused gene from 5q31. [refseq;acc:nm_014423]
MRPL11 60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7] High confidence 242.37 265.255 1.09442
374 PGBD3 excision repair protein ercc-6 (cockayne syndrome protein csb). [swissprot;acc:q03468] Low confidence 210.34 202.797 1.03719
TFDP2 transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188] High confidence 267.208 244.168 1.09436
375 POLR3A dna-directed rna polymerase iii largest subunit (ec 2.7.7.6) (rpc155) (rpc1). [swissprot;acc:o14802] 242.686 265.516 1.09407
SPSB1 spry domain-containing socs box protein ssb-1. [refseq;acc:nm_025106] Low confidence 219.556 211.692 1.03715

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/