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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 150 to 199 of 502 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 0
Rank
Hugo
description
red
green
network_comparison
150 ZFPL1 zinc finger protein-like 1; zinc-finger protein in men1 region. [refseq;acc:nm_006782] 8730 7516 1.16152
151 no value u2 small nuclear ribonucleoprotein auxiliary factor 35 kda subunit related-protein 1. [swissprot;acc:q15695] 7502.08 6461.83 1.16098
152 similar to ribosomal protein, large, p0. [sptrembl;acc:q96fq9] 11438 13277.1 1.16079
153 TUBG1 tubulin gamma-1 chain (gamma-1 tubulin) (gamma-tubulin complex component 1) (gcp-1). [swissprot;acc:p23258] 7879.3 6789.92 1.16044
154 no value myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] 10883 12622.8 1.15986
155 REEP6 polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [refseq;acc:nm_138393] 12759.4 11028.8 1.15692
156 TUB tubby protein homolog. [swissprot;acc:p50607] 12303.7 10641.7 1.15618
157 no value transcription initiation factor iie, beta subunit (tfiie-beta). [swissprot;acc:p29084] 18079 15652 1.15506
158 NME2P1 putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361] 10060.2 11616.4 1.15469
159 ATG4B cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] 5813.32 6706.32 1.15361
160 no value ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] 11732 13530.6 1.15331
161 ATG4A cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] 5781.93 6660.63 1.15197
162 no value putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642] 12301.4 10680.5 1.15176
163 TFCP2 transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653] 8409.21 9668.79 1.14979
164 no value dihydrofolate reductase (ec 1.5.1.3). [swissprot;acc:p00374] 11971.7 10412.4 1.14975
165 ribose-phosphate pyrophosphokinase iii (ec 2.7.6.1) (phosphoribosyl pyrophosphate synthetase iii) (prs-iii). [swissprot;acc:p21108] 13255.4 15183.2 1.14544
166 BOLA2B my016 protein. [sptrembl;acc:q9h3k6] 5561.19 6366.91 1.14488
167 SRP9 signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 12157.6 13890.3 1.14252
168 FOSL2 fos-related antigen 2. [swissprot;acc:p15408] 7091.75 6217.28 1.14065
169 GPT alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [swissprot;acc:p24298] 9875.43 11256.8 1.13988
170 FCER2 low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734] 11364 12941 1.13877
171 no value lamin b2. [swissprot;acc:q03252] 12135.4 13802 1.13733
172 SNAI2 zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623] 12225.7 13893.1 1.13638
173 no value suppressor of actin 1. [refseq;acc:nm_014016] 19088.1 16804.6 1.13589
174 ribulose-5-phosphate-3-epimerase; ribulose 5-phosphate 3-epimerase. [refseq;acc:nm_006916] 13248.5 11666.4 1.13561
175 thiamin pyrophosphokinase 1; mouse thiamin pyrophosphokinase homolog; thiamine pyrophosphokinase. [refseq;acc:nm_022445]
176 dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9] 13068 11528 1.13359
177 KCND2 potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 14922.7 13174.5 1.1327
178 no value integral membrane protein cii-3b. [sptrembl;acc:o75609] 14951.6 13204.2 1.13234
179 MVK mevalonate kinase (ec 2.7.1.36) (mk). [swissprot;acc:q03426] 9473.01 10723.7 1.13203
180 NOVA1 rna-binding protein nova-1 (neuro-oncological ventral antigen 1) (onconeural ventral antigen-1) (paraneoplastic ri antigen) (ventral neuron-specific protein 1). [swissprot;acc:p51513] 8407.67 9516.92 1.13193
181 no value importin 7; ran-binding protein 7. [refseq;acc:nm_006391] 14864.7 16820.7 1.13159
182 NADK putative inorganic polyphosphate/atp-nad kinase (ec 2.7.1.23) (poly(p)/atp nad kinase). [swissprot;acc:o95544] 11573.8 10231.3 1.13121
183 no value ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] 11613 13133.5 1.13093
184 similar to zinc finger protein 277. [sptrembl;acc:q8wwa6] 6279.56 5569.42 1.12751
185 zinc finger protein 277. [swissprot;acc:q9nrm2]
186 40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880] 11935.1 10592.8 1.12672
187 ADSSL1 adenylosuccinate synthase-like 1. [refseq;acc:nm_152328] 9955.22 11213.7 1.12641
188 RPL15 60s ribosomal protein l15. [swissprot;acc:p39030] 11745.2 13203.1 1.12413
189 SALL4 sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4] 10634.4 9465 1.12355
190 no value high-glucose-regulated protein 8 (ny-ren-2 antigen). [swissprot;acc:q9y5a9] 18809.5 16764.2 1.122
191 sh3 adapter protein spin90 (sh3 protein interacting with nck, 90 kda) (vaca-interacting protein, 54 kda) (vip54) (af3p21) (diaphanous protein interacting protein) (dia interacting protein-1) (dip-1). [swissprot;acc:q9nzq3]
192 CCT6A t-complex protein 1, zeta subunit (tcp-1-zeta) (cct-zeta) (cct-zeta-1) (tcp20) (htr3). [swissprot;acc:p40227] 12715.9 11333.2
193 GTF3A transcription factor iiia (factor a) (tfiiia). [swissprot;acc:q92664] 10899.5 12217.4 1.12091
194 no value kappa b-ras 1. [refseq;acc:nm_020345] 12657.7 11299.1 1.12024
195 MRPS22 mitochondrial 28s ribosomal protein s22 (s22mt) (mrp-s22) (gk002). [swissprot;acc:p82650] 13942.8 15586.4 1.11788
196 no value suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169] 11064.2 9897.84 1.11784
197 importin 4. [refseq;acc:nm_024658] 12337.6 13788.9 1.11763
198 RPL10L ribosomal protein l10-like protein. [refseq;acc:nm_080746] 11781.5 10545.3 1.11723
199 no value 60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635] 11781.8 10545.7 1.11721

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/