Large set of human ribosomal proteins annotated to "cadherin binding involved in cell-cell adhesion"

[ValWood]

From http://amigo.geneontology.org/amigo/reference/PMID:25468996

This is also generating process annotations to RPL29 60S ribosomal protein L29
"cell-cell adhesion"
GOC Homo sapiens IEA GO:0098641 60s ribosomal protein l29 GO_REF:0000108 20161126

via the GO F-P pipeline

and by other pipelines being propagated across many metazoan species.

I don't know how many of these really bind cadherin, but a lot are likely false positives out of this 296.

[ValWood]

@RLovering

[RLovering]

@rachhuntley

[rachhuntley]

Originated from this GO help ticket http://jira.geneontology.org/browse/GO-1445?filter=-4

Copied my comment below to continue the thread here: These are my annotations. I made them in consultation with the author based on two experiments. I will contact her to see if she has any thoughts on those we should exclude or see if she's done any follow-up experiments. In the meantime, Val could you send me the list of outliers that you have found?

[ValWood]

RPL36AL RPL6 RPL15 (also annotated to nucleus from this paper, which also seems odd?)

Then RPL24 EEF1G Eukaryotic translation initiation factor 1G ENO1 enolase NOP56 EIF4H Eukaryotic translation initiation factor 4H CCNB2 mitotic cyclin RPL6 EIF2A Eukaryotic translation initiation factor 2A RSL1D1 Ribosomal L1 domain-containing protein 1 RPL24 60S ribosomal protein L24 EEF1G Elongation factor 1-gamma HSPA8 Heat shock cognate 71 kDa protein
PSMB6 Proteasome subunit beta type-6 HSP90AB1 Heat shock protein HSP 90-beta
DHX29 ATP-dependent RNA helicase DHX29 EIF5 Eukaryotic translation initiation factor 5
GCN1 eIF-2-alpha kinase activator GCN1 ATIC Bifunctional purine biosynthesis protein PURH ALDOA Fructose-bisphosphate aldolase A EEF2 Elongation factor 2 RPL14 60S ribosomal protein L14 EIF3E Eukaryotic translation initiation factor 3 subunit E H1FX Histone H1x EEF1D Elongation factor 1-delta MACF1 Microtubule-actin cross-linking factor 1, isoforms 1/2/3/5
PFN1 Profilin-1 IDH1 Isocitrate dehydrogenase [NADP] cytoplasmic RPS2 40S ribosomal protein S2 MYO1B Unconventional myosin-Ib
RPL29 60S ribosomal protein L29 RPL34 60S ribosomal protein L34 RPS26 40S ribosomal protein S26 RPL15 60S ribosomal protein L15
MYO6 Unconventional myosin-VI RARS Arginine--tRNA ligase, cytoplasmic
RPL7A 60S ribosomal protein L7a HSPA1A Heat shock 70 kDa protein 1A EIF2S3 Eukaryotic translation initiation factor 2 subunit 3
RPL23A 60S ribosomal protein L23a EIF4G1 Eukaryotic translation initiation factor 4 gamma 1
MYH9 Myosin-9

Probably more. These are just the ones that I know are highly expressed and common contaminants in Mass Spec experiments from fission yeast. What is the assay for "cell-cell adhesion"? is it only inferred from the binding.Seems like a stretch?

Val

MRE11A would be strange too CCNB2 mitotic cyclin

[rachhuntley]

Hi Val,

I have looked at this paper again and realised that the protein list the author pointed me to was not quite right, there was an additional localisation experiment that should have been taken into account. I have now updated the annotations and there are far fewer proteins annotated to cadherin binding involved in cell-cell adhesion and cell-cell adherens junction. I haven't checked all on your list, but a lot of them are now changed.

Thanks for alerting us to this.

Rachael.

[ValWood]

Thanks!