Support predefined gene sets

[AlistairNWard]

We currently allow users to select the ACMG59 genes from the vertical elipsis attached to gene entry:

Extend this to allow a user to pick from multiple sets of genes:

1. The UI should be updated so instead of having a button for ACMG59, we have a scalable selection for multiple gene sets
2. We need somewhere to store these sets so we can easily add more sets and have them available through the UI

This is not a proposal to allow users to add their own sets of genes. We would manage the available sets.

[AlistairNWard]

Here are a couple of panels we could add (at Nebula's request):

Cancer panel APC, ATM, AXIN2, BAP1, BARD1, BMPR1A, BRCA1, BRCA2, BRIP1, CDC73, CDH1, CDK4, CDKN2A, CHEK2, DICER1, EPCAM, FH, FLCN, GREM1, HOXB13, KIT, MAX, MEN1, MET, MITF, MLH1, MSH2, MSH3, MSH6, MUTYH, NBN, NF1, NF2, NTHL1, PALB2, PDGFRA, PMS2, POLD1, POLE, PRKAR1A, PTCH1, PTEN, RAD51C, RAD51D, RB1, RET, SDHA, SDHAF2, SDHB, SDHC, SDHD, SMAD4, SMARCA4, SMARCB1, STK11, TMEM127, TP53, TSC1, TSC2, VHL, WT1

Cardio panel ACTA2, ACTC1, ACTN2, ACVRL1, APOB, BAG3, BMPR2, CACNA1C, CACNB2, CALM1, CALM2, CALM3, CASQ2, CAV1, CAV3, COL3A1, CRYAB, CSRP3, DES, DMD, DSC2, DSG2, DSP, EMD, ENG, F2, F5, F9, FBN1, FHL1, FLNC, GDF2, GLA, GPD1L, HCN4, JUP, KCNE1, KCNE2, KCNH2, KCNJ2, KCNQ1, LAMP2, LDLR, LDLRAP1, LMNA, MYBPC3, MYH11, MYH7, MYL2, MYL3, MYLK, NKX2-5, PCSK9, PKP2, PLN, PRKAG2, PRKG1, PROC, PROS1, RBM20, RYR2, SCN5A, SERPINC1, SGCD, SMAD3, SMAD4, TCAP, TGFB2, TGFB3, TGFBR1, TGFBR2, TMEM43, TNNC1, TNNI3, TNNT2, TPM1, VCL

[AlistairNWard]

We should address this sooner, rather than later.

1. This is a specific request from Nebula and it would be good to get the gene sets specified above available.
2. There will be an updated ACMG list in the near future, so we'll want to update this list. For useful archivability, it would be nice to have ACMG59 (or ACMG v2.0) as the current list still available, and then an updated ACMG v3.0 also available

[AlistairNWard]

When selecting the gene panel, we should probably indicate the cancer and cardio panel we have added are supplied by Nebula. The little tag that sits on the gene list is ok as just e.g. cardio, but in the dropdown, maybe list it as Cardio panel (provided by Nebula Genomics? I know there was concern that we don't want to be responsible for the contents of the panels, so as long as we specify an origin, I think we'd be safe

[tonydisera]

@AlistairNWard , I misunderstood. So these 2 panels are Nebula specific? Then I should add meta data regarding when the gene panel shows in the dropdown. Thanks for noticing this.

[AlistairNWard]

They don't need to be Nebula specific, in that they can appear on prod gene.iobio. But there could be many cancer or cardio panels, so we should specify the origin of the panels we include. Marti could well ask for his own cardio panel of genes etc. and he'd need to be able to distinguish.

[tonydisera]

Cool. Is there any value to allowing site specific gene panels? I just added that functionality.

[AlistairNWard]

There probably is. If we get to a point where we are hosting lots of sets, this would probably be useful. But for now, it's probably ok to just make sure the name indicates the origin and make all panels available to everyone.

[AlistairNWard]

One minor typo. For the cardio panel, provided is missing a "d"

[tonydisera]

Oops! Thanks for catching this @AlistairNWard !

[tonydisera]

Fixed.