• E.P.-C., K. Rawlik, K.M., S.K., C.P.P., J.F.W., V.V., M.A., A.D.L., E.J.P., R.C., A.C., A.F., L.M., K. Rowan, A.C.P., A.L., S.C.H. and J.K.B. contributed to design. E.P.-C., K. Rawlik, A.D.B., T.Q., Y.W., I.N., G.A.M., M.Z., L.K., A.K., A.R., T.M., J.Y., A.L., B.F., S.C.H. and J.K.B. contributed to data analysis. E.P.-C., K. Rawlik, I.N., A.K., A.R., J.M., C.D.R., A.L., B.F. and S.C.H. contributed to bioinformatics. E.P.-C., K. Rawlik, I.N., G.A.M., M.Z., A.K., J.M., C.D.R., R.T., D. McAuley, A.N., M.G.S., B.F., S.C.H. and J.K.B. contributed to writing and reviewing the manuscript. I.N., F.G., W.O., K.M., S.K., D. Maslove, A.N., M.G.S., J.K., M.S.-H., C.S., C.H., P.H., L.L., D. McAuley, H.M., P.J.M.O., C.B., T.W., A.T., C.F., J.A.R., A.R.-M., P.L., C.P.P., A.F., L.M., K. Rowan, A.L., B.F. and S.C.H. contributed to oversight. F.G. and W.O. contributed to project management. F.G., W.O. and J.K.B. contributed to ethics and governance. K.M., A.F. and L.M. contributed to sample handling and sequencing. C.P.P., K. Rowan, S.C.H. and J.K.B. contributed to conception. C.P.P., J.F.W., V.V., M.A., A.D.L., E.J.P., R.C., A.C., K. Rowan and A.C.P. contributed to reviewing the manuscript. K. Rowan and A.L. contributed to clinical data management. J.K.B. contributed to scientific leadership.

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