Due　to　the　upcoming　data　deluge　of　genome　data,　the　need　for　storing　and　processing　large-scale　genome　data,　easy　access　to　biomedical　analyses　tools,　efficient　data　sharing　and　retrieval　has　presented　significant　challenges.　The　variability　in　data　volume　results　in　variable　computing　and　storage　requirements,　therefore　biomedical　researchers　are　pursuing　more　reliable,　dynamic　and　convenient　methods　for　conducting　sequencing　analyses.　This　paper　proposes　a　Cloud-based　bioinformatics　workflow　platform　for　large-scale　next-generation　sequencing　analyses,　which　enables　reliable　and　highly　scalable　execution　of　sequencing　analyses　workflows　in　a　fully　automated　manner.　Our　platform　extends　the　existing　Galaxy　workflow　system　by　adding　data　management　capabilities　for　transferring　large　quantities　of　data　efficiently　and　reliably　(via　Globus　Transfer),　domain-specific　analyses　tools　preconfigured　for　immediate　use　by　researchers　(via　user-specific　tools　integration),　automatic　deployment　on　Cloud　for　on-demand　resource　allocation　and　pay-as-you-go　pricing　(via　Globus　Provision),　a　Cloud　provisioning　tool　for　auto-scaling　(via　HTCondor　scheduler),　and　the　support　for　validating　the　correctness　of　workflows　(via　semantic　verification　tools).　Two　bioinformatics　workflow　use　cases　as　well　as　performance　evaluation　are　presented　to　validate　the　feasibility　of　the　proposed　approach.　(C)　2014　Elsevier　Inc.　All　rights　reserved.