[{"data":1,"prerenderedAt":352},["ShallowReactive",2],{"\u002Fannouncements\u002Fst-jude-cloud-restructure":3},{"id":4,"title":5,"body":6,"date":341,"description":342,"extension":343,"heroImage":344,"meta":345,"navigation":346,"path":347,"readingTime":348,"seo":349,"stem":350,"__hash__":351},"announcements\u002Fannouncements\u002Fst-jude-cloud-restructure.md","Welcome to the New St. Jude Cloud",{"type":7,"value":8,"toc":330},"minimark",[9,14,18,22,38,45,72,78,82,87,109,112,136,143,147,151,194,197,238,244,248,252,262,265,287,293,297,312],[10,11,13],"h3",{"id":12},"overview","Overview",[15,16,17],"p",{},"We are excited to announce the new structure and accompanying redesign of St.\nJude Cloud. Since the project's launch two years ago, the vision for St. Jude\nCloud has steadily expanded from sharing our pediatric genomics data globally to\ndeveloping a vibrant ecosystem of sharing at St. Jude Children's Research\nHospital. By creating a scalable framework for increasingly large and diverse data\ntypes, our restructure supports new features today and lays the foundation for\nadditional sharing resources to come.",[10,19,21],{"id":20},"what-has-changed","What Has Changed?",[15,23,24,25,29,30,37],{},"The major shift in organizational structure is the transition from \"Data, Tools,\nand Visualizations\" towards a set of independent applications called ",[26,27,28],"strong",{},"apps",".\nEach app gets its own identity within the St. Jude Cloud ecosystem and is\ndesigned to address a particular use-case. Apps are developed by teams across\nSt. Jude and offer integrations between each other to enable cross-functional\nworkflows. You can read the sections below to learn about the apps we offer\ntoday or view the ",[31,32,36],"a",{"href":33,"rel":34},"https:\u002F\u002Funiversity.stjude.cloud\u002Fdocs\u002Fecosystem\u002F#migration-to-new-structure",[35],"nofollow","map provided in our documentation"," to learn\nwhich app old functionality moved into.",[15,39,40],{},[41,42],"img",{"alt":43,"src":44},"Apps in St. Jude Cloud","\u002Fimages\u002Fannouncements\u002Fst-jude-cloud-restructure\u002Ffigure_sjc-apps.png",[15,46,47,48,51,52,56,57,61,62,66,67,71],{},"As the diversity of offerings in St. Jude Cloud grows, it is increasingly\nimportant for new users to be able to quickly understand which areas of St. Jude\nCloud are relevant to their research. To address this, we’ve redesigned the home\npage around broad areas of study called ",[26,49,50],{},"research domains",". These pages act as\na signpost to areas of St. Jude Cloud that are relevant to researchers in these\nfields. All of this is accompanied by a refreshed look and feel that more\naccurately represents the project's unique mixture of technology and science. To\nlearn more about how St. Jude Cloud can be leveraged in ",[53,54,55],"em",{},"your"," research, view\nthe domain pages for ",[31,58,60],{"href":59},"\u002Fresearch-domains\u002Fpediatric-cancer","pediatric cancer",",\n",[31,63,65],{"href":64},"\u002Fresearch-domains\u002Fcancer-survivorship","cancer survivorship",", and ",[31,68,70],{"href":69},"\u002Fresearch-domains\u002Fnon-cancerous-diseases","non-cancerous diseases",".",[15,73,74],{},[41,75],{"alt":76,"src":77},"Relation to research domains and studies","\u002Fimages\u002Fannouncements\u002Fst-jude-cloud-restructure\u002Ffigure_stjudecloud_structure.png",[10,79,81],{"id":80},"genomics-platform","Genomics Platform",[83,84],"float-image",{"alt":85,"src":86},"Genomics Platform Homepage","\u002Fimages\u002Fannouncements\u002Fst-jude-cloud-restructure\u002Ffigure_platform-home.png",[15,88,89,96,97,102,103,108],{},[31,90,93],{"href":91,"rel":92},"https:\u002F\u002Fplatform.stjude.cloud",[35],[26,94,95],{},"St. Jude Cloud Genomics Platform"," enables users to access\nand analyze large next-generation sequencing (NGS) datasets in the cloud. Built\non top of the ",[31,98,101],{"href":99,"rel":100},"https:\u002F\u002Fwww.dnanexus.com\u002F",[35],"DNAnexus"," ecosystem and powered by ",[31,104,107],{"href":105,"rel":106},"https:\u002F\u002Fazure.microsoft.com\u002Fen-us\u002F",[35],"Microsoft\nAzure",", users can easily request access to the petabyte-scale NGS\ndata in St. Jude Cloud alongside their own data to be processed by a wide\nvariety of community-written analysis tools.",[15,110,111],{},"Features of the St. Jude Cloud Genomics Platform include",[113,114,115,124,127],"ul",{},[116,117,118,123],"li",{},[31,119,122],{"href":120,"rel":121},"https:\u002F\u002Fplatform.stjude.cloud\u002Fdata\u002Fdiseases\u002F",[35],"Request access"," the world's largest repository of\npediatric cancer related genomics data for analysis in the cloud or download.",[116,125,126],{},"Upload your data alongside St. Jude's data to do cross-cohort analysis in the\ncloud.",[116,128,129,130,135],{},"Leverage any of St. Jude Cloud's ",[31,131,134],{"href":132,"rel":133},"https:\u002F\u002Fplatform.stjude.cloud\u002Fworkflows\u002F",[35],"end-to-end computational\nworkflows"," written by experts in the respective areas.",[15,137,138,139,71],{},"To get started, visit the ",[31,140,142],{"href":91,"rel":141},[35],"Genomics Platform home page",[10,144,146],{"id":145},"pediatric-cancer-portal-pecan","Pediatric Cancer Portal (PeCan)",[83,148],{"alt":149,"src":150},"PeCan Homepage","\u002Fimages\u002Fannouncements\u002Fst-jude-cloud-restructure\u002Ffigure_pecan-home.png",[15,152,153,160,161,166,167,166,172,166,177,166,182,187,188,193],{},[31,154,157],{"href":155,"rel":156},"https:\u002F\u002Fpecan.stjude.cloud",[35],[26,158,159],{},"St. Jude Cloud PeCan"," features the pediatric cancer variation\nknowledge base curated by researchers at St. Jude Children's Research Hospital.\nThis application presents a cohesive picture of the ever-growing knowledge we\ndiscover about pediatric cancer through analyzing omics data. You can browse\ninformation on pathogenicity classification, variant recurrence, and much more\nfrom samples contributed by ",[31,162,165],{"href":163,"rel":164},"https:\u002F\u002Fstjude.org",[35],"St. Jude Children's Research\nHospital",", ",[31,168,171],{"href":169,"rel":170},"https:\u002F\u002Focg.cancer.gov\u002Fprograms\u002Ftarget",[35],"NCI TARGET",[31,173,176],{"href":174,"rel":175},"https:\u002F\u002Fwww.dkfz.de\u002Fen\u002Findex.html",[35],"German Cancer Research\nCenter",[31,178,181],{"href":179,"rel":180},"https:\u002F\u002Fwww.cmf.org.hk\u002Fprograms\u002Fshanghai-childrens-medical-center\u002F",[35],"Shanghai Children's Medical Center",[31,183,186],{"href":184,"rel":185},"https:\u002F\u002Fwww.utsouthwestern.edu",[35],"UT\nSouthwestern",", the ",[31,189,192],{"href":190,"rel":191},"https:\u002F\u002Fwww.broadinstitute.org\u002F",[35],"Broad Institute",", and the\nMedulloblastoma Advanced Genomics International Consortium (MAGIC).",[15,195,196],{},"Features of the St. Jude Cloud PeCan include",[113,198,199,207,216,229],{},[116,200,201,202,206],{},"Explore recurrently hit genes for subtypes of pediatric cancer using the\n",[31,203,205],{"href":155,"rel":204},[35],"donut chart"," on the home page.",[116,208,209,210,215],{},"View mutation hotspots and gene expression data in pediatric and adult cancer.\n",[31,211,214],{"href":212,"rel":213},"https:\u002F\u002Fpecan.stjude.cloud\u002Fproteinpaint\u002FNRAS",[35],"Click here"," for an example of\nviewing NRAS.",[116,217,218,219,222,223,228],{},"Dedicated ",[53,220,221],{},"Variant Pages"," which describe in-silico triaging, population and\nvariant frequencies, pathogenicity assessment by the St. Jude clinical\ngenomics tumor board, relevant publications, and more. ",[31,224,227],{"href":225,"rel":226},"https:\u002F\u002Fpecan.stjude.cloud\u002Fvariant\u002F46913",[35],"Click\nhere"," to see an example for NRAS\nG12D.",[116,230,231,232,237],{},"Run St. Jude's in-silico variant triaging algorithm against your variants\nusing the ",[31,233,236],{"href":234,"rel":235},"https:\u002F\u002Fpecan.stjude.cloud\u002Fpie",[35],"PeCan Pathogenicity Information Exchange"," (PeCan\nPIE).",[15,239,138,240,71],{},[31,241,243],{"href":155,"rel":242},[35],"PeCan home page",[10,245,247],{"id":246},"visualization-community","Visualization Community",[83,249],{"alt":250,"src":251},"Visualization Community Homepage","\u002Fimages\u002Fannouncements\u002Fst-jude-cloud-restructure\u002Ffigure_vizcomm-home.png",[15,253,254,261],{},[31,255,258],{"href":256,"rel":257},"https:\u002F\u002Fviz.stjude.cloud",[35],[26,259,260],{},"St. Jude Cloud Visualization Community",", the newest addition to\nthe St. Jude Cloud ecosystem, is home to St. Jude’s unique visualization tools\nsuch as ProteinPaint, GenomePaint, and SJCharts. Here, you can view community\ncreated visualizations using St. Jude tools, create visualizations with your own\ndata which can be shared with collaborators and included in papers, and learn\nhow to embed your visualizations in your website.",[15,263,264],{},"Features, both existing and those in development, include",[113,266,267,276,282],{},[116,268,269,270,275],{},"View ",[31,271,274],{"href":272,"rel":273},"https:\u002F\u002Fviz.stjude.cloud\u002Fvisualizations",[35],"community-created visualizations"," that use\nProteinPaint, GenomePaint, and SJCharts.",[116,277,278,279,71],{},"Create your own ProteinPaint, GenomePaint, and SJCharts visualizations\n",[53,280,281],{},"(coming soon!)",[116,283,284,285,71],{},"Host the data driving your visualizations securely in the St. Jude Cloud\nGenomics Platform ",[53,286,281],{},[15,288,138,289,71],{},[31,290,292],{"href":256,"rel":291},[35],"Visualization Community home page",[10,294,296],{"id":295},"conclusion","Conclusion",[15,298,299,300,305,306,311],{},"We feel confident that this new structure is a more scalable foundation on which\nwe can expand the types of data shared on St. Jude Cloud. In fact, we're already\nplanning the next set of features, including applications to explore rich,\nlongitudinal data from our ",[31,301,304],{"href":302,"rel":303},"https:\u002F\u002Fwww.stjude.org\u002Fresearch\u002Fresources-data\u002Fchildhood-solid-tumor-network.html",[35],"Childhood Solid Tumor Network"," and\n",[31,307,310],{"href":308,"rel":309},"https:\u002F\u002Fwww.stjude.org\u002Ftreatment\u002Fdisease\u002Fbrain-tumor.html",[35],"Neurobiology and Brain Tumor"," programs and a site-wide account that\ncan be used to access all of the applications instead of an account per\napplication. If you'd like to keep in the loop on these developments, we\nencourage you to subscribe to our email list using the link below the article.",[15,313,314,315,320,321,325,326,71],{},"For more detailed information about the restructure or how to use these apps,\nyou can visit our ",[31,316,319],{"href":317,"rel":318},"https:\u002F\u002Funiversity.stjude.cloud\u002Fdocs",[35],"documentation",". With any feedback or\nquestions not addressed by the documentation, you can ",[31,322,324],{"href":323},"mailto:support@stjude.cloud","contact our support\nteam",". For media inquiries, please ",[31,327,329],{"href":328},"mailto:media@stjude.org","contact our\nmedia relations team",{"title":331,"searchDepth":332,"depth":332,"links":333},"",2,[334,336,337,338,339,340],{"id":12,"depth":335,"text":13},3,{"id":20,"depth":335,"text":21},{"id":80,"depth":335,"text":81},{"id":145,"depth":335,"text":146},{"id":246,"depth":335,"text":247},{"id":295,"depth":335,"text":296},"2020-04-15","We are excited to announce the new structure and accompanying redesign of St. Jude Cloud, organized around apps and research domains.","md","\u002Fimages\u002Fconfetti-header.png",{},true,"\u002Fannouncements\u002Fst-jude-cloud-restructure",5,{"title":5,"description":342},"announcements\u002Fst-jude-cloud-restructure","E8TqhaDVSZZBOJXc64-ShchltIC0EqV5Pq7gMClJQdk",1790368686995]