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  • #31
    Six Illumina GA machines
    One SOLiD
    One Roche 454

    (there may be more, not sure)

    Genome Institute of Singapore
    60 Biopolis Street
    #02-01 Genome
    Singapore 138672

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    • #32
      New GoogleMap, search by platform and other features...

      Thanks to everyone for looking at the GoogleMap and adding information,
      there have been over 100,000 views! There is now an updated and improved
      version which you can find at http://pathogenomics.bham.ac.uk/hts/

      The old version is now locked for future edits but will be periodically
      updated from the new database. The new site allows you to add new sites,
      update sites with platforms and capacity and correct any errors you find
      on the map yourself.

      The new map has a number of new features. Sites are clustered together
      to make it easier to navigate high-density regions. You can filter by
      individual platform, for example "show me all sites which have Illumina
      & SOLiD". There is more information held about each site. All
      the work on the new map has been done by Nick Loman at University of
      Birmingham, I really must thank him for taking my idea and making it
      much more user friendly. We'd be grateful for any feedback if you find
      any small problems or have suggestions for improving the interface further.

      The map was put together in the first place to show how many places had
      installed systems. I think when I first made it there were about the
      same number of Illumina's world-wide as Broad has currently. There has
      been phenomenal growth in next-gen technologie.

      And of course, for those interested in the question of which platform is
      in the lead, we will be putting league tables up shortly. But we wanted
      to give the community some time to help get the map as accurate as
      possible. Look out for the tables next week.

      Hopefully this map can help you find someone close to you to collaborate
      with, ask questions or just go to the pub and join in nerdy
      conversations about your first sequences being 350bp on an autorad. DNA
      bp is the next MB of Ram!

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      • #33
        Thank you James! I really hope you all like the new site. Please do take the time to check the entry for your institute is as up-to-date as possible, and add missing facilities if you know about them. We'd be keen to get feedback on the usability and any features that would improve the site further. Obviously league tables are the next thing to implement!

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        • #34
          I tried adding our site to the map, but right-clicking the map did nothing. I'm using Firefox 3.0.15 on a Macbook Pro.
          Mendelian Disorder: A blogshare of random useful information for general public consumption. [Blog]
          Breakway: A Program to Identify Structural Variations in Genomic Data [Website] [Forum Post]
          Projects: U87MG whole genome sequence [Website] [Paper]

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          • #35
            Thanks for the feedback. I gave it a try on Firefox 2.0 on the Mac and it seemed to work. Did you try CTRL-CLICK on the map? I have found some references to there being a possible bug in Firefox 3 and right-click handling so perhaps that's the issue (http://code.google.com/p/gmaps-api-i.../detail?id=377). Anyway, if you still have problems try going directly to http://pathogenomics.bham.ac.uk/hts/add/ and dragging the marker to the correct place (you'll need to zoom out a bit).

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            • #36
              Yes, the map is very nice and very useful. It is also still very incomplete, at least for two countries I know fairly well i.e. France and Taiwan (there are at least five second-gen systems in Taiwan that I know of). I'll be collecting the information with the correct institution names for you.
              Cheers,
              Bertrand
              Bertrand Jordan
              Marseille-Nice Genopole
              Luminy Science Park
              13288 Marseille, FRANCE

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              • #37
                Great, thank you Bertrand!

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                • #38
                  NextGen Sequencers in India

                  Dear James,

                  Appreciate if you could add Xcelris Labs from Gujarat, India in your Google map too. We are using ABI SOLiD v3 and Roche 454 for Whole genome sequencing studies. Congratulations for such an excellent work................
                  Regards,
                  DSB

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                  • #39
                    Dear All,
                    Please try and add updates and new labs yourself. This is the intention of the new map, it is interactive and does not require effort by a single person.

                    James.

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                    • #40
                      The new link for the google map is now, http://pathogenomics.bham.ac.uk/hts. You can add stuff and sort by instrument here now.
                      Enjoy.

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                      • #41
                        Love the map

                        But by my calculation it is only catching about 15% of all the installations. How do we get the rest to sign up ?

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                        • #42
                          League Tables?

                          Originally posted by james hadfield View Post
                          And of course, for those interested in the question of which platform is
                          in the lead, we will be putting league tables up shortly. But we wanted
                          to give the community some time to help get the map as accurate as
                          possible. Look out for the tables next week.
                          James - fantastic work, very very useful. What's the status on the league tables?

                          Comment


                          • #43
                            Hello,

                            I just added a few mexican sites -- sadly most don't have webpages in English. Anyhow, I was at a loss as to how to edit one entry, so if you get stuck like me, take these steps:

                            Open the map
                            Click on the "Browse" tab
                            Click on the name of the sequencing centre
                            Click on the "update this centre's details" link
                            Edit all you want For the map location just drag and drop it ^^
                            Click on "submit changes"

                            Greetings,
                            Leo
                            L. Collado Torres, Ph.D. student in Biostatistics.

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                            • #44
                              Originally posted by SPQR View Post
                              James - fantastic work, very very useful. What's the status on the league tables?
                              I've got them working and hope to put them live in the next few days.

                              I'll post again when they are ready.

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                              • #45
                                Originally posted by lcollado View Post
                                Hello,

                                I just added a few mexican sites -- sadly most don't have webpages in English. Anyhow, I was at a loss as to how to edit one entry, so if you get stuck like me, take these steps:
                                Greetings,
                                Leo
                                Thanks Leo for posting this. I'm in the process of making a few changes to the map site to hopefully make it more intuitive to edit/add centres.

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