tag:blogger.com,1999:blog-5574479.post6607248216769297965..comments2024-03-29T06:53:23.405+00:00Comments on The IPKat: ST. 26 sequence listings: A forward or backward step for ease of access to patent sequence data?Verónica RodrÃguez Arguijohttp://www.blogger.com/profile/05763207846940036921noreply@blogger.comBlogger4125tag:blogger.com,1999:blog-5574479.post-15534066598349841442022-04-04T16:23:59.090+01:002022-04-04T16:23:59.090+01:00I would just like to add here that if the aim of a...I would just like to add here that if the aim of a person downloading a sequence listing is to inspect and interpret the technical content of the sequence, then in all probability they are likely to be a sophisticated enough user to be able to handle the xml wrapping around that content. Let's not forget that sequence listings aren't any more understandable to the lay person just because they have a txt file extension and are laid out in fixed-space non-proportional font. There is no getting around the requirement to understand what each sequence means, irrespective of the container in which it is stored, otherwise what would the use case be for someone needing to download, retrieve and interpret the data contained in the sequence listing, and how would wrapping that data in an xml wrapper make understanding that data any more arduous ? CasualUsernoreply@blogger.comtag:blogger.com,1999:blog-5574479.post-85357975366587658472022-02-28T15:18:16.035+00:002022-02-28T15:18:16.035+00:00Just to say that we've got a CIPA webinar sche...Just to say that we've got a CIPA webinar scheduled for Monday 21st March all about WIPO ST.26, and including a speaker from the UKIPO. Details here: <a href="https://www.cipa.org.uk/events/everything-you-need-to-know-about-sequence-listings-wipo-st-26-and-the-forthcoming-big-bang/" rel="nofollow">https://www.cipa.org.uk/events/everything-you-need-to-know-about-sequence-listings-wipo-st-26-and-the-forthcoming-big-bang/</a>Jim Robertsonhttp://www.lawrie-ip.comnoreply@blogger.comtag:blogger.com,1999:blog-5574479.post-66378058544664851252022-02-25T16:58:25.109+00:002022-02-25T16:58:25.109+00:00I hesitate to suggest that you have rather proved ...I hesitate to suggest that you have rather proved than disproved my point, if sequence listings are to be easily accessible to none "BioInformatics Nerds"? Whilst XML readers exist (including of course WIPO sequence), interpreting sequence listings will require more processing steps and more patent/bioinformatics expertise. My point was not that the sequences will be completely inaccessible, merely that they will require more time and expertise to understand. Your point also assumes that a txt form of the XML file will be published, and not just a PDF, and I don't believe this is yet clear. Rose Hugheshttps://www.blogger.com/profile/04232611463781544102noreply@blogger.comtag:blogger.com,1999:blog-5574479.post-48950522981890127842022-02-24T11:36:11.580+00:002022-02-24T11:36:11.580+00:00Apart from the verbosity of the new standard, whic...Apart from the verbosity of the new standard, which when compared to TXT files is pretty significant, there aren't really any obstacles to obtaining the sequence data.<br /><br />At least one free office suite is capable of loading the XML file into a spreadsheet, and allowing the user to choose which tags to query for the desired content , i.e. the sequences themselves. Obviously, the limit to that would be the number of lines of data that the spreadsheet can support, but still, this is nonetheless fairly significant.<br /><br />Alternatively, there are multiple XML reader/editors out there, some of them free, some of them integrated into a database environment (e.g. BaseX, existDB, etc) which allow parsing of the XML using XQuery to display only the desired content, and then export that to another format, e.g. CSV, Excel, etc.<br /><br /><br /><br />I don't really see this as the problem the Kat makes this out to be, unless I've missed something.BioInformaticsNerdnoreply@blogger.com