====== Imaging Data Standards ====== **The mailing list for the working group has been changed. Please use [[image@4dnucleome.org|]] from now on as the new mailing list address.** **IMAGING DATA STANDARDS: ESTABLISH STANDARDS FOR DATA FORMATS AND QUALITY CONTROL** Co-Chairs: Year 4: Rob Singer and David Grunwald Year 3: Rob Singer, Joan Ritland and David Grunwald Year 2: Rob Singer, Joan Ritland . Year 1: Mark Ellisman, Xavier Darzacq **DATA UPLOAD IS LIVE** **(Since March, 2018)** **Upload of imaging data to the 4DN portal is live. Please let us know if you have Imaging data gathered with 4DN funding and you are not on this list:[[https://urldefense.proofpoint.com/v2/url?u=https-3A__docs.google.com_spreadsheets_d_14Msheyhc-2Du8KnU3R5W8Ow-2DuSPyoMKlWBsvJYAsRTxVg_edit-3Fusp-3Dsharing&d=DwMGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=pAoWtnodElXrjxYcFAfWT-vDVryz10zQbgVTseMWHes&m=KGxgREPISraguz-OAS_HjaxbxGXgP586YrAH4rmiZtg&s=N9iRI3QcXzYCoU_nTj6i8gbCIAaCTldSGFaJot_Vaek&e=|https-3A__docs.google.com_spreadsheets_d_14Msheyhc-2Du8KnU3R5W8Ow-2DuSPyoMKlWBsvJYAsRTxVg_edit-3Fusp-3Dsharing.]]** **This link gives information on the upload process from DCIC:[[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/180306_dcic_data_upload.pdf?attredirects=0&d=1|180306_dcic_data_upload.pdf]]** ===== Imaging WG Meeting WebEx Information ===== **1st Monday of every month, 12:00 pm PT (3:00 pm ET)**\\ **Meeting Link:**\\ [[https://4dnucleome.webex.com/4dnucleome/j.php?MTID=m033f3efc842cb3821d91cfbf9a125375|https://4dnucleome.webex.com/4dnucleome/j.php?MTID=m033f3efc842cb3821d91cfbf9a125375]]\\ Meeting number: 806 955 362\\ Meeting password: KvTsi3bA\\ Host key: 927479\\ Audio Connection: 1-415-655-0002 US TOLL\\ Access code: 806 955 362 **WEBEX EMERGENCY CONTACT INFORMATION: ** **KATE RIVERA** **858-822-1626 (OFFICE)** ===== Mission / Objectives ===== ==== Year 3 goals: ==== * Develop and distribute calibration tool to imaging groups and get feedback. * Benchmark imaging to standardize among groups and imaging platforms in collaboration with the Joint Analysis WG. * Develop a workflow to process, analyze and store imaging data. * Compare methods and develop an SOP for high resolution FISH. ==== Year 2 goals ==== * Distribute common calibration sample, evaluate images of sample from different imaging platforms. [[https://docs.google.com/document/d/1fLj-zn0afxw4Ua8Os-kKk3olwRJAZ9YeD86Ea80fzfI/edit?usp=sharing|Ellenberg Common Imaging Sample Nup U2OS]] * Identify a second Tier 1 cell line that imagers as well as omics folks will use. November meeting recommends IMR-90 for consideration. April meeting recommends the inbred mESC line, JM8.N4 for consideration. Both lines approved by Cell Lines WG. * Develop metadata standards for production labs. Imaging WG members David Baddeley and David Scalzo working with DCIC on this goal. See May 2017 lock-in meeting summary below, and [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Guidance to DNA FISH labs.docx?attredirects=0&d=1|Guidance to DNA FISH labs.docx]]. ==== Year 1 goals ==== ***SCOPE*** The 4D Nucleome Initiative investigators efforts will result in production of a variety of different types of datasets obtained by imaging the nuclei of single cells with multiple methodologies. An immediate objective of this working group is to identify the image data types; to develop a format for each and to keep a working list of the nature of these datasets. The group will discuss these topics and determine our course of action. We hope to determine how these data would be archived and retrieved by other 4DN groups, and the larger community of biomedical investigators. We will also work to implement, among the imaging groups of the 4D nucleome, practices that enable a suitable data sharing strategy – one that might resemble that of the genomics field (eg., data deposition prior to publication and shared upon publication). ***TASKS*** Our first task will be to define the list of datasets and data types that are being generated under 4DN support and assemble a small working group with sufficient expertise to work out the details required to properly annotate and archive all of them. After our meeting we will collect information about these datasets from the different groups. - For each type of data we consider how to establish bridges that link to data types of the other working groups * - Determine Publication policy (set standards for data release upon publication) * - Connect the imaging data to emerging "Omics" data standards ((discuss where the data will be stored, unify metadata, [eg., discuss agreements regarding minimal metadata required for each data type]) * - Consider tools available for data analysis [eg., discuss examples of tools available or under development and look into and/or integrate data within and between image data types; potentially to connect these data to omics-oriented data resources]. * - Consider discussions of specific cell lines and samples types (compatibility with the metadata standards efforts) ===== Meeting notes ===== - February 2016[[https://drive.google.com/open?id=0B-1LP9SPtB1MaUFVVXF2UEpKaGM|FEB MEETING NOTES]] - March 2016[[https://docs.google.com/viewer?a=v&pid=sites&srcid=NGRudWNsZW9tZS5vcmd8NGQtbnVjbGVvbWUtd2lraXxneDoxMDBkYmQ3NDg0NWNhZGZi|March agenda]][[https://drive.google.com/file/d/0B-1LP9SPtB1MQ2RKOF8yblN0c2s/view?usp=sharing|MARCH MEETING NOTES]] - April 2016 -[[https://drive.google.com/open?id=0B-1LP9SPtB1MdmJEV3BjVXdDbEE|APRIL MEETING NOTES]] - May 2016[[https://drive.google.com/file/d/0B-1LP9SPtB1Mcl9rSXZ2MWRBSkE/view?usp=sharing|MAY MEETING NOTES]] - June 2016[[https://drive.google.com/file/d/0B-1LP9SPtB1MTmtQN29qYXBKTXM/view?usp=sharing|JUNE MEETING NOTES]] - July 2016[[https://drive.google.com/open?id=0B-1LP9SPtB1MOG9hVlVVNzFMaTg|JULY MEETING NOTES]] - September 2016[[https://drive.google.com/file/d/0B-1LP9SPtB1MQXZuWVNVWVRCRXc/view?usp=sharing|SEPTEMBER MEETING NOTES]] - November 2016[[https://docs.google.com/document/d/17sb_9eX4I2iybohphkfOpWYSltLt9hM9rPaJGkzmfnQ/edit#|November meeting notes]] - December 2016[[https://docs.google.com/viewer?a=v&pid=sites&srcid=NGRudWNsZW9tZS5vcmd8NGQtbnVjbGVvbWUtd2lraXxneDoxNWFiMjkyZTY4MDgwODg5|December 2016 meeting notes]] - January 2017[[https://docs.google.com/viewer?a=v&pid=sites&srcid=NGRudWNsZW9tZS5vcmd8NGQtbnVjbGVvbWUtd2lraXxneDoyOTA4NjM5ZGZjMjhkMDJh|January 2017 minutes]] - February 2017[[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/4DN Imaging Working Group Meeting 021417.docx?attredirects=0&d=1|Feb 2017 minutes]] - March 2017:[[https://docs.google.com/viewer?a=v&pid=sites&srcid=NGRudWNsZW9tZS5vcmd8NGQtbnVjbGVvbWUtd2lraXxneDo3OTAxNTcyZTdhMDMyN2U|DCIC updates]], [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/March Imaging WG Minutes.docx?attredirects=0&d=1|March 2017 minutes]] - April 2017:[[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/040517 Minutes Imaging WG meeting-4.docx?attredirects=0&d=1|April 2017 meeting notes]] - May 2017[[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Imaging WG minutes May 2 2017.docx?attredirects=0&d=1|May 2017 minutes]] - Lock-in May 2017 Summary[[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Lock-inMeetingSummaryMay192017-1.docx?attredirects=0&d=1|Worcester Calibration Standards/Metadata Meeting Summary]] - June 2017 minutes[[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/June 6 Imaging WG minutes.docx?attredirects=0&d=1|June 2017 minutes]] - July 2017 minutes[[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/July 2017 Imaging Minutes_finalfinal.docx?attredirects=0&d=1|July 2017 minutes]] - August 2017 minutes[[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/August Imaging WG Minutes.docx?attredirects=0&d=1|August Imaging Minutes.docx]] - [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Sept 2017 Minutes.docx?attredirects=0&d=1|Sept 2017 minutes]] - [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Imaging Working Group Meeting Minutes 100317_short .docx?attredirects=0&d=1|October 2017 minutes]] - [[https://drive.google.com/file/d/12x2wzYN7zDira5Egnmxkqjy9xToIsKhm/view?usp=sharing|November 2017 minutes]]: Jason Swedlow presentation on Euro BioImaging image curation pipelines - [[https://docs.google.com/document/d/1UR9TGFiZoI9yle4StiYvRfCAp1NK8nbouj0MT8LJ128/edit?usp=sharing|January 2018 minutes ]]: LINCspresentation on image curation and integration with other data types - No Feb meeting - March 6, 2018.DCIC and Gianluca Pegora presentation on progress with Misteli HIP FISH data upload. ([[https://docs.google.com/document/d/1X5qahMOwKjY7jyrXI4ExUkIIpaYNqpRZRd6CUCXRhgs/edit?usp=sharing|minutes]], [[https://4dnucleome.webex.com/4dnucleome/ldr.php?RCID=03b56efb38aad3a17dab9db60b900408|recordings]]) - March 21, 2018.Allen Institute for Cell Sciences presented their approaches to image data management and machine learning for predicting nuclear structure. ([[https://docs.google.com/document/d/1X5qahMOwKjY7jyrXI4ExUkIIpaYNqpRZRd6CUCXRhgs/edit?usp=sharing|minutes]],[[https://4dnucleome.webex.com/4dnucleome/ldr.php?RCID=03b56efb38aad3a17dab9db60b900408|recordings]]) - April 3, 2018 Anders Hansen (Darzacq lab) presented their SPT data and progress on SPT data annotation and upload. IWG approves upload of trajectory data only at this time - raw and analyzed data formats will be defined in the future. Caterina Strombio, a non-4DN member who has been designing tools for managing and analyzing SPT data at UMASS, sat in on this call. [[https://4dnucleome.webex.com/4dnucleome/ldr.php?RCID=4ed5cbdc20e882e9af37e53094cc0c2e|(recordings]], [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/20180403_4DN_SPT_format.pdf?attredirects=0&d=1|Anders Hansen SPT format ppt]], [[https://docs.google.com/document/d/1hgJhCvvOWhNoEErCbvmCpRQ1ZbEkhYOTdxaAxGzX7OQ/edit?usp=sharing|minutes]]) - April 18, 2018. Charles Kenworthy (Coleman/Singer) presentedSPTdatafrom theirnew BioRxiv[[https://www.biorxiv.org/content/early/2017/10/04/111674|paper]]. [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/041818_IWG_CK.pptx?attredirects=0&d=1|Kenworthy ppt]]. [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/BAF180_WT.avi?attredirects=0&d=1|Kenworthy movie]]. The SPT metadata format presented at the April 3rd meeting was approved . There were no commentson the drafts Anders circulated. Caterina Strombio sat in on[[https://4dnucleome.webex.com/4dnucleome/ldr.php?RCID=1d0cc870140576d1883f17140d5dd665|this call also. (recordings]], [[https://docs.google.com/document/d/1TJZDozeMEhjGbjbUoOpQVqds-62nsW6Dq9KdqxuUonE/edit?usp=sharing|minutes]]) - May 1,2018Tristin Liu (Ren lab) presents SOX2 imaging data. This is one of the joint analysis common gene targets ([[https://4dnucleome.webex.com/4dnucleome/ldr.php?RCID=a6836aaf333a92ad24f7314a6cf08299|recordings]],[[https://docs.google.com/document/d/1dzzZnjD0mUhysWVkPfGO0QZk0f9heVKghUwOvro3m2g/edit?usp=sharing|minutes]]) - May 16, 2018.Sofi Quinodoz (Guttman Lab) will present imaging data from their SPRITE paper ([[https://4dnucleome.webex.com/4dnucleome/ldr.php?RCID=8a8e203876e0adcd532f14847256601f|recordings]]) - June 5, 2018 Organizational Meeting[[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/IWG meeting 2018-06-05 Agenda.docx?attredirects=0&d=1|June 4, 2018 minutes]] - June 20, 2018 Raja Ghosh (Liphardt lab) presents SPT data and progress on SPT data annotation and upload.[[https://4dnucleome.webex.com/4dnucleome/ldr.php?RCID=4bf3b0806e536772d8d72bac7ff156c3|(recording]]) - August 8 at 1PM Pacific - note time change - David Baddeley will present approaches to image curation.[[https://4dnucleome.webex.com/4dnucleome/ldr.php?RCID=d1fbff6f3d935663fde2d974a9885d92|(recording)]] - September 4, 2018 - ([[https://4dnucleome.webex.com/4dnucleome/ldr.php?RCID=0f623efc97e69d1083ea227d087a6c06|recording]]), agenda - September 19, 2018. Peter Wang (presenter), [[https://docs.google.com/a/4dnucleome.org/viewer?a=v&pid=sites&srcid=NGRudWNsZW9tZS5vcmd8NGQtbnVjbGVvbWUtd2lraXxneDo0YmY0YWMzNDBlOGE1OGM4|AGENDA]], [[https://4dnucleome.webex.com/4dnucleome/ldr.php?RCID=61242f89d503f5c2086d17e290a4d59f|Recording]], Minutes, - October 2, 2018 - Dr. Bing Ren, Dr. William Noble and Dr. Susanne Rafelski will present. ([[https://4dnucleome.webex.com/4dnucleome/ldr.php?RCID=84384e940be6a97cf48ff7517a7bdc94|recording]]) - October 17, 2018 - Ting Wu (presenter), ([[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/Ting Wu 17OCT18.pdf?attredirects=0|PP presentation]]), ([[https://4dnucleome.webex.com/recordingservice/sites/4dnucleome/recording/playback/3e29dc3f6287422f843cbaf8d1556f7b|recording]]) - November 6, 2018 - Paul Kaufman and Gianluca Pegoraro (presenters - 20 minutes shorter), talk discussion (20 minutes), Subgroup Omics to Imaging report (20 minutes), AGENDA, ([[https://4dnucleome.webex.com/recordingservice/sites/4dnucleome/recording/playback/39516d2d28cd4567a07c4f3e22497978|recording]]) - November 28, 2018 - ([[https://4dnucleome.webex.com/recordingservice/sites/4dnucleome/recording/playback/8c15bde0d1164636869035dfc4d3d5bb|recording]]) - December 19, 2018 - ([[https://4dnucleome.webex.com/recordingservice/sites/4dnucleome/recording/playback/8e6de470a26b4af6b2bf1db7f66b1ed6|recording]]) - January 16, 2019 - CANCELLED - February 4 , 2019 - ([[https://4dnucleome.webex.com/4dnucleome/ldr.php?RCID=59b12264dd701b76fb4e9f51c879c77c|recording]]) - March 4, 2019 - ([[https://4dnucleome.webex.com/4dnucleome/ldr.php?RCID=bd0df520ce023c9cbd74f114b3561e64|recording]]), [[https://drive.google.com/file/d/0B1Uh14Y8H75dMnBIQVYzTHpSYVJ1TldtaFU2dTI3dG0xbmhF/view?usp=sharing|Protocol for March 4th IWG meeting]], - April 1, 2019 - [[https://drive.google.com/file/d/0B1Uh14Y8H75dcmtHM3pzR3JjR0NFTVV1STgwSllFaUJnZHk0/view?usp=sharing|agenda]], [[https://4dnucleome.webex.com/4dnucleome/ldr.php?RCID=c8710da87b546d0c60371ce93f66f0c5|recording]], [[https://drive.google.com/file/d/1KbcZ1YKIg12oiIFhMEnNhpnNyNUy4vSn/view?usp=sharing|protocol for April 1st IWG meeting]] - May 6, 2019 - [[https://docs.google.com/document/d/1HvYw5FwP8KrIFu-f-gPYmAX6OREQTLauJMoLSPjo1uQ/edit?usp=sharing|agenda]], [[https://drive.google.com/open?id=11mG1oRhBIg-p536arr9RfGCF_tYRBYhF|recording]] - June 3, 2019 - CANCELLED - July 1, 2019 - agenda - CANCELLED - August 5, 2019 - [[https://drive.google.com/file/d/1kHfCc3TDALjCx_SKFrWM0Fo4XbcgDF_w/view?usp=sharing|agenda]], [[https://drive.google.com/open?id=1G100uAmf2WOsxx6iiFkK48OqgzDxtSig|recording]] - September 9, 2019 - CANCELLED - October 7, 2019 - [[https://drive.google.com/open?id=1LFK1ZHPlqnjNNa2JjgDT0qWvguMLLT_U|recording]] - November 4, 2019 - [[https://mail.google.com/mail/u/0?ui=2&ik=ed374f079d&attid=0.1&permmsgid=msg-f:1649308673741706204&th=16e38580175853dc&view=att&disp=inline|slides]], recording (Talk by Max Huisman (Grunwald lab) MetaMax Generation 3 – What you would like to know about your microscope that will stay hidden from meta data), [[https://drive.google.com/open?id=1MnAEOIC2PGfc_iXAod5FoVTYPKgQPjt5|recording]] - December 2, 2019 - CANCELLED - January 6, 2020 - CANCELLED - February 3, 2020 - [[https://drive.google.com/open?id=1hjtw1kCrjhHDWCBno40_CSoPOi-cQjgF|recording]] - March 2, 2020 - CANCELLED - April 6, 2020 - CANCELLED - May 4, 2020 - [[https://docs.google.com/document/d/1VXmH_ppUsoCsDmoUOx3bSbMg6IYn9ecu7OpeiWqW7Hc/edit?usp=sharing|Agenda]], [[https://drive.google.com/open?id=1LQNY2n2ptAw0GS09R6bQJqgGExsAnmaG|Recording link]] - June 1, 2020 - [[https://docs.google.com/document/d/100EWw4AGdZ-UKJeLRroJV6MCzHx9Xm770O55p4XXbN4/edit?usp=sharing|Agenda]], [[https://drive.google.com/open?id=1TQ_Wzd7v1c-Ckb7DT2I4qWiStP0vpDol|Recording link]] ===== 2017 Annual Meeting ===== * [[https://docs.google.com/document/d/1Y35pFmAa3AUVoRj5aA5iKf3ueuqpcbDADnJ-_0N_SBY|Imaging group 2017 Annual Report]] * [[https://goo.gl/CDLs2y|Imaging Group Working Dinner September 19, 2017 Raw Notes]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Microscopy Demo Tutorial material.pdf?attredirects=0&d=1|Microscopy Calibration Demo ]] ===== Documents ===== Metadata documents, October 2017: * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Draft - PSFj 1 page protocol.docx?attredirects=0&d=1|PSF protocol]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Metadata-4DN_calibration-OlympusFluoview1000-Ellisman-NPCALEXA647.txt?attredirects=0&d=1|Metadata]] Guidance for uploading DNA FISH data to DCIC [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Guidance to DNA FISH labs.docx?attredirects=0&d=1|Guidance to DNA FISH labs.docx]] Open the docs below with Google docs to be able to add your comments: * [[https://drive.google.com/file/d/0B-1LP9SPtB1MUWFndVVMQm94ZEE/view?usp=sharing|Technical specifications for LSM calibration]] * [[https://docs.google.com/document/d/1fLj-zn0afxw4Ua8Os-kKk3olwRJAZ9YeD86Ea80fzfI/edit?usp=sharing|Ellenberg Common Imaging Sample Nup U2OS]] * [[https://drive.google.com/file/d/0B-1LP9SPtB1MT1RpZkFxS3hXOTg/view?usp=sharing|Technical specifications for wide field calibration-3]] [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Amin_Groudine_G4_GeneTrap_list.xlsx?attredirects=0&d=1|Groudine G4 TetO gene trap library]] ===== Data ===== [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Amin_Groudine_G4_GeneTrap_list.xlsx?attredirects=0&d=1|Groudine G4 TetO gene trap library]] **NUP107 A647 images:** \\ __Ries/Ellenberg, EMBL__ * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/SNAPtag Staining Protocol Vilma Ulf.pdf?attredirects=0&d=1|Staining Protocol]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Ries_AiryScan.zip?attredirects=0&d=1|Ries_Airyscan_1]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Ries_AiryScan_tif.zip?attredirects=0&d=1|Ries_Airyscan_2]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Ries_STORM.zip?attredirects=0&d=1|STORM]] __Ritland/Groudine, FredHutch__ * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/jritland_012017_Airyscan_60x_05_tif.zip?attredirects=0&d=1|Ritland_Raw_Airyscan]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/jritland_012017_Airyscan_60x_05_AiryscanProcessing.ome.zip?attredirects=0&d=1|Ritland_processed_Airyscan]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/jritland_012017_Airyscan_60x_05.tif_metadata.xml?attredirects=0&d=1|Ritland_airyscan_metadata]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Airyscan imaging parameters.docx?attredirects=0&d=1|Ritland_imaging text summary]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/C2-020317_U2OS_647_005_dark_raw_.ome.zip?attredirects=0&d=1|Ritland_Widefield stack_dark]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/C3-020317_U2OS_647_005_fluor_raw_.ome.zip?attredirects=0&d=1|Ritland_Widefield stack_647]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/020317_U2OS_647_005 metadata.txt?attredirects=0&d=1|Ritland_widefield_metadata]] __Singer Lab, Einstein and Janelia__ * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Singer lab SIM.zip?attredirects=0&d=1|Singer SIM]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Singer lab Wide field.zip?attredirects=0&d=1|Singer widefield]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Singer_lab_JRC.zip?attredirects=0&d=1|Singer_lab_JRC.zip]] __Bewersdorf Lab, Yale__ * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/U2OS_LeicaSP8_BewersdorfLab.txt?attredirects=0&d=1|Bewersdorf LeicaSP8 text]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/U2OS_LeicaSP8_BewersdorfLab_tif.zip?attredirects=0&d=1|Bewersdorf LeicaSP8]] __Zipfel, Cornell__ * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Zipfel_NUP_Images_slide1.zip?attredirects=0&d=1|Zipfel_NUP_Images_slide1.zip]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/Notes_WZipfel_NUP_images.pdf?attredirects=0&d=1|Notes_WZipfel_NUP_images.pdf]] __Peltier/Ellisman__ * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/4DN_calibration-LeicaSPEII-Ellisman-NPCALEXA647.tif?attredirects=0&d=1|Ellisman LeicaSPEII]] * [[https://sites.google.com/a/4dnucleome.org/4d-nucleome-wiki/working-groups-list/imaging-data-standards-wg/4DN_calibration-OlympusFluoview1000-Ellisman-NPCALEXA647.tif?attredirects=0&d=1|Ellisman_OlympusFluoview1000]] ===== Members ===== Insert spreadsheet members ===== Mailing list ===== The mailing list to use for communication in this Working Group is . Emails sent there will go to everyone on the list. Replying to an email from the list will also send it to everyone in the list. ===== Calendar ===== {{url>https://calendar.google.com/calendar/embed?src=jo4jt0rd8934t7l1rfn8g2beu4%40group.calendar.google.com&ctz=America%2FLos_Angeles 800,400 noborder|4DN OMICS WG Calendar}} ---- {{medialist>4dn:working_groups:imaging_data_standards:}}