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Single cell atlas of human glioma

We profiled 87 primary-recurrentpatient-matched paired GBM specimens with single-nucleus RNA and bulk-DNA sequencing and single-cell open-chromatin and spatial transcriptomics/proteomics assays. We found that recurrent GBMs are characterized by a shift to a mesenchymal phenotype in response to therapy

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UCSF Brain Tumor Data Access Agreement

A. Data Recipient Information List information for Institution receiving the Data Set (“Institution”) and Principal Investigator (“Principal Investigator”) and include any co-investigators, staff, or students (collectively, “Other Users”) that will be provided access to the Data Set at Institution. Effective Date Name of Institution Institution Address Name of Principal Investigator Title Department Address 1 Address 2 City, State, Zip Phone Fax Email Title of Project Name(s) of Other Users Project Summary (Limit to this space) Data Set Analysis Plan (“Study”) 1. Introduction (Rationale and Background) 2. Research Aims 3. Hypotheses. 4. Analytical plan. 5. References. B. UCSF Principal Investigator Contact Information Name: Aaron Diaz, Ph.D. Title: Associate Professor of Neurological Surgery Address: Box 0520, 1450 3rd Street HD487A University of California, San Francisco San Francisco, CA. 94158 - 0520 Tel: 415-514-0408 Email: DATA ACCESS AGREEMENT This Data Access Agreement (“Agreement”) is between the Regents of the University of California, on behalf of its San Francisco campus (“UCSF”), and the Institution (as defined in Section A) and is effective as of the “Effective Date”, indicated in Section A. Institution and Principal Investigator, as defined in Section A, are collectively referred to herein as “Data Recipient”. This Agreement governs the terms of access to the de-identified dataset generated at UCSF under the direction of Aaron Diaz, Ph.D. (“UCSF Principal Investigator”), entitled: “Comparison of EGF and PDGF driven gliomas.” (“Data Set”). 1. Responsibility of UCSF The Data Set was collected in accordance with applicable laws, regulations, patient consent forms and authorizations pursuant to Institutional Review Board (IRB) approval and was de-identified in accordance with the Health Insurance Portability and Accountability Act (HIPAA). 2. Responsibility of Data Recipient Data Recipient agrees that: a. the Data Set shall be used solely for the Study described in Section A; b. any additional uses of the Data Set by the Data Recipient shall be covered under a separate agreement; c. the Data Set shall be used in compliance with all applicable local, state and federal statutes and regulations; d. the Data Set shall be used only at the Institution by the Principal Investigator and the Other Users working under his/her direct supervision; Principal Investigator will notify the UCSF Principal Investigator of any departures of the Principal Investigator or Other Users within 30 days of the changes made. e. the Data Set shall not be transferred, in whole or in part, to anyone outside the Institution without prior written consent of UCSF. f. Data Recipient will not contact or make any effort to identify individuals who are or may be included in the Data Set. 3. Confidentiality Data Recipient shall not disclose the Data Set to anyone except the Principal Investigator and the Other Users for the purposes of the Study. The Data Recipient will use the Data Set only in the conduct of the Study and evaluation of its results. Data Recipient agrees to preserve, at all times, the confidentiality of the Data Set. Data Recipient will use the Data Set in a secure manner using appropriate administrative, physical storage and technical safeguards to prevent use or disclosure of the data other than as provided for in this Agreement. Data Recipient agrees to notify the UCSF Principal Investigator within 5 days of becoming aware of any use or disclosure of the Data Set in violation of this Agreement. 4. Publication Data Recipient agrees to acknowledge the UCSF Principal Investigator in any publication, presentation, abstract or other work based in whole or in part on the Data Set. Data Recipient will cite the UCSF Glioma Genomics Data Set as the source of the data in the methods. 5. Intellectual Property Inventorship of inventions invented by Data Recipient in the performance of the Study (“Inventions”) shall be determined according to U.S. patent law and ownership will vest in the party to whom the inventor has an obligation to assign all right, title and interest in the Invention. Nothing in this Agreement grants Data Recipient any rights to use the Data Set for commercial purposes. UCSF explicitly retains ownership of the Data Set and this Agreement does not restrict UCSF’s right to distribute the Data Set to other entities. Notwithstanding the foregoing, Data Recipient shall not pursue intellectual property rights which occur as a result of the use of the Data Set in the performance of the Study without first notifying UCSF so that UCSF can assert claims to legal inventorship under U.S. law. Data Recipient agrees not to make intellectual property claims on the Data Set and not to use intellectual property protection in ways that would prevent or block access to the Data Set. This Agreement in no way alters any rights or interests of the U.S. government. 6. Limitation of Liability THE DATA SET IS EXPERIMENTAL IN NATURE AND IS BEING MADE AVAILABLE TO RECIPIENT WITH NO WARRANTIES, EXPRESS OR IMPLIED, OF MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE OR OTHERWISE. IN PARTICULAR, UCSF DOES NOT REPRESENT OR WARRANT THAT THE USE OF THE DATA SET WILL NOT INFRINGE OR VIOLATE ANY PATENT OR PROPRIETARY RIGHTS OF THIRD PARTIES. To the extent permitted by law, Institution assumes all liability for damages which may arise from the use, storage or disposal of the Data Set by Data Recipient. UCSF (including, but not limited to, its directors, trustees, officers employees, students and agents, as applicable), will not be liable to the Data Recipient for any loss, claim or demand made by or against the Data Recipient or Other Users, due to or arising from the use of the Data Set by the Data Recipient or Other Users or due to unavailability of or interruption in Data Set access for whatever reason, except to the extent caused by the gross negligence or willful misconduct of the UCSF. To the extent allowable under applicable laws, Institution agrees to indemnify, defend and hold harmless UCSF and its trustees, officers, staff, representatives and agents against all damages, expenses (including without limitation legal expenses), claims, demands, suits or other actions arising from Data Recipient’s acceptance, storage, use and disposal of the Data Set, but only in proportion to and to the extent such are caused by or result from the negligent or intentional acts or omissions of Data Recipient, Other Users, or Institution’s officers, agents or employees. 7. Assignment. This agreement is not assignable by Institution. 8. Term and Termination The term of this agreement shall commence on the Effective Date and shall continue for as long as the Data Recipient retains the Data Set, unless terminated sooner as set forth in this Agreement. The Data Recipient may terminate this Agreement at any time by notifying the UCSF Principal Investigator. UCSF may terminate this Agreement at any time upon breach of this Agreement by Data Recipient. In the event of termination, Data Recipient shall destroy the Data Set and all copies in its possession, including all documents created by Data Recipient where portions of the Data Set are reproduced. 9. Agreement If Data Recipient agrees to the above terms and conditions for access to the Data Set, please so indicate by returning one copy of this Agreement signed by a duly authorized representative of Institution and by Principal Investigator. Upon receipt of signed Agreement by Institution and Principal Investigator, access to the Data Set will be provided to the Principal Investigator. Principal Investigator agrees to distribute a copy of this agreement and explain its content to any Other Users, and will ensure that they acknowledge their obligations to abide by the terms of this Agreement in their use of the Data Set. Agreed: __________________________ __________________________ __________________ Signature for Institution Print Name Date __________________________ Title for Official Read and Understood by: __________________________ __________________________ __________________ Signature of Principal Investigator Print Name Date

Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.

Study ID Study Title Study Type
EGAS00001004909 Other

This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.

ID File Type Size Located in
EGAF00006176422 bam 4.3 GB
EGAF00006176423 bam 15.7 GB
EGAF00006176424 bam 1.2 GB
EGAF00006176425 bam 21.9 GB
EGAF00006176426 bam 5.1 GB
EGAF00006176427 bam 7.8 GB
EGAF00006176428 bam 5.6 GB
EGAF00006176429 bam 6.9 GB
EGAF00006176430 bam 2.2 GB
EGAF00006176431 bam 5.9 GB
EGAF00006176432 bam 7.3 GB
EGAF00006176433 bam 1.7 GB
EGAF00006176434 bam 13.9 GB
EGAF00006176435 bam 8.5 GB
EGAF00006176436 bam 944.8 MB
EGAF00006176437 bam 3.3 GB
EGAF00006176438 bam 15.5 GB
EGAF00006176439 bam 8.8 GB
EGAF00006176440 bam 6.5 GB
EGAF00006176441 bam 2.3 GB
EGAF00006176442 bam 471.2 MB
EGAF00006176443 bam 760.7 MB
EGAF00006176444 bam 2.1 GB
EGAF00006176445 bam 14.0 GB
EGAF00006176446 bam 23.3 GB
EGAF00006176447 bam 4.9 GB
EGAF00006176448 bam 225.8 MB
EGAF00006176449 bam 4.8 GB
EGAF00006176450 bam 554.3 MB
EGAF00006176451 bam 8.0 GB
EGAF00006176452 bam 2.9 GB
EGAF00006176453 bam 19.5 GB
EGAF00006176454 bam 11.8 GB
EGAF00006176455 bam 4.2 GB
EGAF00006176456 bam 2.6 GB
EGAF00006176457 bam 4.2 GB
EGAF00006176458 bam 6.5 GB
EGAF00006176459 bam 9.4 GB
EGAF00006176460 bam 12.7 GB
EGAF00006176461 bam 8.0 GB
EGAF00006176462 bam 4.9 GB
EGAF00006176463 bam 481.4 MB
EGAF00006176464 bam 35.8 GB
EGAF00006176465 bam 16.0 GB
EGAF00006176466 bam 932.3 MB
EGAF00006176467 bam 37.6 MB
EGAF00006176468 bam 14.8 GB
EGAF00006176469 bam 5.5 GB
EGAF00006176470 bam 37.0 MB
EGAF00006176471 bam 1.6 GB
EGAF00006176472 bam 4.0 GB
EGAF00006176473 bam 713.4 MB
EGAF00006176474 bam 22.0 MB
EGAF00006176475 bam 5.7 GB
EGAF00006176476 bam 3.3 GB
EGAF00006176477 bam 1.0 GB
EGAF00006176478 bam 181.6 MB
EGAF00006176479 bam 10.9 GB
EGAF00006176480 bam 2.4 GB
EGAF00006176481 bam 20.8 GB
EGAF00006176482 bam 9.4 GB
EGAF00006176483 bam 6.4 GB
EGAF00006176484 bam 5.3 GB
EGAF00006176485 bam 16.2 GB
EGAF00006176486 bam 8.7 GB
EGAF00006176487 bam 102.6 MB
EGAF00006176488 bam 14.2 GB
EGAF00006176489 bam 9.8 GB
EGAF00006176490 bam 7.2 GB
69 Files (492.6 GB)