About file location

As the EGA is co-managed by the EMBL-EBI and CRG, files could be located in the UK and/or Spain, as indicated by their respective flags.

Alternatively, files could be located in one of the international Federated EGA nodes, as indicated next to the node's flag.
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Single-Cell and Bulk RNA Sequencing of Oncolytic Measles Virus Treatment in Pediatric Medulloblastoma and ATRT

This dataset includes single-cell RNA sequencing profiles from five mice bearing Group 3 medulloblastoma (CSCG) treated with oncolytic measles virus (MV-NIS) and three mice treated with MV-NIS combined with anti-PD1 therapy. Additionally, bulk RNA sequencing data were generated from 12 samples across PBS control, heat-inactivated (HI) control, MV mid-treatment, and treatment resistance conditions. Pediatric patient data were collected from the PNOC005 trial, which enrolled patients into three strata: Stratum A (focal recurrence, local MV-NIS administration post-surgical resection), Stratum B (disseminated recurrence, single MV-NIS dose via lumbar puncture), and Stratum C (disseminated recurrence, two consecutive MV-NIS doses via lumbar puncture on Day 0 and Day 7). Whole blood and PBMC samples were collected from 17 patients across all strata, generating 72 bulk RNA-seq datasets at multiple time points. All datasets are provided as raw sequencing data in FASTQ format.

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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: aaron.diaz@ucsf.edu 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
EGAS50000000811 Transcriptome Analysis

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 Quality Report
Located in
i
EGAF50000305403 fastq.gz 496.6 MB
EGAF50000305404 fastq.gz 494.5 MB
EGAF50000305405 fastq.gz 4.5 GB
EGAF50000305406 fastq.gz 10.1 GB
EGAF50000305407 fastq.gz 148.8 MB
EGAF50000305408 fastq.gz 186.2 MB
EGAF50000305409 fastq.gz 513.2 MB
EGAF50000305410 fastq.gz 487.4 MB
EGAF50000305411 fastq.gz 497.3 MB
EGAF50000305412 fastq.gz 511.5 MB
EGAF50000305413 fastq.gz 514.4 MB
EGAF50000305414 fastq.gz 496.9 MB
EGAF50000305415 fastq.gz 433.4 MB
EGAF50000305416 fastq.gz 402.6 MB
EGAF50000305417 fastq.gz 348.6 MB
EGAF50000305418 fastq.gz 346.5 MB
EGAF50000305419 fastq.gz 531.7 MB
EGAF50000305420 fastq.gz 543.9 MB
EGAF50000305421 fastq.gz 425.6 MB
EGAF50000305422 fastq.gz 417.6 MB
EGAF50000305423 fastq.gz 566.2 MB
EGAF50000305424 fastq.gz 575.9 MB
EGAF50000305425 fastq.gz 576.7 MB
EGAF50000305426 fastq.gz 571.5 MB
EGAF50000305427 fastq.gz 4.4 GB
EGAF50000305428 fastq.gz 9.2 GB
EGAF50000305429 fastq.gz 2.9 GB
EGAF50000305430 fastq.gz 6.1 GB
EGAF50000305431 fastq.gz 3.9 GB
EGAF50000305432 fastq.gz 9.1 GB
EGAF50000305433 fastq.gz 6.2 GB
EGAF50000305434 fastq.gz 14.3 GB
EGAF50000305435 fastq.gz 5.7 GB
EGAF50000305436 fastq.gz 12.9 GB
EGAF50000305437 fastq.gz 185.5 MB
EGAF50000305438 fastq.gz 160.4 MB
EGAF50000305439 fastq.gz 492.4 MB
EGAF50000305440 fastq.gz 490.8 MB
EGAF50000305441 fastq.gz 434.0 MB
EGAF50000305442 fastq.gz 424.0 MB
EGAF50000305443 fastq.gz 449.9 MB
EGAF50000305444 fastq.gz 462.9 MB
EGAF50000305445 fastq.gz 539.1 MB
EGAF50000305446 fastq.gz 525.5 MB
EGAF50000305447 fastq.gz 162.8 MB
EGAF50000305448 fastq.gz 143.1 MB
EGAF50000305449 fastq.gz 167.5 MB
EGAF50000305450 fastq.gz 172.7 MB
EGAF50000305451 fastq.gz 144.6 MB
EGAF50000305452 fastq.gz 119.2 MB
EGAF50000305453 fastq.gz 64.6 MB
EGAF50000305454 fastq.gz 758.6 MB
EGAF50000305455 fastq.gz 841.0 MB
EGAF50000305456 fastq.gz 1.4 GB
EGAF50000305457 fastq.gz 135.0 MB
EGAF50000305458 fastq.gz 151.9 MB
EGAF50000305459 fastq.gz 446.5 MB
EGAF50000305460 fastq.gz 684.0 MB
EGAF50000305461 fastq.gz 506.9 MB
EGAF50000305462 fastq.gz 85.4 MB
EGAF50000305463 fastq.gz 497.3 MB
EGAF50000305464 fastq.gz 267.0 MB
EGAF50000305465 fastq.gz 25.4 MB
EGAF50000305466 fastq.gz 934.3 MB
EGAF50000305467 fastq.gz 448.9 MB
EGAF50000305468 fastq.gz 592.4 MB
EGAF50000305469 fastq.gz 559.0 MB
EGAF50000305470 fastq.gz 682.8 MB
EGAF50000305471 fastq.gz 478.0 MB
EGAF50000305472 fastq.gz 787.0 MB
EGAF50000305473 fastq.gz 162.3 MB
EGAF50000305474 fastq.gz 246.9 MB
EGAF50000305475 fastq.gz 248.4 MB
EGAF50000305476 fastq.gz 233.3 MB
EGAF50000305477 fastq.gz 216.3 MB
EGAF50000305478 fastq.gz 228.5 MB
EGAF50000305479 fastq.gz 218.7 MB
EGAF50000305480 fastq.gz 225.5 MB
EGAF50000305481 fastq.gz 248.0 MB
EGAF50000305482 fastq.gz 223.7 MB
EGAF50000305483 fastq.gz 255.1 MB
EGAF50000305484 fastq.gz 238.7 MB
EGAF50000305485 fastq.gz 213.2 MB
EGAF50000305486 fastq.gz 225.9 MB
EGAF50000305487 fastq.gz 208.8 MB
EGAF50000305488 fastq.gz 243.3 MB
EGAF50000305489 fastq.gz 223.7 MB
EGAF50000305490 fastq.gz 225.9 MB
EGAF50000305491 fastq.gz 227.7 MB
EGAF50000305492 fastq.gz 239.3 MB
EGAF50000305493 fastq.gz 220.0 MB
EGAF50000305494 fastq.gz 4.6 GB
EGAF50000305495 fastq.gz 9.5 GB
EGAF50000305496 fastq.gz 4.0 GB
EGAF50000305497 fastq.gz 7.8 GB
EGAF50000305498 fastq.gz 4.2 GB
EGAF50000305499 fastq.gz 9.9 GB
EGAF50000305500 fastq.gz 162.7 MB
EGAF50000305501 fastq.gz 164.4 MB
EGAF50000305502 fastq.gz 706.1 MB
EGAF50000305503 fastq.gz 681.3 MB
EGAF50000305504 fastq.gz 557.6 MB
EGAF50000305505 fastq.gz 535.5 MB
EGAF50000305506 fastq.gz 511.3 MB
EGAF50000305507 fastq.gz 547.2 MB
EGAF50000305508 fastq.gz 434.5 MB
EGAF50000305509 fastq.gz 425.0 MB
EGAF50000305510 fastq.gz 473.1 MB
EGAF50000305511 fastq.gz 492.8 MB
EGAF50000305512 fastq.gz 411.6 MB
EGAF50000305513 fastq.gz 417.0 MB
EGAF50000305514 fastq.gz 488.9 MB
EGAF50000305515 fastq.gz 464.7 MB
EGAF50000305516 fastq.gz 353.3 MB
EGAF50000305517 fastq.gz 351.0 MB
EGAF50000305518 fastq.gz 330.4 MB
EGAF50000305519 fastq.gz 355.9 MB
EGAF50000305520 fastq.gz 414.2 MB
EGAF50000305521 fastq.gz 432.7 MB
EGAF50000305522 fastq.gz 418.0 MB
EGAF50000305523 fastq.gz 420.2 MB
EGAF50000305524 fastq.gz 400.6 MB
EGAF50000305525 fastq.gz 400.3 MB
EGAF50000305526 fastq.gz 547.1 MB
EGAF50000305527 fastq.gz 551.4 MB
EGAF50000305528 fastq.gz 560.0 MB
EGAF50000305529 fastq.gz 573.2 MB
EGAF50000305530 fastq.gz 399.9 MB
EGAF50000305531 fastq.gz 395.4 MB
EGAF50000305532 fastq.gz 449.6 MB
EGAF50000305533 fastq.gz 469.8 MB
EGAF50000305534 fastq.gz 486.7 MB
EGAF50000305535 fastq.gz 503.6 MB
133 Files (176.0 GB)