Need Help?

Epithelial, fibroblast, myeloid, T cell, primary prostate cancer

The collection and use of tissue for this study had Melbourne Health institutional review board approval and patients provided written informed consent (Melbourne Health Local Project Number: 2016.087). Following the prostatectomy of 13 patients, ranging from 52 to 78 years of age and from CAPRA-S risk score of 0 (attributed to benign tissue samples, harvested from a site far from a low grade, low volume cancer) to 7 (Supplementary file 2), a four millimeter tissue core was collected from the prostate tumour site, conditional to histopathological verification66,67. If not otherwise specified, all procedures were carried out at 4 °C. Tissue blocks were washed in Phosphate-buffered saline (PBS) solution for 2 minutes and minced for 2 minutes with a scalpel. Homogenised tissue was added to a solution (total volume of 7 ml) composed by of 1 mg/ml collagenase IV (Worthington Biochemical Corp, USA), 0.02 mg/ml DNase 1 (New England Biolabs, USA), 0.2 mg/ml dispase (Merck, USA). The tissue homogenised was serially digested at 37 °C at 180 rpm, through three steps of 5, 10 and 10 minutes of duration, with the final 3 minutes dedicated to sedimentation at 0 rpm. After each digestion step, the supernatant was aspirated and filtered through a 70 μm strainer into a pre-chilled tube, diluting the solution with 15 ml of 2% bovine serum PBS to quench the enzymatic reaction. The resulting cumulative solution was then centrifuged at 1500 rpm for five minutes, with the supernatant collected and the cell pellet resuspended into 1 ml 2% PBS-serum prior to labelling (Fig. S1).

Request Access

Management of Research Data and Records Policy (MPF1242)

SCOPE This policy applies to research undertaken by University of Melbourne students, staff and honorary staff. POLICY 1. Management of research data and records 1.1. The University will ensure that research data and records created by University students, staff and honorary staff are: accurate, complete, authentic and reliable identifiable, retrievable and available when needed secure compliant with legal obligations and the rules of funding bodies. 1.2. The University will retain research data and records for a minimum of five years after publication or public release of the work of research. Refer to pp. 485-517 of the Records Retention and Disposal Authority for full details of obligations. 2. Researchers 2.1. Researchers will: develop appropriate processes for the collection, storage, use, re-use, access and retention of research data and records associated with their research program, including confidential research data and records incorporate this information into their research data management plan register this information in a local department register, or in the Central Research Data Registry if a department register is not established. 2.2. Researchers will establish and document clear procedures for the collection, ownership and storage of research data and records when involved in a joint research project, collaborative research or research undertaken in accordance with a contractual agreement, noting that: when a research project is undertaken under a contractual agreement the principal investigator has overall responsibility for the management of data and records in the case of multi-institutional projects the institution of the principal investigator is ultimately responsible. 2.3. Researchers will: ensure that the integrity and security of their research data and records is maintained, and that this material is stored in a retrievable way be aware of confidentiality restrictions, any relevant agreements that affect access to or disclosure of information and report any breach of confidentiality to the head of department plan for the ongoing custodial responsibilities for the research data and records at the conclusion of the research project or on departure from the University, including information about access and potential re-use of the data and future deposit into open access research databases where such action complies with all legal, ethical and confidentiality agreements on the data, including copyright, privacy and intellectual property negotiate with their head of department for the relocation of data and records within the University make recommendations to the head of department for destruction of research data and records in accordance with all of the relevant requirements and legislation ensure that research students under their supervision are fully informed about this policy and take joint responsibility with students for the fulfilment of these responsibilities, including the registration of data at the conclusion of the project as outlined in section 4.4. 3. Heads of departments 3.1. Heads of departments will: authorise the procedures adopted by researchers and student researchers (following consultation with their supervisor) for the storage of their research data and records authorise the destruction of research data and records on the recommendation of the chief investigator and record details in a local department register, or in the Central Research Data Registry if a department register is not established authorise the destruction of student researchers’ data and records and record details in a local department register, or in the Central Research Data Registry if a department register is not established establish and implement departmental processes for the storage and retention of research data and records, including recording of information about research data generated in a local department register, or in the Central Research Data Registry if a department register is not established ensure that researchers who leave the University have adequately planned for the ongoing custodial responsibilities for the research data and records in compliance with the policy as per section 2.3, and that these plans are recorded in a local department register, or in the Central Research Data Registry if a department register is not established ensure that University and departmental policy and procedures are adequately disseminated to researchers negotiate with researchers for the relocation of research data and records within the University and record details in a local department register, or in the Central Research Data Registry if a department register is not established ensure that staff and students conducting research involving human participants are aware of their responsibilities and related special compliance issues of research data and records collected in the course of their research ensure that staff are aware of the need to report any breach of confidentiality to the head of department secure and/or provide suitable physical and electronic (or virtual) storage space for research data and records. 3.2. Heads of departments will ensure the provision of expert advice on the creation, storage and retention of electronic data, including advice on technological obsolescence and migration requirements; ensuring systems reliability and continuing operation; and facilitating access to electronic data of continuing value over time. Where this expert advice is not available within the division, researchers should seek assistance from Central IT Services. 4. Research students 4.1. Research students will be jointly responsible with their supervisor, for the collection, storage, security and use of research data and records including confidential research data and records, in accordance with University and department procedures. 4.2. Research students will establish collection and storage procedures for their research data and records that are acceptable to their supervisor. This information must be placed in a research data management plan. 4.3. Research students will negotiate appropriate arrangements with their supervisor for the security of research data and records involving human participants. These arrangements must be outlined in their application for ethics clearance. 4.4. Research students will deposit research data and records associated with their thesis within their department immediately following thesis submission (to ensure it is managed appropriately over time). Students will also provide their supervisor with full details of the location of research data and records.

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
EGAS00001003579 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
EGAF00002442642 fastq.gz 3.0 GB
EGAF00002442643 fastq.gz 3.0 GB
EGAF00002442644 fastq.gz 1.8 GB
EGAF00002442645 fastq.gz 1.8 GB
EGAF00002442646 fastq.gz 1.3 GB
EGAF00002442647 fastq.gz 1.3 GB
EGAF00002442648 fastq.gz 2.5 GB
EGAF00002442649 fastq.gz 2.5 GB
EGAF00002442650 fastq.gz 1.6 GB
EGAF00002442651 fastq.gz 1.6 GB
EGAF00002442652 fastq.gz 1.7 GB
EGAF00002442653 fastq.gz 1.7 GB
EGAF00002442654 fastq.gz 886.6 MB
EGAF00002442655 fastq.gz 904.9 MB
EGAF00002442656 fastq.gz 1.4 GB
EGAF00002442657 fastq.gz 1.4 GB
EGAF00002442658 fastq.gz 843.6 MB
EGAF00002442659 fastq.gz 859.2 MB
EGAF00002442660 fastq.gz 1.1 GB
EGAF00002442661 fastq.gz 1.1 GB
EGAF00002442662 fastq.gz 2.8 GB
EGAF00002442663 fastq.gz 2.9 GB
EGAF00002442664 fastq.gz 1.8 GB
EGAF00002442665 fastq.gz 1.8 GB
EGAF00002442666 fastq.gz 1.7 GB
EGAF00002442667 fastq.gz 1.7 GB
EGAF00002442668 fastq.gz 872.7 MB
EGAF00002442669 fastq.gz 885.2 MB
EGAF00002442670 fastq.gz 2.9 GB
EGAF00002442671 fastq.gz 3.0 GB
EGAF00002442672 fastq.gz 3.7 GB
EGAF00002442673 fastq.gz 3.7 GB
EGAF00002442674 fastq.gz 1.8 GB
EGAF00002442675 fastq.gz 1.8 GB
EGAF00002442676 fastq.gz 1.3 GB
EGAF00002442677 fastq.gz 1.3 GB
EGAF00002442678 fastq.gz 1.3 GB
EGAF00002442679 fastq.gz 1.3 GB
EGAF00002442680 fastq.gz 1.5 GB
EGAF00002442681 fastq.gz 1.5 GB
EGAF00002442682 fastq.gz 609.1 MB
EGAF00002442683 fastq.gz 621.3 MB
EGAF00002442684 fastq.gz 1.0 GB
EGAF00002442685 fastq.gz 1.0 GB
EGAF00002442686 fastq.gz 1.4 GB
EGAF00002442687 fastq.gz 1.5 GB
EGAF00002442688 fastq.gz 1.3 GB
EGAF00002442689 fastq.gz 1.3 GB
EGAF00002442690 fastq.gz 795.7 MB
EGAF00002442691 fastq.gz 812.7 MB
EGAF00002442692 fastq.gz 1.1 GB
EGAF00002442693 fastq.gz 1.1 GB
EGAF00002442694 fastq.gz 1.2 GB
EGAF00002442695 fastq.gz 1.2 GB
EGAF00002442696 fastq.gz 959.4 MB
EGAF00002442697 fastq.gz 970.9 MB
EGAF00002442698 fastq.gz 755.2 MB
EGAF00002442699 fastq.gz 770.5 MB
EGAF00002442700 fastq.gz 1.2 GB
EGAF00002442701 fastq.gz 1.2 GB
EGAF00002442702 fastq.gz 591.4 MB
EGAF00002442703 fastq.gz 599.4 MB
EGAF00002442704 fastq.gz 963.5 MB
EGAF00002442705 fastq.gz 979.9 MB
EGAF00002442706 fastq.gz 1.4 GB
EGAF00002442707 fastq.gz 1.5 GB
EGAF00002442708 fastq.gz 1.9 GB
EGAF00002442709 fastq.gz 1.9 GB
EGAF00002442710 fastq.gz 3.1 GB
EGAF00002442711 fastq.gz 3.2 GB
EGAF00002442712 fastq.gz 884.4 MB
EGAF00002442713 fastq.gz 905.2 MB
EGAF00002442714 fastq.gz 1.5 GB
EGAF00002442715 fastq.gz 1.5 GB
EGAF00002442716 fastq.gz 1.2 GB
EGAF00002442717 fastq.gz 1.3 GB
EGAF00002442718 fastq.gz 1.2 GB
EGAF00002442719 fastq.gz 1.2 GB
EGAF00002442720 fastq.gz 1.1 GB
EGAF00002442721 fastq.gz 1.1 GB
EGAF00002442722 fastq.gz 1.3 GB
EGAF00002442723 fastq.gz 1.3 GB
EGAF00002442724 fastq.gz 1.9 GB
EGAF00002442725 fastq.gz 1.9 GB
EGAF00002442726 fastq.gz 2.4 GB
EGAF00002442727 fastq.gz 2.4 GB
EGAF00002442728 fastq.gz 1.4 GB
EGAF00002442729 fastq.gz 1.4 GB
EGAF00002442730 fastq.gz 1.2 GB
EGAF00002442731 fastq.gz 1.2 GB
EGAF00002442732 fastq.gz 1.4 GB
EGAF00002442733 fastq.gz 1.5 GB
EGAF00002442734 fastq.gz 1.7 GB
EGAF00002442735 fastq.gz 1.7 GB
EGAF00002442736 fastq.gz 1.5 GB
EGAF00002442737 fastq.gz 1.5 GB
EGAF00002442738 fastq.gz 1.8 GB
EGAF00002442739 fastq.gz 1.8 GB
EGAF00002442740 fastq.gz 1.5 GB
EGAF00002442741 fastq.gz 1.5 GB
EGAF00002442742 fastq.gz 1.6 GB
EGAF00002442743 fastq.gz 1.7 GB
EGAF00002442744 fastq.gz 2.0 GB
EGAF00002442745 fastq.gz 2.1 GB
104 Files (161.0 GB)