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Nimblegen SeqCap Sequencing

Nimblegen SeqCap (sequence capture) deep targetted DNA sequencing pNET

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Data policy for data release for the NETWork! data

Data release This statement defines how other researchers can access the data used in this research. Microarray RNA expression data (Affymetrix mRNA, and Affymetrix miRNA data), microarray methylation data (Illumina Infinium data) and clinico-pathological annotation, is available to external researchers via EGA. We will also make DNA sequence data from tumours and corresponding normal tissues available to researchers. However, we have obligations to provide this data through a specific process. Specific values are ascribed to DNA information by New Zealand Māori (1), requiring a unique culturally specific approach to sharing genomic datasets. Māori have expectations about linkage of genomic and clinical datasets that are summarised in New Zealand's definitive Guidelines document on genomic research with Māori which states that "… there is an expectation of Māori involvement in governance over access to and the linking of data" (2). This requirement for shared governance is consistent with obligations under New Zealand's founding document, The Treaty of Waitangi. To meet this expectation, a specific governance process will be required for external researchers to access the DNA sequence data from this study. In addition, we have an obligation to protect the identity of patients included in this study. This is particularly important where there are small numbers of patients of specific ancestry that might lead to identification of individual participants, and in light of the fact that we had ethical approval to include unconsented patients in some cases. The governance process will require external researchers to apply to a governance group with Māori representation for access to the data. The application will require a detailed list of the data requested, the research objectives, study methodology and funding. Data access will be granted on the condition that: (i) the proposed study does not use this data in genetic or genomic comparisons based on ancestry, either alone or combined with other data sets, (ii) that the data is not passed on to other researchers, (iii) a list of specific types of scientifically inappropriate analysis and reporting methods will not be used (3) and (iv) a research report and copies of any publications resulting from the research are submitted to the governance group. The governance group will not be concerned with any aspect of intellectual property. References 1. Hudson M, Beaton A, Milne M, Port W, Russell K, Smith B, Toki V, Uerata L and Wilcox P. He Tangata Kei Tua: Guidelines for Biobanking with Māori. October 2016. Te Mata Hautu Taketake, University of Waikato, Hamilton, New Zealand. (Page 32). 2. Hudson M, Beaton A, Milne M, Port W, Russell K, Smith B, Toki V, Uerata L and Wilcox P. Te Mata Ira: Guidelines for Genomic Research with Māori. October 2016. Te Mata Hautu Taketake, University of Waikato, Hamilton, New Zealand. (Pages 36-37). 3. Hudson M, Beaton A, Milne M, Port W, Russell K, Smith B, Toki V, Uerata L and Wilcox P. Te Mata Ira: Guidelines for Genomic Research with Māori. October 2016. Te Mata Hautu Taketake, University of Waikato, Hamilton, New Zealand. (Pages 30-33).

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
EGAS00001003038 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
EGAF00002860319 bam 2.2 GB
EGAF00002860320 bam 2.5 GB
EGAF00002860321 bam 4.3 GB
EGAF00002860322 bam 5.1 GB
EGAF00002860323 bam 1.9 GB
EGAF00002860324 bam 5.1 GB
EGAF00002860325 bam 2.6 GB
EGAF00002860326 bam 5.0 GB
EGAF00002860327 bam 3.3 GB
EGAF00002860328 bam 4.5 GB
EGAF00002860329 bam 2.4 GB
EGAF00002860330 bam 3.8 GB
EGAF00002860331 bam 3.1 GB
EGAF00002860332 bam 5.1 GB
EGAF00002860333 bam 3.0 GB
EGAF00002860334 bam 10.2 GB
EGAF00002860335 bam 2.6 GB
EGAF00002860336 bam 4.4 GB
EGAF00002860337 bam 2.8 GB
EGAF00002860338 bam 6.3 GB
EGAF00002860339 bam 5.0 GB
EGAF00002860340 bam 5.0 GB
EGAF00002860341 bam 735.1 MB
EGAF00002860342 bam 4.8 GB
EGAF00002860343 bam 2.4 GB
EGAF00002860344 bam 8.0 GB
EGAF00002860345 bam 2.8 GB
EGAF00002860346 bam 7.0 GB
EGAF00002860347 bam 1.6 GB
EGAF00002860348 bam 4.0 GB
EGAF00002860349 bam 1.8 GB
EGAF00002860350 bam 4.4 GB
EGAF00002860351 bam 2.0 GB
EGAF00002860352 bam 3.9 GB
EGAF00002860353 bam 2.8 GB
EGAF00002860354 bam 2.6 GB
EGAF00002860355 bam 1.7 GB
EGAF00002860356 bam 2.7 GB
EGAF00002860357 bam 2.1 GB
EGAF00002860358 bam 6.2 GB
EGAF00002860359 bam 1.8 GB
EGAF00002860360 bam 1.6 GB
EGAF00002860361 bam 1.5 GB
EGAF00002860362 bam 2.2 GB
EGAF00002860363 bam 579.6 MB
EGAF00002860364 bam 433.8 MB
EGAF00002860365 bam 1.8 GB
EGAF00002860366 bam 2.2 GB
EGAF00002860367 bam 4.8 GB
EGAF00002860368 bam 4.2 GB
EGAF00002860369 bam 1.8 GB
EGAF00002860370 bam 2.6 GB
EGAF00002860371 bam 4.0 GB
EGAF00002860372 bam 3.8 GB
EGAF00002860373 bam 4.6 GB
EGAF00002860374 bam 3.3 GB
EGAF00002860375 bam 1.2 GB
EGAF00002860376 bam 1.3 GB
EGAF00002860377 bam 1.5 GB
EGAF00002860378 bam 2.0 GB
EGAF00002860379 bam 2.2 GB
EGAF00002860380 bam 2.0 GB
EGAF00002860381 bam 4.0 GB
EGAF00002860382 bam 3.7 GB
EGAF00002860383 bam 1.1 GB
EGAF00002860384 bam 1.1 GB
EGAF00002860385 bam 2.2 GB
EGAF00002860386 bam 1.9 GB
EGAF00002860387 bam 1.1 GB
EGAF00002860388 bam 1.7 GB
EGAF00002860389 bam 1.8 GB
EGAF00002860390 bam 1.8 GB
EGAF00002860391 bam 1.8 GB
EGAF00002860392 bam 2.1 GB
EGAF00002860393 bam 643.2 MB
EGAF00002860394 bam 1.4 GB
EGAF00002860395 bam 1.2 GB
EGAF00002860396 bam 1.2 GB
EGAF00002860397 bam 977.3 MB
EGAF00002860398 bam 3.3 GB
EGAF00002860399 bam 346.2 MB
EGAF00002860400 bam 671.0 MB
EGAF00002860401 bam 1.6 GB
EGAF00002860402 bam 2.1 GB
EGAF00002860403 bam 1.7 GB
EGAF00002860404 bam 1.5 GB
EGAF00002860405 bam 999.3 MB
EGAF00002860406 bam 1.4 GB
EGAF00002860407 bam 1.9 GB
EGAF00002860408 bam 2.3 GB
EGAF00002860409 bam 3.7 GB
EGAF00002860410 bam 1.2 GB
EGAF00002860411 bam 1.3 GB
EGAF00002860412 bam 1.1 GB
EGAF00002860413 bam 1.1 GB
EGAF00002860414 bam 1.8 GB
EGAF00002860415 bam 647.1 MB
EGAF00002860416 bam 1.3 GB
98 Files (262.9 GB)