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Tree planting has become a cornerstone strategy for natural resource management in agricultural landscapes, yet its contribution as habitat for woodland birds has not been fully investigated. A case study from the Holbrook region in southern New South Wales was used to assess woodland birds in young plantings of native trees and shrubs. Ground-foraging insectivorous woodland birds were under-represented in the plantings, partly due to a lack of native forb diversity (wildflowers) and leaf litter. Of 69 woodland bird species recorded over a three-year period, 48 species (70%) occurred in planted sites, 59 species (86%) occurred in remnant woodland, and 34 species (49%) occurred in adjacent paddock sites. The greater diversity of birds in planted sites relative to paddock sites was mostly due to understorey birds. The proportion of mist-netted birds recaptured was similar in both planted (15%) and remnant woodland (16%) sites, suggesting that individual birds were staying in planted sites. The proportion of woodland birds showing breeding activity (as measured by the presence of a brood patch) was slightly lower in planted sites (24% of all woodland species) than in remnant woodland (29%). Birds such as the superb fairy-wren, red-browed finch and southern whiteface were more likely to occur in planted sites, suggesting that plantings provide unique, transitional-stage habitat within agricultural landscapes. Restoring native forbs, as part of a broader strategy of woodland management, will help to reverse the decline of ground-foraging insectivorous woodland birds in agricultural landscapes.

For a decade, The Cancer Genome Atlas (TCGA) program collected clinicopathologic annotation data along with multi-platform molecular profiles of more than 11,000 human tumors across 33 different cancer types. TCGA clinical data contain key features representing the democratized nature of the data collection process. To ensure proper use of this large clinical dataset associated with genomic features, we developed a standardized dataset named the TCGA Pan-Cancer Clinical Data Resource (TCGA-CDR), which includes four major clinical outcome endpoints. In addition to detailing major challenges and statistical limitations encountered during the effort of integrating the acquired clinical data, we present a summary that includes endpoint usage recommendations for each cancer type. These TCGA-CDR findings appear to be consistent with cancer genomics studies independent of the TCGA effort and provide opportunities for investigating cancer biology using clinical correlates at an unprecedented scale. Analysis of clinicopathologic annotations for over 11,000 cancer patients in the TCGA program leads to the generation of TCGA Clinical Data Resource, which provides recommendations of clinical outcome endpoint usage for 33 cancer types.