The overlooked contribution of trees outside forests to tree cover and woody biomass across Europe

Trees are an integral part in European landscapes, but only forest resources are systematically assessed by national inventories. The contribution of urban and agricultural trees to national-level carbon stocks remains largely unknown. Here we produced canopy cover, height and above-ground biomass maps from 3-meter resolution nanosatellite imagery across Europe. Our biomass estimates have a systematic bias of 7.6% (overestimation; R = 0.98) compared to national inventories of 30 countries, and our dataset is sufficiently highly resolved spatially to support the inclusion of tree biomass outside forests, which we quantify to 0.8 petagrams. Although this represents only 2% of the total tree biomass, large variations between countries are found (10% for UK) and trees in urban areas contribute substantially to national carbon stocks (8% for the Netherlands). The agreement with national inventory data, the scalability, and spatial details across landscapes, including trees outside forests, make our approach attractive for operational implementation to support national carbon stock inventory schemes.

Towards in silico CLIP-seq: predicting protein-RNA interaction via sequence-to-signal learning

We present RBPNet, a novel deep learning method, which predicts CLIP-seq crosslink count distribution from RNA sequence at single-nucleotide resolution. By training on up to a million regions, RBPNet achieves high generalization on eCLIP, iCLIP and miCLIP assays, outperforming state-of-the-art classifiers. RBPNet performs bias correction by modeling the raw signal as a mixture of the protein-specific and background signal. Through model interrogation via Integrated Gradients, RBPNet identifies predictive sub-sequences that correspond to known and novel binding motifs and enables variant-impact scoring via in silico mutagenesis. Together, RBPNet improves imputation of protein-RNA interactions, as well as mechanistic interpretation of predictions.