L Band Brightness Temperature Observations over a Corn Canopy during the Entire Growth Cycle

During a field campaign covering the 2002 corn growing season, a dual polarized tower mounted L-band (1.4 GHz) radiometer (LRAD) provided brightness temperature (TB) measurements at preset intervals, incidence and azimuth angles. These radiometer measurements were supported by an extensive characterization of land surface variables including soil moisture, soil temperature, vegetation biomass, and surface roughness. In the period May 22 to August 30, ten days of radiometer and ground measurements are available for a corn canopy with a vegetation water content (W) range of 0.0 to 4.3 kg m−2. Using this data set, the effects of corn vegetation on surface emissions are investigated by means of a semi-empirical radiative transfer model. Additionally, the impact of roughness on the surface emission is quantified using TB measurements over bare soil conditions. Subsequently, the estimated roughness parameters, ground measurements and horizontally (H)-polarized TB are employed to invert the H-polarized transmissivity (γh) for the monitored corn growing season

Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation.

Cancer progression involves the gradual loss of a differentiated phenotype and acquisition of progenitor and stem-cell-like features. Here, we provide novel stemness indices for assessing the degree of oncogenic dedifferentiation. We used an innovative one-class logistic regression (OCLR) machine-learning algorithm to extract transcriptomic and epigenetic feature sets derived from non-transformed pluripotent stem cells and their differentiated progeny. Using OCLR, we were able to identify previously undiscovered biological mechanisms associated with the dedifferentiated oncogenic state. Analyses of the tumor microenvironment revealed unanticipated correlation of cancer stemness with immune checkpoint expression and infiltrating immune cells. We found that the dedifferentiated oncogenic phenotype was generally most prominent in metastatic tumors. Application of our stemness indices to single-cell data revealed patterns of intra-tumor molecular heterogeneity. Finally, the indices allowed for the identification of novel targets and possible targeted therapies aimed at tumor differentiation

Molecular characterization and clinical relevance of metabolic expression subtypes in human cancers.

Metabolic reprogramming provides critical information for clinical oncology. Using molecular data of 9,125 patient samples from The Cancer Genome Atlas, we identified tumor subtypes in 33 cancer types based on mRNA expression patterns of seven major metabolic processes and assessed their clinical relevance. Our metabolic expression subtypes correlated extensively with clinical outcome: subtypes with upregulated carbohydrate, nucleotide, and vitamin/cofactor metabolism most consistently correlated with worse prognosis, whereas subtypes with upregulated lipid metabolism showed the opposite. Metabolic subtypes correlated with diverse somatic drivers but exhibited effects convergent on cancer hallmark pathways and were modulated by highly recurrent master regulators across cancer types. As a proof-of-concept example, we demonstrated that knockdown of SNAI1 or RUNX1—master regulators of carbohydrate metabolic subtypes-modulates metabolic activity and drug sensitivity. Our study provides a system-level view of metabolic heterogeneity within and across cancer types and identifies pathway cross-talk, suggesting related prognostic, therapeutic, and predictive utility

Appraisal of SMAP Operational Soil Moisture Product from a Global Perspective

Space-borne soil moisture (SM) satellite products such as those available from Soil Moisture Active Passive (SMAP) offer unique opportunities for global and frequent monitoring of SM and also to understand its spatiotemporal variability. The present study investigates the performance of the SMAP L4 SM product at selected experimental sites across four continents, namely North America, Europe, Asia and Australia. This product provides global scale SM estimates at 9 km × 9 km spatial resolution at daily intervals. For the product evaluation, co-orbital in situ SM measurements were used, acquired at 14 test sites in North America, Europe, and Australia belonging to the International Soil Moisture Network (ISMN) and local networks in India. The satellite SM estimates of up to 0–5 cm soil layer were compared against collocated ground measurements using a series of statistical scores. Overall, the best performance of the SMAP product was found in North America (RMSE = 0.05 m3/m3) followed by Australia (RMSE = 0.08 m3/m3), Asia (RMSE = 0.09 m3/m3) and Europe (RMSE = 0.14 m3/m3). Our findings provide important insights into the spatiotemporal variability of the specific operational SM product in different ecosystems and environments. This study also furnishes an independent verification of this global product, which is of international interest given its suitability for a wide range of practical and research applications

SMAP Handbook–Soil Moisture Active Passive: Mapping Soil Moisture and Freeze/Thaw from Space

nrpages: 182status: publishe

Mapping genomic loci implicates genes and synaptic biology in schizophrenia

Schizophrenia has a heritability of 60-80%1, much of which is attributable to common risk alleles. Here, in a two-stage genome-wide association study of up to 76,755 individuals with schizophrenia and 243,649 control individuals, we report common variant associations at 287 distinct genomic loci. Associations were concentrated in genes that are expressed in excitatory and inhibitory neurons of the central nervous system, but not in other tissues or cell types. Using fine-mapping and functional genomic data, we identify 120 genes (106 protein-coding) that are likely to underpin associations at some of these loci, including 16 genes with credible causal non-synonymous or untranslated region variation. We also implicate fundamental processes related to neuronal function, including synaptic organization, differentiation and transmission. Fine-mapped candidates were enriched for genes associated with rare disruptive coding variants in people with schizophrenia, including the glutamate receptor subunit GRIN2A and transcription factor SP4, and were also enriched for genes implicated by such variants in neurodevelopmental disorders. We identify biological processes relevant to schizophrenia pathophysiology; show convergence of common and rare variant associations in schizophrenia and neurodevelopmental disorders; and provide a resource of prioritized genes and variants to advance mechanistic studies.11Nsciescopu

Mapping genomic loci implicates genes and synaptic biology in schizophrenia

Schizophrenia has a heritability of 60–80%1, much of which is attributable to common risk alleles. Here, in a two-stage genome-wide association study of up to 76,755 individuals with schizophrenia and 243,649 control individuals, we report common variant associations at 287 distinct genomic loci. Associations were concentrated in genes that are expressed in excitatory and inhibitory neurons of the central nervous system, but not in other tissues or cell types. Using fine-mapping and functional genomic data, we identify 120 genes (106 protein-coding) that are likely to underpin associations at some of these loci, including 16 genes with credible causal non-synonymous or untranslated region variation. We also implicate fundamental processes related to neuronal function, including synaptic organization, differentiation and transmission. Fine-mapped candidates were enriched for genes associated with rare disruptive coding variants in people with schizophrenia, including the glutamate receptor subunit GRIN2A and transcription factor SP4, and were also enriched for genes implicated by such variants in neurodevelopmental disorders. We identify biological processes relevant to schizophrenia pathophysiology; show convergence of common and rare variant associations in schizophrenia and neurodevelopmental disorders; and provide a resource of prioritized genes and variants to advance mechanistic studies