Diagnostic classification of childhood cancer using multiscale transcriptomics - Nature Medicine

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Novel machine-learning algorithm creates atlas of cancer with potential as universal diagnostic platform NatureMedicine

. For each sample, the final score was obtained as the difference between the mesenchymal/NCC-like unified score and the adrenergic unified score, and it was scaled to range between 0 and 1 .Fetal age ) was estimated using the independent measurement of the crown rump length , using the formula PCW =0.9022 × CRL + 27.372.

Raw sequence reads in FASTQ format from fetal samples were processed and aligned to the GRCh38-1.2.0 human reference transcriptome using the Cell Ranger version 2.1.1 pipelineThe resulting expression matrices were processed with SoupX version 1.3.0 to estimate and remove cell-free mRNA contamination before analysis. Cells with fewer than 300 genes and more than 7,500 genes were filtered, as well as those in which mitochondrial genes represented 10% or more of total gene expression.

All models included one-dimensional convolutional layers followed by fully connected layers. The number of filters of CV layers was tuneable and shared across layers, and so was the kernel size. Each CV layer was followed by batch normalization and max pooling with fixed size 4 and stride 2. The size of hidden dense layers was also tuneable and halved at every successive layer, and dropout was activated at parametrizable percentage. The loss function was binary cross-entropy.

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SickKidsNews SickKidsCancer StBaldricks TIPS_SPIIE Maybe. Or maybe this is biased because nature endorses political entities for money and has a permanent conflict with anything it now publishes, including the numerous retracted “studies” over the last few years. What a shame nothing printed here can be taken seriously anymore

SickKidsNews SickKidsCancer StBaldricks TIPS_SPIIE A critical review of Vitamin D and Cancer: A report of the IARC Working Group William B Grant. Dermatoendocrinol. 2009 Jan. Author William B Grant PhD wbgrant2

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