Daniel Amsel
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View article: MOTH: Memory-Efficient On-the-Fly Tiling of Histological Image Annotations Using QuPath
MOTH: Memory-Efficient On-the-Fly Tiling of Histological Image Annotations Using QuPath Open
The emerging usage of digitalized histopathological images is leading to a novel possibility for data analysis. With the help of artificial intelligence algorithms, it is now possible to detect certain structures and morphological features…
View article: DistSNE: Distributed computing and online visualization of DNA methylation‐based central nervous system tumor classification
DistSNE: Distributed computing and online visualization of DNA methylation‐based central nervous system tumor classification Open
The current state‐of‐the‐art analysis of central nervous system (CNS) tumors through DNA methylation profiling relies on the tumor classifier developed by Capper and colleagues, which centrally harnesses DNA methylation data provided by us…
View article: Leveraging Attention-Based Convolutional Neural Networks for Meningioma Classification in Computational Histopathology
Leveraging Attention-Based Convolutional Neural Networks for Meningioma Classification in Computational Histopathology Open
Convolutional neural networks (CNNs) are becoming increasingly valuable tools for advanced computational histopathology, promoting precision medicine through exceptional visual decoding abilities. Meningiomas, the most prevalent primary in…
View article: Distribution of ferritin complex in the adult brain and altered composition in neuroferritinopathy due to a novel variant in the ferritin heavy chain gene <scp><i>FTH1</i></scp> (c.409_410del; p.<scp>H137Lfs</scp>*4)
Distribution of ferritin complex in the adult brain and altered composition in neuroferritinopathy due to a novel variant in the ferritin heavy chain gene <span><i>FTH1</i></span> (c.409_410del; p.<span>H137Lfs</span>*4) Open
Ferritin is an iron-binding, spherical protein complex consisting of 24 light (FTL) and heavy (FTH) chain subunits. The proportion of FTL and FTH is determined by tissue and cell differentiation (Figure S1). FTL conveys the iron-storage fu…
View article: METHNet Dataset
METHNet Dataset Open
This dataset holds some WSIs to test the functionalities of METHNet.
View article: METHNet Dataset
METHNet Dataset Open
This dataset holds some WSIs to test the functionalities of METHNet.
View article: Test-Data for RNA-seq HSA Chr21 all protein coding transcripts
Test-Data for RNA-seq HSA Chr21 all protein coding transcripts Open
Created with ART ART_Illumina (2008-2016) Q Version 2.5.8 (June 6, 2016) art_illumina -ss MSv3 -i chr21_proteincoding.fa -p -l 75 -f 175 -m 200 -s 10 --minQ 30 high:= higher expression low:= lower expression repA/B:=indicates replicates w…
View article: Test-Data for RNA-seq HSA Chr21 all protein coding transcripts
Test-Data for RNA-seq HSA Chr21 all protein coding transcripts Open
Created with ART ART_Illumina (2008-2016) Q Version 2.5.8 (June 6, 2016) art_illumina -ss MSv3 -i chr21_proteincoding.fa -p -l 75 -f 175 -m 200 -s 10 --minQ 30 high:= higher expression low:= lower expression repA/B:=indicates replicates w…
View article: SangeR: the high-throughput Sanger sequencing analysis pipeline
SangeR: the high-throughput Sanger sequencing analysis pipeline Open
Summary In the era of next generation sequencing and beyond, the Sanger technique is still widely used for variant verification of inconclusive or ambiguous high-throughput sequencing results or as a low-cost molecular genetical analysis t…
View article: SangeR: The high-throughput Sanger sequenc-ing analysis pipeline
SangeR: The high-throughput Sanger sequenc-ing analysis pipeline Open
Summary: In the era of Next Generation Sequencing and beyond, the Sanger technique is still widely used for variant verification tasks of ambiguous high-throughput sequencing results or as cheap molecular genetical analysis of singular tar…
View article: SangeR: The high-throughput Sanger sequenc-ing analysis pipeline
SangeR: The high-throughput Sanger sequenc-ing analysis pipeline Open
Summary: In the era of Next Generation Sequencing and beyond, the Sanger technique is still widely used for variant verification tasks of ambiguous high-throughput sequencing results or as cheap molecular genetical analysis of singular tar…
View article: SangeR: The high-throughput Sanger sequenc-ing analysis pipeline
SangeR: The high-throughput Sanger sequenc-ing analysis pipeline Open
Summary: In the era of Next Generation Sequencing and beyond, the Sanger technique is still widely used for variant verification tasks of ambiguous high-throughput sequencing results or as cheap molecular genetical analysis of singular tar…
View article: SangeR: The high-throughput Sanger sequenc-ing analysis pipeline
SangeR: The high-throughput Sanger sequenc-ing analysis pipeline Open
Summary: In the era of Next Generation Sequencing and beyond, the Sanger technique is still widely used for variant verification tasks of ambiguous high-throughput sequencing results or as cheap molecular genetical analysis of singular tar…
View article: Diagnostic utility of small fiber analysis in skin biopsies from children with chronic pain
Diagnostic utility of small fiber analysis in skin biopsies from children with chronic pain Open
Introduction Small fiber neuropathies (SFN) are associated with a reduction in quality of life. In adults, epidermal nerve fiber density (END) analysis is recommended for the diagnosis of SFN. In children, END assessment is not often perfo…
View article: microPIECE (microRNA pipeline enhanced by CLIP experiments)
microPIECE (microRNA pipeline enhanced by CLIP experiments) Open
The microPIECE (microRNA pipeline enhanced by CLIP experiments) takes the AGO-CLIP data from a speciesA and transfers it to a speciesB. Given a set of miRNAs from speciesB it then predicts their targets on the transfered CLIP regions. The …
View article: Micropiece Testset
Micropiece Testset Open
Test set for microPIECE Github Repository
View article: Micropiece Testset
Micropiece Testset Open
Test set for microPIECE Github Repository