Point-based Individual Tree Delineation from 3D LiDAR Point Cloud Data.

This module implements a lightweight and easy-to-use Point-based method for individual tree delineation from 3D point cloud data using pure C/C++.

The source code files are included in folder [TreeSeparation], which consists of a project generated from Visual Studio 2015. The CLASS for tree separation is named "FoxTree" and can be found in the respect FoxTree.h and FoxTree.cpp files.

Inupt

The ...

The workflow starts with selecting EH38E2924876 as the search term. Genomic position of provided unique regulatory element identifier was retrieved from CFDE Linked Data Hub[1]. A list of variants in the region of the regulatory element was retrieved from CFDE Linked Data Hub[1]. Variant/variant set associated allele specific epigenomic signatures were retrieved from CFDE LDH[5] based on Roadmap and ENTEx data[6], [4]. GTEx eQTL and sQTL evidence for the given variant(s) were retrieved from CFDE ...

A file containing GEO Aging Signatures was first uploaded. The file containing GEO Aging Signatures was loaded as a gene signature. A file containing GTEx Aging Signatures was first uploaded. The file containing GTEx Aging Signatures was loaded as a gene signature. Significant genes were extracted from the GEO Aging Signatures. Significant genes were extracted from the GTEx Aging Signatures. Reversers and mimickers from over 1 million signatures were identified using SigCom LINCS[1]. Resolved ...

A file was first uploaded. The file was parsed as a gene count matrix. Significantly over-expressed genes when compared to tissue expression in GTEx[1] were identified. RNA-seq-like LINCS L1000 Signatures[3] which mimick or reverse the the expression of IMP3 were visualized. Drugs which down-regulate the expression of IMP3 were identified from the RNA-seq-like LINCS L1000 Chemical Perturbagens[3]. Genes which down-regulate the expression of IMP3 were identified from the RNA-seq-like LINCS L1000 ...

The workflow starts with selecting RPE as the search term. For the given gene ID (SYMBOL), StringDB PPI was extracted using their API[1]. For the Given StringDB PPI, the list of nodes (Gene Set) is generated. For the Given StringDB PPI, the list of nodes (GeneSet) is generated. Reversers and mimickers from over 1 million signatures were identified using SigCom LINCS[2]. The gene set was submitted to Enrichr[4]. The gene set was then searched in the Metabolomics Workbench[5] to identify relevant ...

The workflow starts with a gene set created from Example gene set. CTD is applied which diffuses through all nodes in STRING[1] to identify nodes that are "guilty by association" and highly connected to the initial gene set of interest[2][3]. A list of Highly Connected Genes was obtained from the CTD output. A list of Guilty By Association Genes was obtained from the CTD output.

1. Szklarczyk, D. et al. STRING v10: protein–protein interaction networks, integrated over the tree of life. Nucleic ...

The workflow starts with selecting chr2:g.39417578C>G as the search term. The closest gene to the variant was found using MyVariant.info[1]. Gene expression in tumors for CDKL4 were queried from the Open Pediatric Cancer Atlas API[3]. Median expression of CDKL4 was obtained from the GTEx Portal[4] using the portal's API. To visualize the level of expression across tumor gene expression, a bar plot was created Fig..

1. Lelong, S. et al. BioThings SDK: a toolkit for building high-performance ...

The workflow starts with selecting KLF6 as the search term. RNA-seq-like LINCS L1000 Signatures[1] which mimick or reverse the the expression of KLF6 were visualized. Median expression of KLF6 was obtained from the GTEx Portal[6] using the portal's API. To visualize the scored tissues, a vertical bar plot was created Fig..

1. Evangelista, J. E. et al. SigCom LINCS: data and metadata search engine for a million gene expression signatures. Nucleic Acids Research vol. 50 W697–W709 (2022). ...

The workflow starts with selecting chr10:g.3823823G>A as the search term. The closest gene to the variant was found using MyVariant.info[1]. RNA-seq-like LINCS L1000 Signatures[3] which mimick or reverse the the expression of KLF6 were visualized. Median expression of KLF6 was obtained from the GTEx Portal[8] using the portal's API. To visualize the scored tissues, a vertical bar plot was created Fig..

1. Lelong, S. et al. BioThings SDK: a toolkit for building high-performance data APIs in ...