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Journal Article
CLoNe: automated clustering based on local density neighborhoods for application to biomolecular structural ensembles
Bioinformatics, btaa742, https://doi.org/10.1093/bioinformatics/btaa742
Published: 20 August 2021
Image
Clustering based on local density neighborhoods. We created a synthetic dat...
in
Bioinformatics
>
CLoNe: automated clustering based on local density neighborhoods for application to biomolecular structural ensembles
Published: 20 August 2021
Fig. 1.
Clustering based on local density neighborhoods. We created a synthetic dataset that contains four croissant-shaped clusters of 500 elements each with different scaling as well as a cluster in the shape of a cross with 4000 elements and added Gaussian noise. ( a ) On the left, the cardinality of the
Image
Local neighborhood density analysis for automated center and cluster determ...
in
Bioinformatics
>
CLoNe: automated clustering based on local density neighborhoods for application to biomolecular structural ensembles
Published: 20 August 2021
Fig. 2.
Local neighborhood density analysis for automated center and cluster determination. For each panel, the cardinality of the core of each point as detailed in the Section 2 is shown on the left. The resulting clusters are shown on the right, with clusters in different colors and identified outliers as
Image
Utilizing Gaussian cluster properties to extract centers as key biological ...
in
Bioinformatics
>
CLoNe: automated clustering based on local density neighborhoods for application to biomolecular structural ensembles
Published: 20 August 2021
Fig. 3.
Utilizing Gaussian cluster properties to extract centers as key biological states of the COQ9 membrane protein. ( a ) COQ9 and its associated features, which include an internal angle θ and its distance to the membrane d (left). Cluster centers are shown on the right side of the panel. ( b ) Eve
Image
Identification of different opening states of the allosteric cryptic pocket...
in
Bioinformatics
>
CLoNe: automated clustering based on local density neighborhoods for application to biomolecular structural ensembles
Published: 20 August 2021
Fig. 4.
Identification of different opening states of the allosteric cryptic pocket in TEM1 β-lactamase. ( a ) apo and Holo structures (left and right, respectively). Allosteric inhibitors are shown in gray and white. Features following helical opening include the distance between Cα atoms of N276 and L
Image
Classification and frequency estimation of APP dimerization motifs in the p...
in
Bioinformatics
>
CLoNe: automated clustering based on local density neighborhoods for application to biomolecular structural ensembles
Published: 20 August 2021
Fig. 5.
Classification and frequency estimation of APP dimerization motifs in the plasma membrane. ( a ) The two known dimerization motifs of the transmembrane helix of APP. Membrane is depicted with gray spheres, the G 700 G 704 G 708 motif with teal spheres and the G 709 A 713 motif with gold spheres. (
Journal Article
AMICI: High-Performance Sensitivity Analysis for Large Ordinary Differential Equation Models
Bioinformatics, btab227, https://doi.org/10.1093/bioinformatics/btab227
Published: 02 April 2021
Journal Article
A critical assessment of gene catalogs for metagenomic analysis
Bioinformatics, btab216, https://doi.org/10.1093/bioinformatics/btab216
Published: 01 April 2021
Journal Article
ASHLEYS: automated quality control for single-cell Strand-seq data
Bioinformatics, btab221, https://doi.org/10.1093/bioinformatics/btab221
Published: 01 April 2021
Journal Article
SpacePHARER: Sensitive identification of phages from CRISPR spacers in prokaryotic hosts
Bioinformatics, btab222, https://doi.org/10.1093/bioinformatics/btab222
Published: 01 April 2021
Journal Article
Gene Tracer: A smart, interactive, voice-controlled Alexa skill for gene information retrieval and browsing, mutation annotation, and network visualization
Bioinformatics, btab107, https://doi.org/10.1093/bioinformatics/btab107
Published: 01 April 2021
Journal Article
Fast identification of differential distributions in single-cell RNA-sequencing data with waddR
Bioinformatics, btab226, https://doi.org/10.1093/bioinformatics/btab226
Published: 01 April 2021
Journal Article
OMAmer: tree-driven and alignment-free protein assignment to subfamilies outperforms closest sequence approaches
Bioinformatics, btab219, https://doi.org/10.1093/bioinformatics/btab219
Published: 31 March 2021
Journal Article
VCFShark: how to squeeze a VCF file
Bioinformatics, btab211, https://doi.org/10.1093/bioinformatics/btab211
Published: 31 March 2021
Journal Article
PrecisionProDB: improving the proteomics performance for precision medicine
Bioinformatics, btab218, https://doi.org/10.1093/bioinformatics/btab218
Published: 31 March 2021
Journal Article
Protein Contact Map Refinement for Improving Structure Prediction Using Generative Adversarial Networks
Sai Raghavendra Maddhuri Venkata Subramaniya, Genki Terashi, Aashish Jain, Yuki Kagaya, Daisuke Kihara
Bioinformatics, btab220, https://doi.org/10.1093/bioinformatics/btab220
Published: 31 March 2021
Journal Article
L2,1-norm regularized multivariate regression model with applications to genomic prediction
Bioinformatics, btab212, https://doi.org/10.1093/bioinformatics/btab212
Published: 28 March 2021
Journal Article
EPS: Automated Feature Selection in Case-Control Studies using Extreme Pseudo-Sampling
Bioinformatics, btab214, https://doi.org/10.1093/bioinformatics/btab214
Published: 28 March 2021
Journal Article
ShinyCell: Simple and sharable visualisation of single-cell gene expression data
Bioinformatics, btab209, https://doi.org/10.1093/bioinformatics/btab209
Published: 28 March 2021
Journal Article
Generalised Read-Across prediction using genra-py
Bioinformatics, btab210, https://doi.org/10.1093/bioinformatics/btab210
Published: 27 March 2021
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