• Suche: Bioinformatics programming using Python

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241

Using rapid prototyping to choose a bioinformatics workflow management system
Michael Jackson ; Kostas Kavoussanakis ; Edward W. J. Wallace
PLoS Comput Biol
PLoS Computational Biology, Vol 17, Iss 2, p e1008622 (2021)
Jackson, M, Kavoussanakis, K & Wallace, E W J 2021, ' Using prototyping to choose a bioinformatics workflow management system ', PLoS Computational Biology, vol. 17, no. 2, e1008622 . https://doi.org/10.1101/2020.08.04.236208, https://doi.org/10.1371/journal.pcbi.1008622

Data Analysis 0301 basic medicine QH301-705.5 0206 medical engineering Computational Biology Reproducibility of Resul... …
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242

GLDADec: marker-gene guided LDA modeling for bulk gene expression deconvolution.
Azuma, Iori ; Mizuno, Tadahaya ; Kusuhara, Hiroyuki
Briefings in Bioinformatics. Jul2024, Vol. 25 Issue 4, p1-13. 13p.

GENE expression PYTHON programming langu... SUPERVISED learning CELL analysis SURVIVAL analysis (Biome...
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243

PSTP: accurate residue-level phase separation prediction using protein conformational and language model embeddings Open Access.
Feng, Mofan ; Liu, Liangjie ; Xian, Zhuo-Ning ; et al.
Briefings in Bioinformatics; May2025, Vol. 26 Issue 3, p1-14, 14p

LANGUAGE models SYNTHETIC proteins PHASE separation PROTEIN fractionation AMINO acid sequence PYTHON programming langu... …
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244

PhosX: data-driven kinase activity inference from phosphoproteomics experiments.
Lussana, Alessandro ; Müller-Dott, Sophia ; Saez-Rodriguez, Julio ; et al.
Bioinformatics. Dec2024, Vol. 40 Issue 12, p1-5. 5p.

PYTHON programming langu... DRUG target KINASES BIOCHEMICAL substrates PHOSPHOPEPTIDES
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245

Sensitive gene fusion detection using ambiguously mapping RNA-Seq read pairs.
Kinsella, Marcus ; Harismendy, Olivier ; Nakano, Masakazu ; et al.
Bioinformatics; Apr2011, Vol. 27 Issue 8, p1068-1075, 8p

GENE fusion NUCLEOTIDE sequence RNA GENE mapping C++ PYTHON programming langu... …
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246

The BioExcel methodology for developing dynamic, scalable, reliable and portable computational biomolecular workflows
Ejarque Artigas, Jorge ; Andrio Balado, Pau ; Hospital Gasch, Adam ; et al.
UPCommons. Portal del coneixement obert de la UPC
Universitat Politècnica de Catalunya (UPC)

FOS: Computer and inform... 0301 basic medicine 0303 health sciences J.3 Parallel processing (Ele... Bioinformatics …
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247

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248

Gnocis: An integrated system for interactive and reproducible analysis and modelling of cis-regulatory elements in Python 3.
Bredesen-Aa, Bjørn André ; Rehmsmeier, Marc
PLoS ONE. 9/9/2022, Vol. 17 Issue 9, p1-20. 20p.

PYTHON programming langu... STATISTICAL learning CONVOLUTIONAL neural net... MACHINE learning NUCLEOTIDE sequence
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249

Enzyme promiscuity prediction using hierarchy-informed multi-label classification.
Visani, Gian Marco ; Hughes, Michael C ; Hassoun, Soha
Bioinformatics; 7/15/2021, Vol. 37 Issue 14/15, p2017-2024, 8p

PROBLEM solving ENZYMES NATURAL selection PREDICTION models PYTHON programming langu... CLASSIFICATION …
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250

AMDock: a versatile graphical tool for assisting molecular docking with Autodock Vina and Autodock4
Pedro A. Valiente ; Mario E. Valdés-Tresanco ; Ernesto Moreno ; et al.
Biol Direct
Biology Direct, Vol 15, Iss 1, Pp 1-12 (2020)

FOS: Computer and inform... 0301 basic medicine FOS: Health sciences Ligands Biochemistry Gene …
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251

Pygenprop: a Python library for programmatic exploration and comparison of organism genome properties.
Bergstrand, Lee H ; Neufeld, Josh D ; Doxey, Andrew C
Bioinformatics. 12/1/2019, Vol. 35 Issue 23, p5063-5065. 3p.

PYTHON programming langu... BIOINFORMATICS software SOURCE code DATA science COMPARATIVE genomics MACHINE learning …
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252

Large-scale inference of population structure in presence of missingness using PCA.
Meisner, Jonas ; Liu, Siyang ; Huang, Mingxi ; et al.
Bioinformatics; 7/1/2021, Vol. 37 Issue 13, p1868-1875, 8p

MISSING data (Statistics... PRINCIPAL components ana... PYTHON programming langu...
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253

Polyglot Programming with GraalVM Applied to Bioinformatics for DNA Sequence Analysis
Ulises Juárez-Martínez ; José Antonio Romero-Ventura ; Adolfo Centeno-Téllez
Advances in Intelligent Systems and Computing ISBN: 9783030899080

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254

MDGraphEmb: a toolkit for graph embedding and classification of protein conformational ensembles Open Access.
Nezhad, Ferdoos Hossein ; Oues, Namir ; Meli, Massimiliano ; et al.
Bioinformatics. Sep2025, Vol. 41 Issue 9, p1-10. 10p.

MOLECULAR dynamics PROTEIN conformation PYTHON programming langu... REPRESENTATIONS of graph... MACHINE learning DATA mapping …
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255

Building online genomics applications using BioPyramid.
Stephenson, Liam ; Wakeham, Yoshua ; Seidenman, Nick ; et al.
Bioinformatics; Sep2018, Vol. 34 Issue 17, p3055-3057, 3p

GENOMICS GENE expression PYTHON programming langu... BIOINFORMATICS EXPLORATORY factor analy...
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256

p3d – Python module for structural bioinformatics
Christian Fufezan ; Michael Specht
BMC Bioinformatics
BMC Bioinformatics, Vol 10, Iss 1, p 258 (2009)

0301 basic medicine 0303 health sciences QH301-705.5 Protein Conformation Computer applications to... R858-859.7 …
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257

scValue: value-based subsampling of large-scale single-cell transcriptomic data for machine and deep learning tasks Open Access.
Huang, Li ; Gong, Weikang ; Chen, Dongsheng
Briefings in Bioinformatics. May2025, Vol. 26 Issue 3, p1-15. 15p.

MACHINE learning GINI coefficient PYTHON programming langu... CELL analysis RANDOM forest algorithms DEEP learning
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258

KinomeRun: An interactive utility for kinome target screening and interaction fingerprint analysis towards holistic visualization on kinome tree.
Ansar S ; Vetrivel U
Publisher: Wiley-Blackwell Country of Publication: England NLM ID: 101262549 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1747-0285 (Electronic) Linking ISSN: 17470277 NLM ISO Abbreviation: Chem Biol Drug Des Subsets: MEDLINE

Drug Discovery Ligands Protein Kinase Inhibitor... Substrate Specificity Protein Kinases metaboli...
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259

ERStruct: a fast Python package for inferring the number of top principal components from whole genome sequencing data.
Yang, Jinghan ; Xu, Yuyang ; Yao, Minhao ; et al.
BMC Bioinformatics. 5/2/2023, Issue 1, p1-9. 9p.

WHOLE genome sequencing PYTHON programming langu... PARALLEL programming PRINCIPAL components ana... DNA sequencing LINKAGE disequilibrium …
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260

expam—high-resolution analysis of metagenomes using distance trees.
Solari, Sean M ; Young, Remy B ; Marcelino, Vanessa R ; et al.
Bioinformatics; 10/15/2022, Vol. 38 Issue 20, p4814-4816, 3p

SHOTGUN sequencing MICROBIAL communities SOURCE code PYTHON programming langu...
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