Search Results for "pathway" - Page 3
Sort By:
Showing 105 open source projects for "pathway"
View related business solutions-
Build Agents and Models on One PlatformGemini Enterprise Agent Platform is Google Cloud's comprehensive platform for developers to build, scale, govern, and optimize agents and models. Choose from Google's most advanced models and third-party models like Anthropic's Claude Model Family.
-
$300 Free Credits to Build on Google CloudPut your $300 in credit toward real workloads, then keep building with free monthly usage for 20+ products. No commitment and no charge until you upgrade.
-
1
O2 pathway
Integrative computational model of oxygen transport and utilization
This integrative computational model of O2 transport and utilization offers the potential for estimating the maximal rate of O2 uptake (VO2max) and alveolar, systemic arterial, venous and mitochondrial PO2 values. For further details, please see http://www.ncbi.nlm.nih.gov/pubmed/25640017. -
2
PUPPI
A pathway association test incorporating gene-gene interactions
-
3
netClass is an R package for network-based feature (gene) selection for biomarkers discovery via integrating biological information. This package adapts the following 5 algorithms for classifying and predicting gene expression data using prior knowledge: 1) average gene expression of pathway (aep); 2) pathway activities classification (PAC); 3) Hub network classification (hubc); 4) filter via top ranked genes (FrSVM); 5) network smoothed t-statistic (stSVM).
-
4
PathNER
A tool for systematic identification of biological pathway mentions
PathNER is a tool for the identification of specific pathway mentions from biomedical literature. PathNER is built upon the GATE embedded framework.It's based on soft dictionary matching and rules-based detection. The dictionary is generated from ConsensusPathDB and Pathway Ontology and the rules are implemented in JAPE. Using PathNER, you can identify all occurrences of informative pathway names (e.g. -
MongoDB Atlas runs apps anywhereMongoDB Atlas gives you the freedom to build and run modern applications anywhere—across AWS, Azure, and Google Cloud. With global availability in over 115 regions, Atlas lets you deploy close to your users, meet compliance needs, and scale with confidence across any geography.
-
5
StochDecomp
User Manual describing theory behind the package, installation instruc
...With the package it is therefore possible to quantify how the noise enters and propagates in biochemical systems. We also demonstrate and exemplify using the JAK-STAT signalling pathway that it is possible to infer noise contributions resulting from individual reactions directly from experimental data. This is the first computational tool that allows to decompose noise into contributions resulting from individual reactions. -
6
PathMEN
A Java tool for mining pathway mentions from literature
PathNER is a tool for the identification of specific pathway mentions from biomedical literature. PathNER is built upon the GATE embedded framework.It's based on soft dictionary matching and rules-based detection. The dictionary is generated from ConsensusPathDB and Pathway Ontology and the rules are implemented in JAPE. Using PathNER, you can identify all occurrences of informative pathway names (e.g. -
7
AMBIENT
Find active modules in metabolic networks using high-throughput data
...For example, scores for reactions based on transcriptional data of their annotated encoding genes can be used in the network and modules of coordinated expression changes can be found. This provides an alternative to pathway/gene set enrichment analyses which is simultaneously more flexible and more specific. -
8
e-byte
Pathway from EE to Embedded Software Dev.
This project is the implementation of a development plan for efficient transition from being a trained Electrical Engineer to an Embedded Software Developer with more emphasis on embedded controls and maybe Digital Signal Processing (DSP). -
9
DMETANALYZER
A tool for supporting pharmacogenomics data analysis
...The proposed system allows: (i) to automatize the workflow of analysis of DMET-SNP data avoiding the use of multiple tools; (ii) the automatic annotation of DMET-SNP data and the search in existing databases of SNPs (e.g. dbSNP), (iii) the association of SNP with pathway through the search in PharmaKGB, a major knowledge base for pharmacogenomic studies. DMET-Analyzer has a simple graphical user interface that allows users (doctors/biologists) to upload and analyse DMET files produced by Affymetrix DMET-Console in an interactive way. -
Build Securely on AWS with Proven FrameworksMoving to the cloud brings new challenges. How can you manage a larger attack surface while ensuring great network performance? Turn to Fortinet’s Tested Reference Architectures, blueprints for designing and securing cloud environments built by cybersecurity experts. Learn more and explore use cases in this white paper.
-
10
The Cell System Markup Language (CSML) is an XML format for modeling, visualizing and simulating biopathways. CSML supports to represent several pathway types including metabolic, signaling, genetic regulatory pathways, and cell-cell interactions.
-
11
DaddyBASIC
A BASIC Language Interpreter for Embedded Apps
DaddyBASIC was developed in order to provide a means to provide my young boys with a pathway into embedded programming. As of this writing, DaddyBASIC runs on the STM32F103R device, and also can compile and run on a Linux target. -
12
SPA - SNP based pathway analysis
SNP based pathway analysis
Name: SPA Full name: SNP based pathway analysis Maintainer: jiangyongshuai@gmail.com liuguiyou1981@163.com Language: R package Description: SPA is an R package which can identify disease or phenotype related pathways. Input rs# and GWAS test p-values, you can get the related pathways. -
13
labyrinth_game
Moving and rotating tile to make a path
This “The Labyrinth” game is an applied puzzle board game that requires player to use logic and a strategy to pass each level. A core game play is move and rotating puzzles. In This game will be play by mouse. Player will pass each level by moving or rotating puzzle to make a pathway from start point that player’s character is standing at to the Cup on the other side of the board. Game will be obtained by Visual studio 2010 and XNA game studio 4.0. -
14
TRF_Pathway
A Random Forest based Pathway association analysis tool
The TRF-pathway package implements the powerful two-stage random forest based pathway analysis. The manuscript discussing the method is currently under revision at PLoS One. -
15
MAPT (Mapping and Analysis of Pathways through Time) is a tool for mining information from annotated KEGG pathways which have been colored using PAICE. MAPT is a user-friendly tool for both time-series and single-timepoint dataset analysis, with features such as clustering, visualization and annotation-upload.
-
16
Scripts (written in Java) to process miRNA/gene expression data (TCGA) into pathway modification diagrams (KEGG), assisting researchers in identifying miRNA/gene differential-expression "hotspots" in (cancer) pathways.
-
17
The plugin allows automatic highlighting of pathways in an easy and understandable manner.
-
18
Scripts (written in Java) that generate modified pathway diagrams (from KEGG Pathway Database @genome.jp) showing pathway element alterations (up-regulation, mutation, etc.) in ovarian & prostate cancer, glioblastoma & sarcoma (data from cbioportal).
-
19
An analysis pipeline for mining exome-Seq and RNA-Seq data, focusing on quality control, SNP identification and annotation, RNA quantification, differentially expressed genes analysis, eqtl, and pathway analysis. http://seqgene.sourceforge.net
-
20
BioPathXplore is a Bioinformatics Pathway eXploration tool for the visualization and exploration of biological pathways through the integration of KEGG pathways and high throughput data, using Petri nets.
-
21
A plugin for the VANTED system, called Glyph-based Link Exploration of Pathways (GLIEP). It helps to guide the navigation and exploration process of interconnected pathway visualization as well as insight into the overall interconnectivity.
-
22
PAICE is a rapid bioinformatics pathway visualization tool for KEGG-compatible accessions derived from Illumina Solexa next-gen and Affymetrix datasets. It colors KEGG pathways while appreciating detection-calls and duplicate gene copies.
-
23
The Katsura tool overlays microarray gene expression data, proteomics, and similar biological data onto metabolic pathways. [Pathogen Functional Genomics Resource Center (PFGRC) @ J. Craig Venter Institute (JCVI)]
-
24
VISIBIOweb is a free, open-source, web-based pathway visualization and layout services for BioPAX pathway models.
-
25
The Pathway Ontology is a structured controlled vocabulary for biological pathways. Its hierarchical structure offers a ‘view’ of the connections between individual pathways, of the possible link between altered pathways and diseases.
