Ecosyste.ms: Papers

10.1186/s13029-015-0043-5

CyNetworkBMA: a Cytoscape app for inferring gene regulatory networks
Cited by: 5
Author(s): Maciej Fronczuk, Adrian E. Raftery, Ka Yee Yeung
Software Mentions: 8
Published: about 9 years ago

10.1186/s12976-019-0103-7

Gene regulatory networks on transfer entropy (GRNTE): a novel approach to reconstruct gene regulatory interactions applied to a case study for the plant pathogen Phytophthora infestans
Cited by: 19
Author(s): Juan Castro, Iván Valdés, Laura González-García, Giovanna Danies, Silvia Cañas, Flávia Vischi Winck, Carlos Eduardo Ñústez, Silvia Restrepo, Diego Mauricio Riaño‐Pachón
Software Mentions: 5
Published: over 5 years ago

10.1186/s12918-018-0547-0

BTNET : boosted tree based gene regulatory network inference algorithm using time-course measurement data
Cited by: 30
Author(s): Sungjoon Park, Jung Min Kim, Weon Ho Shin, Sung Won Han, Minji Jeon, Hyun Jin Jang, Ik Soon Jang, Jaewoo Kang
Software Mentions: 5
Published: over 6 years ago

10.3389/fmicb.2020.00853

Use of Dual RNA-seq for Systems Biology Analysis of Zea mays and Aspergillus flavus Interaction
Cited by: 10
Author(s): Bryan Musungu, Deepak Bhatnagar, Sylvie Quiniou, Robert L. Brown, Gary A. Payne, Greg O'Brian, Ahmad M. Fakhoury, Matt Geisler
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pcbi.1005379

Data-driven reverse engineering of signaling pathways using ensembles of dynamic models
Cited by: 41
Author(s): David Henriques, Alejandro F. Villaverde, Miguel Rocha, Julio Sáez-Rodríguez, Julio R. Banga
Software Mentions: 2
Published: almost 8 years ago

10.3389/fimmu.2021.691758

Comparing Host Module Activation Patterns and Temporal Dynamics in Infection by Influenza H1N1 Viruses
Cited by: 0
Author(s): Irina Nudelman, Daniil Kudrin, German Nudelman, Raamesh Deshpande, Boris Hartmann, Steven H. Kleinstein, Chad L. Myers, Stuart C. Sealfon, Elena Zaslavsky
Software Mentions: 2
Published: over 3 years ago

10.3390/ijms19103178

HSCVFNT: Inference of Time-Delayed Gene Regulatory Network Based on Complex-Valued Flexible Neural Tree Model
Cited by: 8
Author(s): Bin Yang, Yuehui Chen, Wei Zhang, Jiaguo Lv, Wenzheng Bao, De-Shuang Huang
Software Mentions: 1
Published: about 6 years ago

10.1186/1752-0509-6-62

Simultaneous learning of instantaneous and time-delayed genetic interactions using novel information theoretic scoring technique
Cited by: 17
Author(s): Nizamul Morshed, Madhu Chetty, Nguyen X. Vinh
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0096732

MIDER: Network Inference with Mutual Information Distance and Entropy Reduction
Cited by: 104
Author(s): Alejandro F. Villaverde, John Ross, Federico Morán, Julio R. Banga
Software Mentions: 1
Published: over 10 years ago

10.1038/s41598-021-90494-y

Modeling the metabolic profile of Mytilus edulis reveals molecular signatures linked to gonadal development, sex and environmental site
Cited by: 2
Author(s): Jaanika Kronberg, Jonathan Byrne, Jeroen M. Jansen, Philipp Antczak, Adam Hines, John P. Bignell, Ioanna Katsiadaki, Mark R. Viant, Francesco Falciani
Software Mentions: 1
Published: over 3 years ago

10.1186/1471-2105-14-196

Incorporating time-delays in S-System model for reverse engineering genetic networks
Cited by: 36
Author(s): Ahsan Raja Chowdhury, Madhu Chetty, Nguyen X. Vinh
Software Mentions: 1
Published: over 11 years ago