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Venues (Conferences, Journals, ...)
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GrowBag graphs for keyword ? (Num. hits/coverage)
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The graphs summarize 36 occurrences of 35 keywords
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Results
Found 421 publication records. Showing 421 according to the selection in the facets
Hits ?▲ |
Authors |
Title |
Venue |
Year |
Link |
Author keywords |
62 | Benjarath Phoophakdee, Mohammed J. Zaki |
Genome-scale disk-based suffix tree indexing. |
SIGMOD Conference |
2007 |
DBLP DOI BibTeX RDF |
disk-based, genome-scale, sequence indexing, suffix tree, external memory |
60 | Xinghua Shi, Rick Stevens |
SWARM: a scientific workflow for supporting bayesian approaches to improve metabolic models. |
CLADE |
2008 |
DBLP DOI BibTeX RDF |
metabolic models, scientific workflow, bayesian approaches |
55 | José P. Pinto, Oscar Días, Anália Lourenço, Sónia Carneiro, Eugénio C. Ferreira, Isabel Rocha, Miguel Rocha 0001 |
Data Integration Issues in the Reconstruction of the Genome-Scale Metabolic Model of Zymomonas Mobillis. |
IWPACBB |
2008 |
DBLP DOI BibTeX RDF |
Genome-scale model reconstruction, Zymomonas mobillis, data integration, data quality |
41 | Yun Zhang 0013, Faisal N. Abu-Khzam, Nicole E. Baldwin, Elissa J. Chesler, Michael A. Langston, Nagiza F. Samatova |
Genome-Scale Computational Approaches to Memory-Intensive Applications in Systems Biology. |
SC |
2005 |
DBLP DOI BibTeX RDF |
|
38 | Marcin Imielinski, Niels Klitgord, Calin Belta |
Investigating the genomic basis of metabolic robustness through in silico flux analysis. |
CDC |
2008 |
DBLP DOI BibTeX RDF |
|
38 | Zheng Fu, Xin Chen 0037, Vladimir Vacic, Peng Nan, Yang Zhong, Tao Jiang 0001 |
A Parsimony Approach to Genome-Wide Ortholog Assignment. |
RECOMB |
2006 |
DBLP DOI BibTeX RDF |
|
37 | Zemin Ning, Mario Cáccamo, James C. Mullikin |
ssahaSNP A Polymorphism Detection Tool on a Whole Genome Scale. |
CSB Workshops |
2005 |
DBLP DOI BibTeX RDF |
|
36 | Xinghua Shi, Rick L. Stevens |
A Bayesian Approach to High-Throughput Biological Model Generation. |
BICoB |
2009 |
DBLP DOI BibTeX RDF |
|
31 | Manesh J. Shah, Sergei Passovets, Dongsup Kim, Kyle Ellrott, Li Wang 0008, Inna Vokler, Philip F. LoCascio, Dong Xu 0002, Ying Xu 0001 |
A Computational Pipeline for Protein Structure Prediction and Analysis at Genome Scale. |
BIBE |
2003 |
DBLP DOI BibTeX RDF |
|
31 | Tao Jiang 0001 |
A Combinatorial Approach to Genome-Wide Ortholog Assignment: Beyond Sequence Similarity Search. |
CPM |
2007 |
DBLP DOI BibTeX RDF |
|
31 | Xin Chen 0037, Jie Zheng 0002, Zheng Fu, Peng Nan, Yang Zhong, Stefano Lonardi, Tao Jiang 0001 |
Assignment of Orthologous Genes via Genome Rearrangement. |
IEEE ACM Trans. Comput. Biol. Bioinform. |
2005 |
DBLP DOI BibTeX RDF |
Ortholog, paralog, reversal, comparative genomics, genome rearrangement, gene duplication |
23 | Meili Chen, Yingke Ma, Song Wu, Xinchang Zheng, Hongen Kang, Jian Sang, Xingjian Xu, Lili Hao, Zhaohua Li, Zheng Gong, Jing-Fa Xiao, Zhang Zhang 0002, Wenming Zhao, Yiming Bao |
Genome Warehouse: A Public Repository Housing Genome-scale Data. |
Genom. Proteom. Bioinform. |
2021 |
DBLP DOI BibTeX RDF |
|
23 | Giancarlo Croce |
Towards a genome-scale coevolutionary analysis. (Vers une analyse co-évolutive à l'échelle du génome). |
|
2019 |
RDF |
|
23 | Risa Kawaguchi, Hisanori Kiryu |
Parallel computation of genome-scale RNA secondary structure to detect structural constraints on human genome. |
BMC Bioinform. |
2016 |
DBLP DOI BibTeX RDF |
|
23 | John W. Nicol, Gregg A. Helt, Steven G. Blanchard Jr., Archana Raja, Ann E. Loraine |
The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets. |
Bioinform. |
2009 |
DBLP DOI BibTeX RDF |
|
22 | Nagiza F. Samatova, Al Geist, George Ostrouchov, Anatoli V. Melechko |
Parallel Out-of-Core Algorithm for Genome-Scale Enumeration of Metabolic Systemic Pathways. |
IPDPS |
2002 |
DBLP DOI BibTeX RDF |
|
20 | Margaret J. Eppstein, Paul Haake |
Very large scale ReliefF for genome-wide association analysis. |
CIBCB |
2008 |
DBLP DOI BibTeX RDF |
|
18 | Adrianto Wirawan, Bertil Schmidt |
Parallel Discovery of Transcription Factor Binding Sites. |
APCCAS |
2006 |
DBLP DOI BibTeX RDF |
|
17 | Bin Du, Laurence Yang 0001, Colton J. Lloyd, Xin Fang, Bernhard O. Palsson |
Genome-scale model of metabolism and gene expression provides a multi-scale description of acid stress responses in Escherichia coli. |
PLoS Comput. Biol. |
2019 |
DBLP DOI BibTeX RDF |
|
16 | Anna V. Anagnostopoulos, Judith A. Blake, Carol J. Bult, Martin Ringwald, Joel E. Richardson, James A. Kadin, Janan T. Eppig |
Using bio-ontologies as data annotation, integration & analytical tools at the Mouse Genome Informatics resource. |
BIBE |
2008 |
DBLP DOI BibTeX RDF |
|
16 | Tsai-Hung Fan, Shufen Lee, Hsueh-I Lu, Tsung-Shan Tsou, Tsai-Cheng Wang, Adam Yao |
An Optimal Algorithm for Maximum-Sum Segment and Its Application in Bioinformatics Extended Abstract. |
CIAA |
2003 |
DBLP DOI BibTeX RDF |
|
13 | Fernando Cruz, João Capela, Eugénio C. Ferreira, Miguel Rocha 0001, Oscar Días |
BioISO: An Objective-Oriented Application for Assisting the Curation of Genome-Scale Metabolic Models. |
IEEE ACM Trans. Comput. Biol. Bioinform. |
2024 |
DBLP DOI BibTeX RDF |
|
13 | Patrick E. Gelbach, Handan Cetin, Stacey D. Finley |
Flux sampling in genome-scale metabolic modeling of microbial communities. |
BMC Bioinform. |
2024 |
DBLP DOI BibTeX RDF |
|
13 | Juliette Cooke, Maxime Delmas, Cecilia Wieder, Pablo Rodríguez-Mier, Clément Frainay, Florence Vinson, Timothy M. D. Ebbels, Nathalie Poupin, Fabien Jourdan |
Genome scale metabolic network modelling for metabolic profile predictions. |
PLoS Comput. Biol. |
2024 |
DBLP DOI BibTeX RDF |
|
13 | Takeyuki Tamura |
MetNetComp: Database for Minimal and Maximal Gene-Deletion Strategies for Growth-Coupled Production of Genome-Scale Metabolic Networks. |
IEEE ACM Trans. Comput. Biol. Bioinform. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Feiran Li, Yu Chen, Johan Gustafsson, Hao Wang, Yi Wang, Chong Zhang, Xinhui Xing |
Genome-scale metabolic models applied for human health and biopharmaceutical engineering. |
Quant. Biol. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Huan Du, Meng Li, Yang Liu |
Towards applications of genome-scale metabolic model-based approaches in designing synthetic microbial communities. |
Quant. Biol. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Thummarat Paklao, Apichat Suratanee, Kitiporn Plaimas |
ICON-GEMs: integration of co-expression network in genome-scale metabolic models, shedding light through systems biology. |
BMC Bioinform. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Jakob P. Pettersen, Sandra Castillo, Paula Jouhten, Eivind Almaas |
Genome-scale metabolic models reveal determinants of phenotypic differences in non-Saccharomyces yeasts. |
BMC Bioinform. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Enes Fahri Tezcan, Yigit Demirtas, Zeynep Petek Cakar, Kutlu Ö. Ülgen |
Comprehensive genome-scale metabolic model of the human pathogen Cryptococcus neoformans: A platform for understanding pathogen metabolism and identifying new drug targets. |
Frontiers Bioinform. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Maxim Zvyagin, Alexander Brace, Kyle Hippe, Yuntian Deng, Bin Zhang, Cindy Orozco Bohorquez, Austin Clyde, Bharat Kale, Danilo Perez-Rivera, Heng Ma, Carla M. Mann, Michael W. Irvin, Defne G. Ozgulbas, Natalia Vassilieva, J. Gregory Pauloski, Logan T. Ward, Valérie Hayot-Sasson, Murali Emani, Sam Foreman, Zhen Xie, Diangen Lin, Maulik Shukla, Weili Nie, Josh Romero, Christian Dallago, Arash Vahdat, Chaowei Xiao, Thomas Gibbs, Ian T. Foster, James J. Davis 0002, Michael E. Papka, Thomas S. Brettin, Rick Stevens, Anima Anandkumar, Venkatram Vishwanath, Arvind Ramanathan |
GenSLMs: Genome-scale language models reveal SARS-CoV-2 evolutionary dynamics. |
Int. J. High Perform. Comput. Appl. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Gaofei Jiang, Jiaxuan Zhang, Yaozhong Zhang, Xinrun Yang, Tingting Li, Ningqi Wang, Xingjian Chen, Fang-Jie Zhao, Zhong Wei, Yangchun Xu, Qirong Shen, Wei Xue |
DCiPatho: deep cross-fusion networks for genome scale identification of pathogens. |
Briefings Bioinform. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Elena Lucy Carter, Chrystala Constantinidou, Mohammad Tauqeer Alam |
Applications of genome-scale metabolic models to investigate microbial metabolic adaptations in response to genetic or environmental perturbations. |
Briefings Bioinform. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Alexandru Oarga, Bridget Bannerman, Jorge Júlvez |
CONTRABASS: exploiting flux constraints in genome-scale models for the detection of vulnerabilities. |
Bioinform. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Pooya Borzou, Jafar Ghaisari, Iman Izadi, Yasin Eshraghi, Yousof Gheisari |
A novel strategy for dynamic modeling of genome-scale interaction networks. |
Bioinform. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Lun Ai 0001, Shi-Shun Liang, Wang-Zhou Dai, Liam Hallett, Stephen H. Muggleton, Geoff S. Baldwin |
Human Comprehensible Active Learning of Genome-Scale Metabolic Networks. |
CoRR |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Ashka Shah, Arvind Ramanathan, Valérie Hayot-Sasson, Rick Stevens |
Causal Discovery and Optimal Experimental Design for Genome-Scale Biological Network Recovery. |
CoRR |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Jinyi Qian, Yuzhou Wang, Xiner Liu, Zijian Hu, Nan Xu, Yuetong Wang, Tianqiong Shi, Chao Ye |
Improving acetoin production through construction of a genome-scale metabolic model. |
Comput. Biol. Medicine |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Pritam Kundu, Amit Ghosh |
Genome-scale community modeling for deciphering the inter-microbial metabolic interactions in fungus-farming termite gut microbiome. |
Comput. Biol. Medicine |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Maxwell Neal, Deepan Thiruppathy, Karsten Zengler |
Genome-scale metabolic modeling of the human gut bacterium Bacteroides fragilis strain 638R. |
PLoS Comput. Biol. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Diego Tec-Campos, Camila Posadas, Juan D. Tibocha-Bonilla, Deepan Thiruppathy, Nathan Glonek, Cristal Zuñiga, Alejandro Zepeda, Karsten Zengler |
The genome-scale metabolic model for the purple non-sulfur bacterium Rhodopseudomonas palustris Bis A53 accurately predicts phenotypes under chemoheterotrophic, chemoautotrophic, photoheterotrophic, and photoautotrophic growth conditions. |
PLoS Comput. Biol. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Tareian A. Cazares, Faiz W. Rizvi, Balaji Iyer, Xiaoting Chen, Michael Kotliar, Anthony T. Bejjani, Joseph A. Wayman, Omer Donmez, Benjamin Wronowski, Sreeja Parameswaran, Leah C. Kottyan, Artem Barski, Matthew T. Weirauch, V. B. Surya Prasath, Emily R. Miraldi |
maxATAC: Genome-scale transcription-factor binding prediction from ATAC-seq with deep neural networks. |
PLoS Comput. Biol. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Tyler W. H. Backman, Christina Schenk, Tijana Radivojevic, David Ando, Jahnavi Singh, Jeffrey J. Czajka, Zak Costello, Jay D. Keasling, Yinjie Tang, Elena V. Akhmatskaya, Héctor García Martín |
BayFlux: A Bayesian method to quantify metabolic Fluxes and their uncertainty at the genome scale. |
PLoS Comput. Biol. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Emanuel Cunha, Miguel Silva, Inês Chaves, Hüseyin Demirci, Davide Lagoa, Diogo Lima, Miguel Rocha 0001, Isabel Rocha, Oscar Días |
The first multi-tissue genome-scale metabolic model of a woody plant highlights suberin biosynthesis pathways in Quercus suber. |
PLoS Comput. Biol. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Alina Rekena, Marina J. Pinheiro, Nemailla Bonturi, Isma Belouah, Eliise Tammekivi, Koit Herodes, Eduard J. Kerkhoven, Petri-Jaan Lahtvee |
Genome-scale metabolic modeling reveals metabolic trade-offs associated with lipid production in Rhodotorula toruloides. |
PLoS Comput. Biol. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | William T. Scott Jr., Sara Benito-Vaquerizo, Johannes Zimmermann, Djordje Bajic, Almut Heinken, María Suárez-Diez, Peter J. Schaap |
A structured evaluation of genome-scale constraint-based modeling tools for microbial consortia. |
PLoS Comput. Biol. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Puhua Niu, Maria J. Soto, Shuai Huang 0001, Byung-Jun Yoon, Edward R. Dougherty, Francis J. Alexander, Ian Blaby, Xiaoning Qian |
Sensitivity Analysis of Genome-Scale Metabolic Flux Prediction. |
J. Comput. Biol. |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Veli Mäkinen, Djamal Belazzougui, Fabio Cunial, Alexandru I. Tomescu |
Genome-Scale Algorithm Design: Bioinformatics in the Era of High-Throughput Sequencing (2nd edition). |
|
2023 |
RDF |
|
13 | Ashka Shah, Arvind Ramanathan, Valérie Hayot-Sasson, Rick Stevens |
Causal Discovery and Optimal Experimental Design for Genome-Scale Biological Network Recovery. |
PASC |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Teresa Joven, Jorge Lázaro, Jorge Júlvez |
Modeling Uncertain Biomass Composition in Genome-Scale Metabolic Models with Flexible Nets. |
QEST |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Gautham Dharuman, Arvind Ramanathan |
Protein Generation via Genome-scale Language Models with Bio-physical Scoring. |
SC Workshops |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Kowshika Sarker, Ruoqing Zhu, Hannah D. Holscher, ChengXiang Zhai |
Augmenting nutritional metabolomics with a genome-scale metabolic model for assessment of diet intake. |
BCB |
2023 |
DBLP DOI BibTeX RDF |
|
13 | Miria Bernardino, Robert G. Beiko |
Genome-scale prediction of bacterial promoters. |
Biosyst. |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Ying Ji 0002, Rui Chen 0021, Quan Wang 0004, Qiang Wei, Ran Tao, Bingshan Li |
A Bayesian framework to integrate multi-level genome-scale data for Autism risk gene prioritization. |
BMC Bioinform. |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Max van 't Hof, Omkar S. Mohite, Jonathan M. Monk, Tilmann Weber, Bernhard O. Palsson, Morten O. A. Sommer |
High-quality genome-scale metabolic network reconstruction of probiotic bacterium Escherichia coli Nissle 1917. |
BMC Bioinform. |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Yumeng Zhang, Yangming Zhang, Yi Xiong, Hui Wang, Zixin Deng, Jiangning Song, Hong-Yu Ou |
T4SEfinder: a bioinformatics tool for genome-scale prediction of bacterial type IV secreted effectors using pre-trained protein language model. |
Briefings Bioinform. |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Xinxin Peng, Xiaoyu Wang, Yuming Guo, Zongyuan Ge, Fuyi Li, Xin Gao 0001, Jiangning Song |
RBP-TSTL is a two-stage transfer learning framework for genome-scale prediction of RNA-binding proteins. |
Briefings Bioinform. |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Gianvito Pio, Paolo Mignone, Giuseppe Magazzù, Guido Zampieri, Michelangelo Ceci, Claudio Angione |
Integrating genome-scale metabolic modelling and transfer learning for human gene regulatory network reconstruction. |
Bioinform. |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Rebecca L. Rubinstein, Mikayla A. Borton, Haiyan Zhou, Michael Shaffer, David W. Hoyt, James Stegen, Christopher S. Henry, Kelly C. Wrighton, Roelof Versteeg |
ORT: a workflow linking genome-scale metabolic models with reactive transport codes. |
Bioinform. |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Ines Thiele, German A. Preciat Gonzalez, Ronan M. T. Fleming |
MetaboAnnotator: an efficient toolbox to annotate metabolites in genome-scale metabolic reconstructions. |
Bioinform. |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Tadeja Rezen, Alexandre Martins, Miha Mraz, Nikolaj Zimic, Damjana Rozman, Miha Moskon |
Integration of omics data to generate and analyse COVID-19 specific genome-scale metabolic models. |
Comput. Biol. Medicine |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Abhijit Paul, Salman Azhar, Phonindra Nath Das, Nandadulal Bairagi, Samrat Chatterjee |
Elucidating the metabolic characteristics of pancreatic β-cells from patients with type 2 diabetes (T2D) using a genome-scale metabolic modeling. |
Comput. Biol. Medicine |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Tânia Barata, Vítor Vieira, Rúben Rodrigues, Ricardo Pires das Neves, Miguel Rocha 0001 |
Reconstruction of tissue-specific genome-scale metabolic models for human cancer stem cells. |
Comput. Biol. Medicine |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Giuseppe Magazzù, Guido Zampieri, Claudio Angione |
Clinical stratification improves the diagnostic accuracy of small omics datasets within machine learning and genome-scale metabolic modelling methods. |
Comput. Biol. Medicine |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Alexandre Oliveira, Emanuel Cunha, Fernando Cruz, João Capela, João Carlos Sequeira, Marta Sampaio, Cláudia Sampaio, Oscar Días |
Systematic assessment of template-based genome-scale metabolic models created with the BiGG Integration Tool. |
J. Integr. Bioinform. |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Maureen A. Carey, Gregory L. Medlock, Michal Stolarczyk, William A. Petri Jr., Jennifer L. Guler, Jason A. Papin |
Comparative analyses of parasites with a comprehensive database of genome-scale metabolic models. |
PLoS Comput. Biol. |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Verónica S. Martínez, Pedro A. Saa, Jason Jooste, Kanupriya Tiwari, Lake-Ee Quek, Lars Keld Nielsen |
The topology of genome-scale metabolic reconstructions unravels independent modules and high network flexibility. |
PLoS Comput. Biol. |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Nicole Pearcy, Marco Garavaglia, Thomas Millat, James P. Gilbert, Yoseb Song, Hassan Hartman, Craig Woods, Claudio Tomi-Andrino, Rajesh Reddy Bommareddy, Byung-Kwan Cho, David A. Fell, Mark Poolman, John R. King, Klaus Winzer, Jamie Twycross, Nigel P. Minton |
A genome-scale metabolic model of Cupriavidus necator H16 integrated with TraDIS and transcriptomic data reveals metabolic insights for biotechnological applications. |
PLoS Comput. Biol. |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Matteo N. Amaradio, Giorgio Jansen, Varun Ojha 0001, Jole Costanza, Giuseppe Di Fatta, Giuseppe Nicosia |
Inferring Pathological Metabolic Patterns in Breast Cancer Tissue from Genome-Scale Models. |
LOD (1) |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Kiumars Badr, Q. Peter He, Jin Wang |
Understanding the evolution of interspecies metabolic interactions using dynamic genome-scale metabolic modeling*. |
ACC |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Yunfeng Shan, Guo Li, Xiu-Qing Li, Robin Gras, Youjun Zhou |
Data-Mining with Three Genome-Scale Approaches Supports that Lungfish is the Closest Living Relative of Land Vertebrate, but not Coelacanth. |
CSCI |
2022 |
DBLP DOI BibTeX RDF |
|
13 | Payal Gaggar, Manish Kumar, Kunal Mukhopadhyay |
Genome-Scale Identification, in Silico Characterization and Interaction Study Between Wheat SNARE and NPSN Gene Families Involved in Vesicular Transport. |
IEEE ACM Trans. Comput. Biol. Bioinform. |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Sudip Sharma, Sudhir Kumar 0001 |
Fast and accurate bootstrap confidence limits on genome-scale phylogenies using little bootstraps. |
Nat. Comput. Sci. |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Qi Wang, Zhaoqian Liu, Bo Yan, Wen-Chi Chou, Laurence Ettwiller, Qin Ma 0003, Bingqiang Liu |
A novel computational framework for genome-scale alternative transcription units prediction. |
Briefings Bioinform. |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Wei Du 0002, Gaoyang Li, Nicholas Ho, Landon Jenkins, Drew Hockaday, Jiankang Tan, Huansheng Cao |
CyanoPATH: a knowledgebase of genome-scale functional repertoire for toxic cyanobacterial blooms. |
Briefings Bioinform. |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Sisheng Liu, Jinpeng Liu, Yanqi Xie, Tingting Zhai, Eugene W. Hinderer, Arnold J. Stromberg, Nathan L. Vanderford, Jill M. Kolesar, Hunter N. B. Moseley, Li Chen, Chunming Liu, Chi Wang 0003 |
MEScan: a powerful statistical framework for genome-scale mutual exclusivity analysis of cancer mutations. |
Bioinform. |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Almut Heinken, Stefanía Magnúsdóttir, Ronan M. T. Fleming, Ines Thiele |
DEMETER: efficient simultaneous curation of genome-scale reconstructions guided by experimental data and refined gene annotations. |
Bioinform. |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Mahim Mahbub, Zahin Wahab, Rezwana Reaz, Mohammad Saifur Rahman, Md. Shamsuzzoha Bayzid |
wQFM: highly accurate genome-scale species tree estimation from weighted quartets. |
Bioinform. |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Sylwester Swat, Artur Laskowski, Jan Badura, Wojciech Frohmberg, Pawel Wojciechowski, Aleksandra Swiercz, Marta Kasprzak, Jacek Blazewicz |
Genome-scale de novo assembly using ALGA. |
Bioinform. |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Ewelina Weglarz-Tomczak, Jakub M. Tomczak, Stanley Brul |
M2R: a Python add-on to cobrapy for modifying human genome-scale metabolic reconstruction using the gut microbiota models. |
Bioinform. |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Giuseppe Cattaneo, Umberto Ferraro Petrillo, Raffaele Giancarlo, Francesco Palini, Chiara Romualdi |
The Power of Alignment-Free Histogram-based Functions: a Comprehensive Genome Scale Experimental Analysis - Version 1. |
CoRR |
2021 |
DBLP BibTeX RDF |
|
13 | Leo Zhu, William Pei, Ines Thiele, Radhakrishnan Mahadevan |
Integration of a physiologically-based pharmacokinetic model with a whole-body, organ-resolved genome-scale model for characterization of ethanol and acetaldehyde metabolism. |
PLoS Comput. Biol. |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Christian Schulz 0011, Tjasa Kumelj, Emil Karlsen, Eivind Almaas |
Genome-scale metabolic modelling when changes in environmental conditions affect biomass composition. |
PLoS Comput. Biol. |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Piyush Nanda, Amit Ghosh |
Genome Scale-Differential Flux Analysis reveals deregulation of lung cell metabolism on SARS-CoV-2 infection. |
PLoS Comput. Biol. |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Chaitra Sarathy, Marian Breuer, Martina Kutmon, Michiel E. Adriaens, Chris T. A. Evelo, Ilja C. W. Arts |
Comparison of metabolic states using genome-scale metabolic models. |
PLoS Comput. Biol. |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Sudharshan Ravi, Rudiyanto Gunawan |
ΔFBA - Predicting metabolic flux alterations using genome-scale metabolic models and differential transcriptomic data. |
PLoS Comput. Biol. |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Alexandre Oliveira, Emanuel Cunha, Fernando Cruz, João Capela, João Carlos Sequeira, Marta Sampaio, Oscar Días |
Towards a Multivariate Analysis of Genome-Scale Metabolic Models Derived from the BiGG Models Database. |
PACBB |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Miria Bernardino, Robert G. Beiko |
Genome-scale prediction of bacterial promoters. |
CIBCB |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Mu Gao, Peik Lund-Andersen, Alex Morehead, Sajid Mahmud, Chen Chen, Xiao Chen, Nabin Giri, Raj S. Roy, Farhan Quadir, T. Chad Effler, Ryan Prout, Subil Abraham, Wael R. Elwasif, Nicholas Quentin Haas, Jeffrey Skolnick, Jianlin Cheng, Ada Sedova |
High-Performance Deep Learning Toolbox for Genome-Scale Prediction of Protein Structure and Function. |
MLHPC@SC |
2021 |
DBLP DOI BibTeX RDF |
|
13 | Mojtaba Tefagh, Stephen P. Boyd |
SWIFTCORE: a tool for the context-specific reconstruction of genome-scale metabolic networks. |
BMC Bioinform. |
2020 |
DBLP DOI BibTeX RDF |
|
13 | Hanen Mhamdi, Jérémie Bourdon, Abdelhalim Larhlimi, Mourad Elloumi |
Bayesian Integrative Modeling of Genome-Scale Metabolic and Regulatory Networks. |
Informatics |
2020 |
DBLP DOI BibTeX RDF |
|
13 | Archana Hari, Daniel Lobo |
Fluxer: a web application to compute, analyze and visualize genome-scale metabolic flux networks. |
Nucleic Acids Res. |
2020 |
DBLP DOI BibTeX RDF |
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13 | Marco Passaro, Martina Martinovic, Valeria Bevilacqua, Elliot A. Hershberg, Grazisa Rossetti, Brian J. Beliveau, Raoul Jean Pierre Bonnal, Massimiliano Pagani |
OligoMinerApp: a web-server application for the design of genome-scale oligonucleotide in situ hybridization probes through the flexible OligoMiner environment. |
Nucleic Acids Res. |
2020 |
DBLP DOI BibTeX RDF |
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13 | Charles J. Norsigian, Neha Pusarla, John Luke McConn, James T. Yurkovich, Andreas Dräger, Bernhard O. Palsson, Zachary A. King |
BiGG Models 2020: multi-strain genome-scale models and expansion across the phylogenetic tree. |
Nucleic Acids Res. |
2020 |
DBLP DOI BibTeX RDF |
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13 | Vittorio Fortino, Giovanni Scala, Dario Greco |
Feature set optimization in biomarker discovery from genome-scale data. |
Bioinform. |
2020 |
DBLP DOI BibTeX RDF |
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13 | Martin Scharm, Olaf Wolkenhauer, Mahdi Jalili, Ali Salehzadeh-Yazdi |
GEMtractor: extracting views into genome-scale metabolic models. |
Bioinform. |
2020 |
DBLP DOI BibTeX RDF |
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13 | Francisco Guil, José F. Hidalgo, José M. García 0001 |
Boosting the extraction of elementary flux modes in genome-scale metabolic networks using the linear programming approach. |
Bioinform. |
2020 |
DBLP DOI BibTeX RDF |
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13 | Nikolay Martyushenko, Eivind Almaas |
ErrorTracer: an algorithm for identifying the origins of inconsistencies in genome-scale metabolic models. |
Bioinform. |
2020 |
DBLP DOI BibTeX RDF |
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13 | Claude Pasquier, Alain Robichon |
Computational prediction of miRNA/mRNA duplexomes at the whole human genome scale reveals functional subnetworks of interacting genes with embedded miRNA annealing motifs. |
Comput. Biol. Chem. |
2020 |
DBLP DOI BibTeX RDF |
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13 | Andrea Cabbia, Peter A. J. Hilbers, Natal A. W. van Riel |
A Distance-Based Framework for the Characterization of Metabolic Heterogeneity in Large Sets of Genome-Scale Metabolic Models. |
Patterns |
2020 |
DBLP DOI BibTeX RDF |
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