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Using Computational Drug-Gene Analysis to Identify Novel Therapeutic Candidates for Retinal Neuroprotection.
Published in:
International Journal of Molecular Sciences, 2022, v. 23, n. 20, p. 12648, doi. 10.3390/ijms232012648
By:
- Xie, Edward;
- Nadeem, Urooba;
- Xie, Bingqing;
- D'Souza, Mark;
- Sulakhe, Dinanath;
- Skondra, Dimitra
Publication type:
Article
Absence of Gut Microbiota Is Associated with RPE/Choroid Transcriptomic Changes Related to Age-Related Macular Degeneration Pathobiology and Decreased Choroidal Neovascularization.
Published in:
International Journal of Molecular Sciences, 2022, v. 23, n. 17, p. 9676, doi. 10.3390/ijms23179676
By:
- Zhang, Jason Y.;
- Xie, Bingqing;
- Barba, Hugo;
- Nadeem, Urooba;
- Movahedan, Asadolah;
- Deng, Nini;
- Spedale, Melanie;
- D'Souza, Mark;
- Luo, Wendy;
- Leone, Vanessa;
- Chang, Eugene B.;
- Theriault, Betty;
- Sulakhe, Dinanath;
- Skondra, Dimitra
Publication type:
Article
Lynx: a knowledge base and an analytical workbench for integrative medicine.
Published in:
Nucleic Acids Research, 2016, v. 44, p. D882, doi. 10.1093/nar/gkv1257
By:
- Sulakhe, Dinanath;
- Bingqing Xie;
- Taylor, Andrew;
- D'Souza, Mark;
- Balasubramanian, Sandhya;
- Hashemifar, Somaye;
- White, Steven;
- Dave, Utpal J.;
- Agam, Gady;
- Jinbo Xu;
- Sheng Wang;
- Gilliam, T. Conrad;
- Maltsev, Natalia
Publication type:
Article
Lynx web services for annotations and systems analysis of multi-gene disorders.
Published in:
Nucleic Acids Research, 2014, v. 42, n. W1, p. W473, doi. 10.1093/nar/gku517
By:
- Sulakhe, Dinanath;
- Taylor, Andrew;
- Balasubramanian, Sandhya;
- Feng, Bo;
- Xie, Bingqing;
- Börnigen, Daniela;
- Dave, Utpal J.;
- Foster, Ian T.;
- Gilliam, T. Conrad;
- Maltsev, Natalia
Publication type:
Article
Lynx: a database and knowledge extraction engine for integrative medicine.
Published in:
Nucleic Acids Research, 2014, v. 42, n. D1, p. D1007, doi. 10.1093/nar/gkt1166
By:
- Sulakhe, Dinanath;
- Balasubramanian, Sandhya;
- Xie, Bingqing;
- Feng, Bo;
- Taylor, Andrew;
- Wang, Sheng;
- Berrocal, Eduardo;
- Dave, Utpal;
- Xu, Jinbo;
- Börnigen, Daniela;
- Gilliam, T. Conrad;
- Maltsev, Natalia
Publication type:
Article
Article Withdrawn: GNARE: A Grid-based Server for the Analysis of User Submitted Genomes.
Published in:
Nucleic Acids Research, 2012, v. 40, n. 22, p. e177, doi. 10.1093/nar/gkm366
By:
- Glass, Elizabeth;
- Rodriguez, Alexis;
- Romine, Margaret;
- Zhang, Yi;
- D'Souza, Mark;
- Sulakhe, Dinanath;
- Syed, Mustafa;
- Maltsev, Natalia
Publication type:
Article
Correction: Reproducible big data science: A case study in continuous FAIRness.
Published in:
2023
By:
- Madduri, Ravi;
- Chard, Kyle;
- D'Arcy, Mike;
- Jung, Segun C.;
- Rodriguez, Alexis;
- Sulakhe, Dinanath;
- Deutsch, Eric;
- Funk, Cory;
- Heavner, Ben;
- Richards, Matthew;
- Shannon, Paul;
- Glusman, Gustavo;
- Price, Nathan;
- Kesselman, Carl;
- Foster, Ian
Publication type:
Correction Notice
Gut microbiome-based dietary intervention in Parkinson disease subject: A case report.
Published in:
International Journal of Nutrition, Pharmacology, Neurological Diseases, 2023, v. 13, n. 3, p. 158, doi. 10.4103/ijnpnd.ijnpnd_8_23
By:
- Sulthana, Ayesha;
- Paneyala, Shasthara;
- H. S., Sindhu;
- Narayan, Meghana Kowlagi;
- Hediyal, Tousif Ahmed;
- Sharma, Sonali;
- Senthilkumar, Arunsaikiran;
- Dave, Paul;
- Mahalakshmi, Arehally M.;
- Chidambaram, Saravana Babu;
- Monaghan, Tanya M.;
- Sulakhe, Dinanath
Publication type:
Article
An Integrative Computational Approach for Prioritization of Genomic Variants.
Published in:
PLoS ONE, 2014, v. 9, n. 12, p. 1, doi. 10.1371/journal.pone.0114903
By:
- Dubchak, Inna;
- Balasubramanian, Sandhya;
- Wang, Sheng;
- Meyden, Cem;
- Sulakhe, Dinanath;
- Poliakov, Alexander;
- Börnigen, Daniela;
- Xie, Bingqing;
- Taylor, Andrew;
- Ma, Jianzhu;
- Paciorkowski, Alex R.;
- Mirzaa, Ghayda M.;
- Dave, Paul;
- Agam, Gady;
- Xu, Jinbo;
- Al-Gazali, Lihadh;
- Mason, Christopher E.;
- Ross, M. Elizabeth;
- Maltsev, Natalia;
- Gilliam, T. Conrad
Publication type:
Article
CaGrid Workflow Toolkit: A taverna based workflow tool for cancer grid.
Published in:
BMC Bioinformatics, 2010, v. 11, p. 542, doi. 10.1186/1471-2105-11-542
By:
- Wei Tan;
- Madduri, Ravi;
- Nenadic, Alexandra;
- Soiland-Reyes, Stian;
- Sulakhe, Dinanath;
- Foster, Ian;
- Goble, Carole A.
Publication type:
Article
PUMA2—grid-based high-throughput analysis of genomes and metabolic pathways.
Published in:
Nucleic Acids Research, 2006, v. 34, n. suppl 1, p. d369, doi. 10.1093/nar/gkj095
By:
- Maltsev, Natalia;
- Glass, Elizabeth;
- Sulakhe, Dinanath;
- Rodriguez, Alexis;
- Syed, Mustafa H.;
- Bompada, Tanuja;
- Zhang, Yi;
- D'Souza, Mark
Publication type:
Article
Dietary Cholesterol‐Induced Gut Microbes Drive Nonalcoholic Fatty Liver Disease Pathogenesis in a Murine Model.
Published in:
FASEB Journal, 2022, v. 36, p. N.PAG, doi. 10.1096/fasebj.2022.36.S1.0R748
By:
- Hermanson, Jake B.;
- Fei, Na;
- Miyoshi, Sawako;
- Miyoshi, Jun;
- Hawkins, Maximilian;
- Xie, Bingqing;
- Sulakhe, Dinanath;
- Hart, John;
- Chang, Eugene B.;
- Leone, Vanessa A.;
- Charlton, Michael
Publication type:
Article
Exploring the functional impact of alternative splicing on human protein isoforms using available annotation sources.
Published in:
Briefings in Bioinformatics, 2019, v. 20, n. 5, p. 1754, doi. 10.1093/bib/bby047
By:
- Sulakhe, Dinanath;
- D'Souza, Mark;
- Wang, Sheng;
- Balasubramanian, Sandhya;
- Athri, Prashanth;
- Xie, Bingqing;
- Canzar, Stefan;
- Agam, Gady;
- Gilliam, T Conrad;
- Maltsev, Natalia
Publication type:
Article
High-Fat Diet Alters the Retinal Pigment Epithelium and Choroidal Transcriptome in the Absence of Gut Microbiota.
Published in:
Cells (2073-4409), 2022, v. 11, n. 13, p. N.PAG, doi. 10.3390/cells11132076
By:
- Xiao, Jason;
- Xie, Bingqing;
- Dao, David;
- Spedale, Melanie;
- D'Souza, Mark;
- Theriault, Betty;
- Hariprasad, Seenu M.;
- Sulakhe, Dinanath;
- Chang, Eugene B.;
- Skondra, Dimitra
Publication type:
Article
High-Fat Diet Alters the Retinal Transcriptome in the Absence of Gut Microbiota.
Published in:
Cells (2073-4409), 2021, v. 10, n. 8, p. 2119, doi. 10.3390/cells10082119
By:
- Dao, David;
- Xie, Bingqing;
- Nadeem, Urooba;
- Xiao, Jason;
- Movahedan, Asad;
- D'Souza, Mark;
- Leone, Vanessa;
- Hariprasad, Seenu M.;
- Chang, Eugene B.;
- Sulakhe, Dinanath;
- Skondra, Dimitra
Publication type:
Article
The Globus Galaxies platform: delivering science gateways as a service.
Published in:
Concurrency & Computation: Practice & Experience, 2015, v. 27, n. 16, p. 4344, doi. 10.1002/cpe.3486
By:
- Madduri, Ravi;
- Chard, Kyle;
- Chard, Ryan;
- Lacinski, Lukasz;
- Rodriguez, Alex;
- Sulakhe, Dinanath;
- Kelly, David;
- Dave, Utpal;
- Foster, Ian
Publication type:
Article
Experiences building Globus Genomics: a next-generation sequencing analysis service using Galaxy, Globus, and Amazon Web Services.
Published in:
Concurrency & Computation: Practice & Experience, 2014, v. 26, n. 13, p. 2266, doi. 10.1002/cpe.3274
By:
- Madduri, Ravi K.;
- Sulakhe, Dinanath;
- Lacinski, Lukasz;
- Liu, Bo;
- Rodriguez, Alex;
- Chard, Kyle;
- Dave, Utpal J.;
- Foster, Ian T.
Publication type:
Article
Reproducible big data science: A case study in continuous FAIRness.
Published in:
PLoS ONE, 2019, v. 14, n. 4, p. 1, doi. 10.1371/journal.pone.0213013
By:
- Madduri, Ravi;
- Chard, Kyle;
- D’Arcy, Mike;
- Jung, Segun C.;
- Rodriguez, Alexis;
- Sulakhe, Dinanath;
- Deutsch, Eric;
- Funk, Cory;
- Heavner, Ben;
- Richards, Matthew;
- Shannon, Paul;
- Glusman, Gustavo;
- Price, Nathan;
- Kesselman, Carl;
- Foster, Ian
Publication type:
Article

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