- Deriva-ML: A Continuous FAIRness Approach to Reproducible Machine Learning Models
Xu, Pazzani, D’Arch, Kesselman, Li.
- IHMCIF: An Extension of the PDBx/mmCIF Data Standard for Integrative Structure Determination Methods
Journal of Molecular Biology. Sali, Berman, Kesselman, Trewhella, Schwede, Velankar, Patwardhan, Morris, Kurisu, Hoch, Burley, Jeffries, Seidel, Rappsilber, Leitner, Lawson, Ferrin, Tajkhorshid, Meiler, Hummer, DiMaio, Bonvin, Yu, Sekharan, Voinea, Tangmunarunkit, Sagendorf, Zalevsky, Peisach, Graziadei, Hanke, Goddard, Westbrook, Webb, Vallat.
- Creating thriving data-centric communities from basic research to commercial applications
2024 IEEE 20th international conference on e-science (e-science). Kesselman, Schuler.
- Regional synapse gain and loss accompany memory formation in larval zebrafish
Proceedings of the National Academy of Sciences. Arnold, Fraser, Kesselman, Truong, Applebaum, Li, Robson, Andreev, Czajkowski, Smith, Nadtochiy, Du, Dempsey.
- Managing database-application co-evolution in a scientific data ecosystem
2022 IEEE 18th international conference on e-science (e-science). Kesselman, Schuler.
- Making Common Fund data more findable: Catalyzing a data ecosystem
GigaScience. White, Brown, Kesselman, Foster, Wagner, Ma’ayan, Sansone, Word, Williams, Waldrop, Tangmunarunkit, Schuler, Schor, Rocca-Serra, Romano, Richter, Nadendla, Munro, Mandal, Mahurkar, Lumian, Liming, Lim, Kropiwnicki, Jeon, Ifeonu, Hodges, Harris, Gingrich, Giglio, Felix, D’Arcy, Creasy, Crabtree, Clarke, Chard, Carter, Canchi, Aluvathingal, Czajkowski, Brady, Charbonneau.
- FaceBase: A Community-Driven Hub for Data-Intensive Research
Journal of Dental Research. Chai, Kesselman, Zhao, Williams, Samuels, Pearlman, Iwata, Ho, Hacia, Bugacov, Schuler.
- Sharing Begins at Home: How Continuous and Ubiquitous FAIRness Can Enhance Research Productivity and Data Reuse
Harvard Data Science Review. Kesselman, Fraser, Foster, Dempsey.
- CUF-Links: Continuous and Ubiquitous FAIRness Linkages for Reproducible Research
Computer. Kesselman, Foster.
- Kidney repair and regeneration: Perspectives of the NIDDK (Re)Building a Kidney consortium
Kidney International. Drummond, De Caestecker, White, Wertheim, Shankland, McMahon, Valerius, Kesselman, Humphreys, Hukriede, Hubbell, Bonventre, Naved.
- MusMorph, a database of standardized mouse morphology data for morphometric meta-analyses
Scientific Data. Hallgrímsson, Marcucio, Westerberg, Murray, Forkert, Dean, Hemberger, Graf, Ackermann, Merrill, Birnbaum, Klein, Cheverud, Jirik, Visel, Lander, Calof, Niswander, Williams, Percival, Rolian, Bugacov, Schuler, Gonzalez, Young, Radford, Nickle, Unger, Marchini, Richbourg, Green, Lo Vercio, Neves, Liu, Vidal-García, Devine.
- New system for archiving integrative structures
Acta Crystallographica Section D Structural Biology. Berman, Sali, Kesselman, Westbrook, Lawson, Ganesan, Tangmunarunkit, Voinea, Fayazi, Webb, Vallat.
- CHiSEL: A user-oriented framework for simplifing database evolution
Distributed and Parallel Databases. Kesselman, Schuler.
- Bayesian metamodeling of complex biological systems across varying representations
Proceedings of the National Academy of Sciences. Sali, Stevens, Kesselman, Graham, Li, Zhao, Wang, Singla, Bharath, Zheng, Tempkin, Sanyal, White, Sun, Raveh.
- Translating the grid: How a translational approach shaped the development of grid computing
Journal of Computational Science. Kesselman, Foster.
- Model-Adaptive Interface Generation for Data-Driven Discovery
arXiv:2110.01781 [cs]. Kesselman, Schuler, Czajkowski, Chudy, Shafaeibejestan, Tangmunarunkit.
- FaceBase 3: Analytical tools and FAIR resources for craniofacial and dental research
Development. Chai, Yuan, Wysocka, Williams, Williams, Welsh, Visel, Bakel, Swigut, Spritz, Selleri, Schuler, Prescott, Mohammed, Marazita, Maas, Lu, Long, Liao, Li, Leslie, Klein, Kesselman, Jones, Jabs, Hooper, Holmes, Ho, Harris, Hansen, Hallgrimsson, Hacia, Gonzalez-Reiche, Fisher, Feingold, Bugacov, Brinkley, Aho, Samuels.
- An Open Ecosystem for Pervasive Use of Persistent Identifiers
Practice and Experience in Advanced Research Computing. Wagner, Schuler, Rocca-Serra, Pruyne, McCollam, Kesselman, Foster, D’Arcy, Chard, Ananthakrishnan.
- Towards Co-Evolution of Data-Centric Ecosystems
32nd International Conference on Scientific and Statistical Database Management. Kesselman, Tangmunarunkit, D’Arcy, Czajkowski, Schuler.
- Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data across 27 Tissue Types
Cell Reports. Ament, Price, Madduri, Foster, Kesselman, Van Horn, Hood, Toga, Golde, Ertekin-Taner, Glusman, Xiao, Chard, Heavner, Donovan-Maiye, Shannon, Rodriguez, Richards, Jung, Casella, Funk.
- ERMRest: A Collaborative Data Catalog with Fine Grain Access Control
2017 IEEE 13th International Conference on e-Science (e-Science). Schuler, Kesselman, Czajkowski.
- Experiences with DERIVA: An Asset Management Platform for Accelerating eScience
2017 IEEE 13th International Conference on e-Science (e-Science). Tangmunarunkit, Schuler, Kumar, Kesselman, Czajkowski, Bugacov.
- (Re)Building a Kidney.
Journal of the American Society of Nephrology. Drummond, Zheng, Wessely, Wertheim, Valerius, Spence, Shankland, McMahon, Little, Ketchum, Kesselman, Kaplan, Jensen, Jain, Humphreys, Hubbell, Hoshizaki, Gossett, Cleaver, Carroll, Oxburgh.
- MultiCellDS: A standard and a community for sharing multicellular data
Macklin, Agus, Swanson, Sparks, Sindi, Scott, Ruderman, Rockne, Rawat, Norton, Newton, Mumenthaler, Merks, Kesselman, Juarez, Hoehme, Hawkins-Daarud, Grimes, Ghaffarizadeh, Frieboes, Fletcher, Bortz, Anderson, Friedman.
- ERMrest: An entity-relationship data storage service for web-based, data-oriented collaboration
Tangmunarunkit, Schuler, Kesselman, Czajkowski.
- Accelerating Data-driven Discovery with Scientific Asset Management
Proceedings of the 12th IEEE International Conference on eScience. Czajkowski, Kesselman, Schuler.
- I’ll take that to go: Big data bags and minimal identifiers for exchange of large, complex datasets
2016 IEEE International Conference on Big Data (Big Data). Toga, Price, Dinov, Deutsch, Clark, Goble, Soiland-Reyes, Rodriguez, Madduri, Kesselman, Foster, Heavner, D’Arcy, Chard.
- Predictive Big Data Analytics: A Study of Parkinson’s Disease Using Large, Complex, Heterogeneous, Incongruent, Multi-source and Incomplete Observations
, Kesselman, Spino, Pa, Madduri, Darcy, Chard, Glusman, Tang, Heavner, Dinov.
- The FaceBase Consortium: A comprehensive resource for craniofacial researchers.
Development. Chai, Consortium, Wysocka, Williams, Visel, Bakel, Spritz, Selleri, Marazita, Maas, Klein, Kesselman, Jones, Jabs, Hooper, Holmes, Harris, Fisher, Brinkley.
