From four-taxon trees to phylogenies (preliminary report): the case of mammalian evolution. - Amir Ben-Dor; Benny Chor; Dan Graur; Ron Ophir; Dan Pelleg (RECOMB, 1998)

Constructing Phylogenies from Quartets: Elucidation of Eutherian Superordinal Relationships. - Amir Ben-Dor; Benny Chor; Dan Graur; Ron Ophir; Dan Pelleg (J. Comput. Biol., 1998)

A Chemical-Distance-Based Test for Positive Darwinian Selection. - Tal Pupko; Roded Sharan; Masami Hasegawa; Ron Shamir; Dan Graur (WABI, 2001)

A branch-and-bound algorithm for the inference of ancestral amino-acid sequences when the replacement rate varies among sites: Application to the evolution of five gene families. - Tal Pupko; Itsik Pe'er; Masami Hasegawa; Dan Graur; Nir Friedman (Bioinform., 2002)

AluGene: a database of Alu elements incorporated within protein-coding genes. - Tal Dagan; Rotem Sorek; Eilon Sharon; Gil Ast; Dan Graur (Nucleic Acids Res., 2004)

Local Reliability Measures from Sets of Co-Optimal Multiple Sequence Alignments. - Giddy Landan; Dan Graur (Pacific Symposium on Biocomputing, 2008)

'Genome order index' should not be used for defining compositional constraints in nucleotide sequences. - Eran Elhaik; Dan Graur; Kresimir Josic (Comput. Biol. Chem., 2008)

GUIDANCE: a web server for assessing alignment confidence scores. - Osnat Penn; Eyal Privman; Haim Ashkenazy; Giddy Landan; Dan Graur; Tal Pupko (Nucleic Acids Res., 2010)

A Comparative Study and a Phylogenetic Exploration of the Compositional Architectures of Mammalian Nuclear Genomes. - Eran Elhaik; Dan Graur (PLoS Comput. Biol., 2014)

The Coming Age of Pervasive Data Processing. - Jan S. Rellermeyer; Sobhan Omranian Khorasani; Dan Graur; Apourva Parthasarathy (ISPDC, 2019)

Hermes: Enabling efficient large-scale simulation in MATSim. - Dan Graur; Rodrigo Bruno; Joschka Bischoff; Marcel Rieser; Wolfgang Scherr; Torsten Hoefler; Gustavo Alonso (ANT/EDI40, 2021)

Specializing generic Java data structures. - Dan Graur; Rodrigo Bruno; Gustavo Alonso (MPLR, 2021)

Evaluating Query Languages and Systems for High-Energy Physics Data. - Dan Graur; Ingo Müller 002; Mason Proffitt; Ghislain Fourny; Gordon T. Watts; Gustavo Alonso (Proc. VLDB Endow., 2021)

Cachew: Machine Learning Input Data Processing as a Service. - Dan Graur; Damien Aymon; Dan Kluser; Tanguy Albrici; Chandramohan A. Thekkath; Ana Klimovic (USENIX ATC, 2022)

A case for disaggregation of ML data processing. - Andrew Audibert; Yang Chen 003; Dan Graur; Ana Klimovic; Jiri Simsa; Chandramohan A. Thekkath (CoRR, 2022)

tf.data service: A Case for Disaggregating ML Input Data Processing. - Andrew Audibert; Yang Chen 003; Dan Graur; Ana Klimovic; Jirí Simsa; Chandramohan A. Thekkath (SoCC, 2023)

Addressing the Nested Data Processing Gap: JSONiq Queries on Snowflake Through Snowpark. - Dan Graur; Remo Röthlisberger; Adrian Jenny; Ghislain Fourny; Filip Drozdowski; Choden Konigsmark; Ingo Müller 002; Gustavo Alonso (ICDE, 2024)

Pecan: Cost-Efficient ML Data Preprocessing with Automatic Transformation Ordering and Hybrid Placement. - Dan Graur; Oto Mraz; Muyu Li; Mohammad Sepehr Pourghannad; Chandramohan A. Thekkath; Ana Klimovic (USENIX ATC, 2024)

The Status-Quo in nested data processing for high-energy physics. - Dan Graur; Ingo Müller 002; Mason Proffitt; Ghislain Fourny; Gordon T. Watts; Gustavo Alonso (VLDB J., 2025)