M. Krallinger , M. Vazquez, F. Leitner, D. Salgado, A. Chatr-aryamontri, A. Winter, L. Perfetto, L. Briganti, L. Licata, M. Iannuccelli, L. Castagnoli, G. Cesareni, M. Tyers, G. Schneider, F. Rinaldi, R. Leaman, G. Gonzalez, S. Matos, S. Kim, W.J. Wilbur, L. Rocha, H. Shatkay, A.V. Tendulkar, S. Agarwal, F. Liu, X. Wang, R. Rak, K. Noto, C. Elkan, Z. Lu, R. Islamaj Dogan, J.F. Fontaine, M.A. Andrade-Navarro and A. Valencia.
The Protein-Protein Interaction tasks of BioCreative III: Classification/Ranking of Articles and Linking Bio-Ontology Concepts to Full Text. BMC Bioinformatics, 12(S8). 2011. S12.
R. Altman, C.M. Bergman,J. Blake, C. Blaschke, A. Cohen, F. Gannon, L. Grivell, U. Hahn, W. Hersh, L. Hirschman, L.J. Jensen, M. Krallinger, B. Mons, S. I. O'Donoghu, M.C. Peitsch, D. Rebholz-Schuhmann, H. Shatkay and A. Valencia.
Text Mining for Biology - The Way Forward: Opinions from Leading Scientists. Genome Biology. 9(S2). 2008. S7.
H. Shatkay, N. Chen and D. Blostein.
Integrating Image Data into Biomedical Text Categorization. Bioinformatics. 22(11). Special issue: Proc. of the Int. Conf. on Intelligent Systems for Molecular Biology (ISMB'06). August, 2006. (pp. e446-e453).
H. Shatkay, J. Miller, C. Mobarry, M. Flanigan, S. Yooseph and G. Sutton.
ThurGood: Evaluating Assembly-to-Assembly Mapping,
Journal of Computational Biology (JCB), V.11, #5, (pp. 800-811), October, 2004.
S. Istrail, G.G. Sutton,
L. Florea, A.L. Halpern, C.M. Mobarry, R. Lippert,
B. Walenz, H. Shatkay, I. Dew, J.R. Miller,
M.J. Flanigan, N.J. Edwards, R. Bolanos, D. Fasulo,
B.V. Halldorsson, S. Hannenhalli, R. Turner, S. Yooseph,
F. Lu, D.R. Nusskern, B.C. Shue, X.H. Zheng,
F. Zhong, A.L. Delcher, D.H. Huson, S.A. Kravitz,
L. Mouchard, K. Reinert, K.A. Remington, A.G. Clark,
M.S. Waterman, E.E. Eichler, M.D. Adams,
M.W. Hunkapiller, E.W. Myers and J.C. Venter.
Whole-Genome Shotgun
Assembly and Comparison of Human Genome Assemblies,
PNAS, V.101, #7, (pp. 1916-1921), February, 2004.
P. Li, X. Jiang and H. Shatkay.
Extracting Figures and Captions from Scientific Publications
Proc. of the ACM Int. Conference on Information and Knowledge Management (CIKM), 2018.
H. Shatkay and L. Zheng. BLIMP: Biomedical Literature (and text) Mining Publications Forum:
A Web-Based Resource.
Poster and Abstract.
The International Conference on Intelligent Systems for Molecular, ISMB, June, 2005.
H. Shatkay and L. Zheng.
BLIMP: Biomedical Literature (and text) Mining Publications Forum:
A Web-Based Resource, Poster and Abstract.
BioLINK SIG Workshop
on Linking Literature, Information and Knowledge for Biology, ISMB,
June, 2005.
H. Shatkay, J. Miller, C. Mobarry, M. Flanigan, S. Yooseph and G. Sutton,
{\it ThurGood: Evaluating Assembly-to-Assembly Mapping},
Poster and Abstract,
The International Conference on Intelligent Systems for Molecular
Biology (ISMB), August, 2004.
H. Shatkay, S. Edwards, W.J. Wilbur and M. Boguski,
Using Information Retrieval for Large Scale Gene Analysis.
Abstract and invited talk at the Dagstuhl Seminar
on Bioinformatics, Schloss Dagstuhl, Wadern Germany, December 2000.
H. Shatkay, S. Edwards, W.J. Wilbur and M. Boguski,
Information Retrieval Meets Gene Analysis. Abstract and poster.
The Fourth TIGR Annual Symposium
on Computational Genomics, Baltimore MD, November, 2000.
H. Shatkay, S. Edwards, W.J. Wilbur and M. Boguski,
{\it Genes, Themes and Microarrays: Automated Genome-Wide
Extraction of Gene Function from PubMed},
Abstract and poster at the NIH Research Festival, Bethesda MD,
October, 2000.
H. Shatkay, S. Edwards, W.J. Wilbur and M. Boguski.
Genes, Themes and Microarrays: Automated Genome-Wide Extraction of
Gene Function from PubMed.
Selected for Oral presentation (selection ratio: 1 out of 5 abstracts)
at the Genome Sequencing and Biology meeting at Cold Spring Harbor,
May, 2000.
H. Shatkay.
Learning Models for Robot Navigation,
Ph.D. dissertation and Technical Report cs-98-11, Brown University,
Department of Computer Science, Providence, RI, December, 1998.
Abstract.