Paul T. Spellman

Publication Activity (10 Years)

Years Active: 2001-2023
Publications (10 Years): 4

Top Topics

Classification Systems

Evolutionary History

Information Preserving

Top Venues

Nat. Mac. Intell.

Int. J. Comput. Vis.

Publications

Tao Ren, Canping Chen, Alexey V. Danilov, Susan Liu, Xiangnan Guan, Shunyi Du, Xiwei Wu, Mara H. Sherman, Paul T. Spellman, Lisa M. Coussens, Andrew C. Adey, Gordon B. Mills, Ling-Yun Wu, Zheng Xia
Author Correction: Supervised learning of high-confidence phenotypic subpopulations from single-cell data. Nat. Mac. Intell. 5 (6) (2023)
Tao Ren, Canping Chen, Alexey V. Danilov, Susan Liu, Xiangnan Guan, Shunyi Du, Xiwei Wu, Mara H. Sherman, Paul T. Spellman, Lisa M. Coussens, Andrew C. Adey, Gordon B. Mills, Ling-Yun Wu, Zheng Xia
Supervised learning of high-confidence phenotypic subpopulations from single-cell data. Nat. Mac. Intell. 5 (5) (2023)
Özgün Babur, Augustin Luna, Anil Korkut, Funda Durupinar, Metin Can Siper, Ugur Dogrusoz, Alvaro Sebastian Vaca Jacome, Ryan Peckner, Karen E. Christianson, Jacob D. Jaffe, Paul T. Spellman, Joseph E. Aslan, Chris Sander, Emek Demir
Causal interactions from proteomic profiles: Molecular data meet pathway knowledge. Patterns 2 (6) (2021)
Moritz Gerstung, Clemency Jolly, Ignaty Leshchiner, Stefan C. Dentro, Santiago Gonzalez, Thomas J. Mitchell, Yulia Rubanova, Pavana Anur, Kaixian Yu, Maxime Tarabichi, Amit G. Deshwar, Jeff Wintersinger, Kortine Kleinheinz, Ignacio Vázquez-García, Kerstin Haase, Lara Jerman, Subhajit Sengupta, Geoff MacIntyre, Salem Malikic, Nilgun Donmez, Dimitri G. Livitz, Marek Cmero, Jonas Demeulemeester, Steven E. Schumacher, Yu Fan, Xiaotong Yao, Juhee Lee, Matthias Schlesner, Paul C. Boutros, David D. L. Bowtell, Hongtu Zhu, Gad Getz, Marcin Imielinski, Rameen Beroukhim, Süleyman Cenk Sahinalp, Yuan Ji, Martin Peifer, Florian Markowetz, Ville Mustonen, Ke Yuan, Wenyi Wang, Quaid D. Morris, David J. Adams, Peter J. Campbell, Shaolong Cao, Elizabeth L. Christie, Yupeng Cun, Kevin J. Dawson, Ruben M. Drews, Roland Eils, Matthew Fittall, Dale W. Garsed, Gavin Ha, Henry Lee-Six, Iñigo Martincorena, Layla Oesper, Myron Peto, Benjamin J. Raphael, Daniel T. Rosebrock, Adriana Salcedo, Ruian Shi, Seung Jun Shin, Oliver Spiro, Lincoln D. Stein, Shankar Vembu, David A. Wheeler, Tsun-Po Yang, Paul T. Spellman, David C. Wedge, Peter Van Loo
The evolutionary history of 2,658 cancers. Nat. 578 (7793) (2020)
Hang Chang, Yin Zhou, Alexander Borowsky, Kenneth E. Barner, Paul T. Spellman, Bahram Parvin
Stacked Predictive Sparse Decomposition for Classification of Histology Sections. Int. J. Comput. Vis. 113 (1) (2015)
Hang Chang, Paul T. Spellman, Bahram Parvin
Predictive sparse morphometric context for classification of histology sections. ISBI (2015)
Yin Zhou, Hang Chang, Kenneth E. Barner, Paul T. Spellman, Bahram Parvin
Classification of Histology Sections via Multispectral Convolutional Sparse Coding. CVPR (2014)
Nandita Nayak, Hang Chang, Alexander Borowsky, Paul T. Spellman, Bahram Parvin
Classification of tumor histopathology via sparse feature learning. ISBI (2013)
Nandita Nayak, Hang Chang, Alexander Borowsky, Paul T. Spellman, Bahram Parvin
Classification of tumor histopathology via sparse feature learning. ISBI (2013)
Hang Chang, Alexander Borowsky, Paul T. Spellman, Bahram Parvin
Classification of Tumor Histology via Morphometric Context. CVPR (2013)
Hang Chang, Ju Han, Alexander Borowsky, Leandro A. Loss, Joe W. Gray, Paul T. Spellman, Bahram Parvin
Invariant Delineation of Nuclear Architecture in Glioblastoma Multiforme for Clinical and Molecular Association. IEEE Trans. Medical Imaging 32 (4) (2013)
Hang Chang, Nandita Nayak, Paul T. Spellman, Bahram Parvin
Characterization of Tissue Histopathology via Predictive Sparse Decomposition and Spatial Pyramid Matching. MICCAI (2) (2013)
Elizabeth Purdom, Christine Ho, Catherine S. Grasso, Michael Quist, Raymond J. Cho, Paul T. Spellman
Methods and challenges in timing chromosomal abnormalities within cancer samples. Bioinform. 29 (24) (2013)
Hang Chang, Yin Zhou, Paul T. Spellman, Bahram Parvin
Stacked Predictive Sparse Coding for Classification of Distinct Regions in Tumor Histopathology. ICCV (2013)
Hang Chang, Leandro A. Loss, Paul T. Spellman, Alexander Borowsky, Bahram Parvin
Batch-invariant nuclear segmentation in whole mount histology sections. ISBI (2012)
Hang Chang, Ju Han, Paul T. Spellman, Bahram Parvin
Multireference Level Set for the Characterization of Nuclear Morphology in Glioblastoma Multiforme. IEEE Trans. Biomed. Eng. 59 (12) (2012)
Quoc V. Le, Ju Han, Joe W. Gray, Paul T. Spellman, Alexander Borowsky, Bahram Parvin
Learning invariant features of tumor signatures. ISBI (2012)
Steven M. Hill, Richard M. Neve, Nora Bayani, Wen-Lin Kuo, Safiyyah Ziyad, Paul T. Spellman, Joe W. Gray, Sach Mukherjee
Integrating biological knowledge into variable selection: an empirical Bayes approach with an application in cancer biology. BMC Bioinform. 13 (2012)
Ju Han, Hang Chang, Gerald Fontenay, Paul T. Spellman, Alexander Borowsky, Bahram Parvin
Molecular bases of morphometric composition in Glioblastoma multiforme. ISBI (2012)
Steven M. Hill, Yiling Lu, Jennifer Molina, Laura Heiser, Paul T. Spellman, Terence P. Speed, Joe W. Gray, Gordon B. Mills, Sach Mukherjee
Bayesian Inference of Signaling Network Topology in a Cancer Cell Line. Bioinform. 28 (21) (2012)
Hang Chang, Gerald Fontenay, Ju Han, Ge Cong, Frederick L. Baehner, Joe W. Gray, Paul T. Spellman, Bahram Parvin
Morphometic analysis of TCGA glioblastoma multiforme. BMC Bioinform. 12 (2011)
Ju Han, Hang Chang, Leandro A. Loss, Kai Zhang, Frederick L. Baehner, Joe W. Gray, Paul T. Spellman, Bahram Parvin
Comparison of sparse coding and kernel methods for histopathological classification of gliobastoma multiforme. ISBI (2011)
Adam B. Olshen, Henrik Bengtsson, Pierre Neuvial, Paul T. Spellman, Richard A. Olshen, Venkatraman E. Seshan
Parent-specific copy number in paired tumor-normal studies using circular binary segmentation. Bioinform. 27 (15) (2011)
Leandro A. Loss, Anguraj Sadanandam, Steffen Durinck, Shivani Nautiya, Diane Flaucher, Victoria E. H. Carlton, Martin Moorhead, Yontao Lu, Joe W. Gray, Malek Faham, Paul T. Spellman, Bahram Parvin
Prediction of epigenetically regulated genes in breast cancer cell lines. BMC Bioinform. 11 (2010)
Steffen Durinck, James H. Bullard, Paul T. Spellman, Sandrine Dudoit
GenomeGraphs: integrated genomic data visualization with R. BMC Bioinform. 10 (2009)
Henrik Bengtsson, Amrita Ray, Paul T. Spellman, Terence P. Speed
A single-sample method for normalizing and combining full-resolution copy numbers from multiple platforms, labs and analysis methods. Bioinform. 25 (7) (2009)
Sach Mukherjee, Steven Pelech, Richard M. Neve, Wen-Lin Kuo, Safiyyah Ziyad, Paul T. Spellman, Joe W. Gray, Terence P. Speed
Sparse combinatorial inference with an application in cancer biology. Bioinform. 25 (2) (2009)
Bahram Parvin, Nirmalya Ghosh, Laura Heiser, Merrill Knapp, Carolyn L. Talcott, Keith Laderoute, Joe W. Gray, Paul T. Spellman
Spectral Decomposition of Signaling Networks. CIBCB (2007)
Tim F. Rayner, Philippe Rocca-Serra, Paul T. Spellman, Helen C. Causton, Anna Farne, Ele Holloway, Rafael A. Irizarry, Junmin Liu, Donald Maier, Michael Miller, Kjell Petersen, John Quackenbush, Gavin Sherlock, Christian J. Stoeckert Jr., Joseph White, Patricia L. Whetzel, Farrell Wymore, Helen E. Parkinson, Ugis Sarkans, Catherine A. Ball, Alvis Brazma
A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB. BMC Bioinform. 7 (2006)
Paul T. Spellman
A Status Report on Mage. Bioinform. 21 (17) (2005)
Catherine A. Ball, Gavin Sherlock, Helen E. Parkinson, Philippe Rocca-Serra, Catherine Brooksbank, Helen C. Causton, Duccio Cavalieri, Terry Gaasterland, Pascal Hingamp, Frank C. P. Holstege, Martin Ringwald, Paul T. Spellman, Christian J. Stoeckert Jr., Jason E. Stewart, Ronald Taylor, Alvis Brazma, John Quackenbush
An open letter to the scientific journals. Bioinform. 18 (11) (2002)
Paul T. Spellman
Editorial: The Future of Publishing Microarray Data. Briefings Bioinform. 2 (4) (2001)
Gavin Sherlock, Tina Hernandez-Boussard, Andrew Kasarskis, Gail Binkley, John C. Matese, Selina S. Dwight, Miroslava Kaloper, Shuai Weng, Heng Jin, Catherine A. Ball, Michael B. Eisen, Paul T. Spellman, Patrick O. Brown, David Botstein, J. Michael Cherry
The Stanford Microarray Database. Nucleic Acids Res. 29 (1) (2001)