aistats_dtfa.bib

@article{abdi2010principal,
  title = {Principal Component Analysis},
  volume = {2},
  number = {4},
  journal = {Wiley interdisciplinary reviews: computational statistics},
  author = {Abdi, Herv{\'e} and Williams, Lynne J.},
  year = {2010},
  pages = {433--459},
  file = {/Users/janwillem/Zotero/storage/9CF8R97G/Abdi - 2010 - Principal component analysis.pdf;/Users/janwillem/Zotero/storage/XUJWPCGZ/wics.html}
}

@book{hyvarinen2001independent,
  title = {Independent Component Analysis},
  publisher = {{Wiley Online Library}},
  author = {Hyv{\"a}rinen, Aapo and Karhunen, Juha and Oja, Erkki},
  year = {2001},
  file = {/Users/janwillem/Zotero/storage/7Y6IKW6T/Hyvärinen - 2001 - What is independent component analysis.pdf;/Users/janwillem/Zotero/storage/ZXDI24EW/0471221317.html}
}

@article{haxby2011common,
  title = {A Common, High-Dimensional Model of the Representational Space in Human Ventral Temporal Cortex},
  volume = {72},
  number = {2},
  journal = {Neuron},
  author = {Haxby, James V. and Guntupalli, J. Swaroop and Connolly, Andrew C. and Halchenko, Yaroslav O. and Conroy, Bryan R. and Gobbini, M. Ida and Hanke, Michael and Ramadge, Peter J.},
  year = {2011},
  pages = {404--416},
  file = {/Users/janwillem/Zotero/storage/CUVNVYL2/Haxby - 2011 - A common, high-dimensional model of the representational space in human ventral.pdf;/Users/janwillem/Zotero/storage/ACJQ75C6/S0896627311007811.html}
}

@inproceedings{chen2015reduced-dimension,
  title = {A Reduced-Dimension {{fMRI}} Shared Response Model},
  booktitle = {Advances in {{Neural Information Processing Systems}}},
  author = {Chen, Po-Hsuan Cameron and Chen, Janice and Yeshurun, Yaara and Hasson, Uri and Haxby, James and Ramadge, Peter J.},
  year = {2015},
  pages = {460--468},
  file = {/Users/janwillem/Zotero/storage/JL9MLTIH/Chen - 2015 - A reduced-dimension fMRI shared response model.pdf;/Users/janwillem/Zotero/storage/YC985KYI/5855-a-reduced-dimension-fmri-shared-response-model.html}
}

@article{manning2014topographic,
  title = {Topographic {{Factor Analysis}}: {{A Bayesian Model}} for {{Inferring Brain Networks}} from {{Neural Data}}},
  volume = {9},
  issn = {1932-6203},
  shorttitle = {Topographic {{Factor Analysis}}},
  doi = {10.1371/journal.pone.0094914},
  abstract = {The neural patterns recorded during a neuroscientific experiment reflect complex interactions between many brain regions, each comprising millions of neurons. However, the measurements themselves are typically abstracted from that underlying structure. For example, functional magnetic resonance imaging (fMRI) datasets comprise a time series of three-dimensional images, where each voxel in an image (roughly) reflects the activity of the brain structure(s)\textendash{}located at the corresponding point in space\textendash{}at the time the image was collected. FMRI data often exhibit strong spatial correlations, whereby nearby voxels behave similarly over time as the underlying brain structure modulates its activity. Here we develop topographic factor analysis (TFA), a technique that exploits spatial correlations in fMRI data to recover the underlying structure that the images reflect. Specifically, TFA casts each brain image as a weighted sum of spatial functions. The parameters of those spatial functions, which may be learned by applying TFA to an fMRI dataset, reveal the locations and sizes of the brain structures activated while the data were collected, as well as the interactions between those structures.},
  number = {5},
  journal = {PLOS ONE},
  author = {Manning, Jeremy R. and Ranganath, Rajesh and Norman, Kenneth A. and Blei, David M.},
  month = may,
  year = {2014},
  keywords = {Algorithms,Behavior,Covariance,Factor analysis,Functional magnetic resonance imaging,Neural networks,Neuroimaging,Principal component analysis},
  pages = {e94914},
  file = {/Users/janwillem/Zotero/storage/9SFVWXJ5/Manning - 2014 - Topographic Factor Analysis.pdf}
}

@inproceedings{manning2014hierarchical,
  title = {Hierarchical Topographic Factor Analysis},
  booktitle = {Pattern {{Recognition}} in {{Neuroimaging}}, 2014 {{International Workshop}} On},
  publisher = {{IEEE}},
  author = {Manning, Jeremy R. and Ranganath, Rajesh and Keung, Waitsang and Turk-Browne, Nicholas B. and Cohen, Jonathan D. and Norman, Kenneth A. and Blei, David M.},
  year = {2014},
  pages = {1--4},
  file = {/Users/janwillem/Zotero/storage/2VXY884C/Manning - 2014 - Hierarchical topographic factor analysis.pdf;/Users/janwillem/Zotero/storage/I7M5TDH7/6858530.html}
}

@incollection{narayanaswamy2017learning,
  title = {Learning {{Disentangled Representations}} with {{Semi}}-{{Supervised Deep Generative Models}}},
  copyright = {All rights reserved},
  booktitle = {Advances in {{Neural Information Processing Systems}} 30},
  publisher = {{Curran Associates, Inc.}},
  author = {Narayanaswamy, Siddharth and Paige, T. Brooks and {van de Meent}, Jan-Willem and Desmaison, Alban and Goodman, Noah and Kohli, Pushmeet and Wood, Frank and Torr, Philip},
  editor = {Guyon, I. and Luxburg, U. V. and Bengio, S. and Wallach, H. and Fergus, R. and Vishwanathan, S. and Garnett, R.},
  year = {2017},
  pages = {5927--5937},
  file = {/Users/janwillem/Zotero/storage/ELCPGXZP/Narayanaswamy - 2017 - Learning Disentangled Representations with Semi-Supervised Deep Generative.pdf}
}

@misc{2018probtorch,
  title = {ProbTorch: {{Probabilistic Torch}} A Library for Deep Generative Models That Extends {{PyTorch}}},
  copyright = {Apache-2.0},
  shorttitle = {Probtorch},
  publisher = {{probtorch}},
  url = {https://github.com/probtorch/probtorch},
  month = apr,
  year = {2018}
}

@article{paszke2017automatic,
  title = {Automatic Differentiation in {{PyTorch}}},
  author = {Paszke, Adam and Gross, Sam and Chintala, Soumith and Chanan, Gregory and Yang, Edward and DeVito, Zachary and Lin, Zeming and Desmaison, Alban and Antiga, Luca and Lerer, Adam},
  year = {2017},
  file = {/Users/janwillem/Zotero/storage/Q6HETJJ9/Paszke - 2017 - Automatic differentiation in PyTorch.pdf;/Users/janwillem/Zotero/storage/7ABMGPC8/forum.html}
}

@article{simony2016dynamic,
 title={Dynamic reconfiguration of the default mode network during narrative comprehension},
 author={Simony, Erez and Honey, Christopher J and Chen, Janice and Lositsky, Olga and Yeshurun, Yaara and Wiesel, Ami and Hasson, Uri},
 journal={Nature communications},
 volume={7},
 pages={12141},
 year={2016},
 publisher={Nature Publishing Group}
}

@misc{pieman,
  title = {The {{Moth}} | {{Stories}} | {{Pie Man}}},
  abstract = {A fledgling journalist covers the birth of a campus sensation.},
  language = {en-US},
  url = {http://themoth.org/stories/pie-man},
  journal = {The Moth}
}

@article{craddock2012whole,
  title={A whole brain fMRI atlas generated via spatially constrained spectral clustering},
  author={Craddock, R Cameron and James, G Andrew and Holtzheimer III, Paul E and Hu, Xiaoping P and Mayberg, Helen S},
  journal={Human brain mapping},
  volume={33},
  number={8},
  pages={1914--1928},
  year={2012},
  publisher={Wiley Online Library}
}

@article{gonzalez2015tracking,
  title={Tracking ongoing cognition in individuals using brief, whole-brain functional connectivity patterns},
  author={Gonzalez-Castillo, Javier and Hoy, Colin W and Handwerker, Daniel A and Robinson, Meghan E and Buchanan, Laura C and Saad, Ziad S and Bandettini, Peter A},
  journal={Proceedings of the National Academy of Sciences},
  volume={112},
  number={28},
  pages={8762--8767},
  year={2015},
  publisher={National Acad Sciences}
}

@article{power2011functional,
  title={Functional network organization of the human brain},
  author={Power, Jonathan D and Cohen, Alexander L and Nelson, Steven M and Wig, Gagan S and Barnes, Kelly Anne and Church, Jessica A and Vogel, Alecia C and Laumann, Timothy O and Miezin, Fran M and Schlaggar, Bradley L and others},
  journal={Neuron},
  volume={72},
  number={4},
  pages={665--678},
  year={2011},
  publisher={Elsevier}
}

@article{thomas2011organization,
  title={The organization of the human cerebral cortex estimated by intrinsic functional connectivity},
  author={Thomas Yeo, BT and Krienen, Fenna M and Sepulcre, Jorge and Sabuncu, Mert R and Lashkari, Danial and Hollinshead, Marisa and Roffman, Joshua L and Smoller, Jordan W and Z{\"o}llei, Lilla and Polimeni, Jonathan R and others},
  journal={Journal of neurophysiology},
  volume={106},
  number={3},
  pages={1125--1165},
  year={2011},
  publisher={American Physiological Society Bethesda, MD}
}

@article{betzel2017modular,
  title={The modular organization of human anatomical brain networks: Accounting for the cost of wiring},
  author={Betzel, Richard F and Medaglia, John D and Papadopoulos, Lia and Baum, Graham L and Gur, Ruben and Gur, Raquel and Roalf, David and Satterthwaite, Theodore D and Bassett, Danielle S},
  journal={Network Neuroscience},
  volume={1},
  number={1},
  pages={42--68},
  year={2017},
  publisher={MIT Press}
}
@article{fox2010clinical,
  title={Clinical applications of resting state functional connectivity},
  author={Fox, Michael D and Greicius, Michael},
  journal={Frontiers in systems neuroscience},
  volume={4},
  pages={19},
  year={2010},
  publisher={Frontiers}
}
@article{shen2013groupwise,
  title={Groupwise whole-brain parcellation from resting-state fMRI data for network node identification},
  author={Shen, Xilin and Tokoglu, Fuyuze and Papademetris, Xenios and Constable, R Todd},
  journal={Neuroimage},
  volume={82},
  pages={403--415},
  year={2013},
  publisher={Elsevier}
}