Update papers.bib

Author: harishB97

_bibliography/papers.bib

@@ -20,13 +20,22 @@
 - `altmetric`: Adds an [Altmetric](https://www.altmetric.com/) badge (Note: if DOI is provided just use `true`, otherwise only add the altmetric identifier here - the link is generated automatically)
 - `dimensions`: Adds a [Dimensions](https://www.dimensions.ai/) badge (Note: if DOI or PMID is provided just use `true`, otherwise only add the Dimensions' identifier here - the link is generated automatically)
 
+@article{manogaran2024what,
+author = {Manogaran, Harish Babu and Maruf, M and Daw, Arka and Sajeed Mehrab, Kazi and  Charpentier, Caleb Patrick  and Uyeda, Josef C. and Dahdul, Wasila and Thompson, Matthew J and Campolongo, Elizabeth G and Provost, Kaiya L and Mabee, Paula M. and Lapp, Hilmar and Karpatne, Anuj},
+title = {What Do You See in Common? Learning Hierarchical Prototypes over Tree-of-Life to Discover Evolutionary Traits},
+year = {2024},
+journal = {arXiv preprint},
+abbr = {arXiv},
+preview = {hcomp.png},
+pdf = {https://arxiv.org/abs/2409.02335}
+}
 
 @article{khurana2024hierarchical,
 author = {Khurana, Mridul and Daw, Arka and Maruf, M. and Uyeda, Josef C. and Dahdul, Wasila and Charpentier, Caleb and Bakis, Yasin and Bart, Henry L. and Mabee, Paula M. and Lapp, Hilmar and Balhoff, James P. and Chao, Wei-Lun and Stewart, Charles and Berger-Wolf, Tanya and Karpatne, Anuj},
 title = {Hierarchical Conditioning of Diffusion Models Using Tree-of-Life for Studying Species Evolution},
 year = {2024},
 journal = {ECCV},
-abbr = {EECV},
+abbr = {ECCV},
 booktitle = {Proceedings of ECCV},
 keywords = {Evolution, Diffusion Models, Hierarchical Conditioning, Generative AI, Computer Vision},
 preview = {phylo_diffusion_architecture.jpg},
@@ -39,9 +48,10 @@ @article{mehrab2024fish
   title={Fish-Vista: A Multi-Purpose Dataset for Understanding \& Identification of Traits from Images},
   author={Mehrab, Kazi Sajeed and Maruf, M and Daw, Arka and Manogaran, Harish Babu and Neog, Abhilash and Khurana, Mridul and Altintas, Bahadir and Bakis, Yasin and Campolongo, Elizabeth G and Thompson, Matthew J and others},
   journal={arXiv preprint arXiv:2407.08027},
-  arxiv = {2407.08027},
   year={2024},
   preview = {fishvista.jpg},
+  abbr = {arXiv},
+  pdf={https://arxiv.org/abs/2407.08027}
 }
 
 @article{sawhney2024motion,
@@ -53,7 +63,9 @@ @article{sawhney2024motion
   number={4},
   pages={2300590},
   year={2024},
-  publisher={Wiley Online Library}
+  publisher={Wiley Online Library},
+  pdf={https://arxiv.org/abs/2310.09441},
+  preview={memtrack.jpg}
 }
 
 @article{elhamod2023neuro,
@@ -62,14 +74,19 @@ @article{elhamod2023neuro
   journal={ICML},
   abbr = {ICML},
   arxiv = {2309.14601},
-  year={2024}
+  year={2024},
+  pdf={https://arxiv.org/abs/2309.14601},
+  preview={neuroviz.png}
 }
 
 @article{maruf2023beyond,
   title={Beyond Discriminative Regions: Saliency Maps as Alternatives to CAMs for Weakly Supervised Semantic Segmentation},
   author={Maruf, M and Daw, Arka and Dutta, Amartya and Bu, Jie and Karpatne, Anuj},
   journal={arXiv preprint arXiv:2308.11052},
-  year={2023}
+  year={2023},
+  abbr = {arXiv},
+  pdf={https://arxiv.org/abs/2308.11052},
+  preview={ws3.png},
 }
 
 @inproceedings{elhamod2023discovering,
@@ -80,13 +97,17 @@ @inproceedings{elhamod2023discovering
   year={2023},
   pdf={https://arxiv.org/abs/2306.03228},
   preview = {phyloNN_toc.png},
+  abbr = {KDD},
 }
 
 @inproceedings{sawhney2023detecting,
   title={Detecting and Tracking Hard-to-Detect Bacteria in Dense Porous Backgrounds},
   author={Sawhney, Medha and Karmarkar, Bhas and Leaman, Eric J and Daw, Arka and Karpatne, Anuj and Behkam, Bahareh},
   year={2023},
-  booktitle={CVPR Workshop on CV4Animals 2023}
+  booktitle={CVPR Workshop on CV4Animals 2023},
+  pdf={https://onlinelibrary.wiley.com/doi/full/10.1002/aisy.202300590},
+  preview = {memtrack_cvpr.jpg},
+  abbr = {CVPR CV4Animals Workshop},
 }
 
 @article{daw2022mitigating,
@@ -95,14 +116,20 @@ @article{daw2022mitigating
   journal={arXiv preprint arXiv:2207.02338},
   arxiv = {2207.02338},
   booktitle= {ICML},
-  year={2023}
+  year={2023},
+  pdf={https://arxiv.org/abs/2207.02338},
+  preview = {r3.png},
+  abbr = {ICML},
 }
 
 @article{bu2023let,
   title={Let There Be Order: Rethinking Ordering in Autoregressive Graph Generation},
   author={Bu, Jie and Mehrab, Kazi Sajeed and Karpatne, Anuj},
   journal={arXiv preprint arXiv:2305.15562},
-  year={2023}
+  year={2023},
+  abbr={arXiv},
+  pdf={https://arxiv.org/abs/2305.15562},
+  preview={graphart.png}
 }
 
 @INPROCEEDINGS{10020603,
@@ -114,7 +141,10 @@ @INPROCEEDINGS{10020603
   number={},
   pages={4835-4841},
   keywords={Methane;Pollution;Stacking;Big Data;Multitasking;Mathematical models;Greenhouse gases;Climate change;Environmental monitoring;Physics-informed Machine Learning;Uncertainty Quantification;Climate and Sustainability},
-  doi={10.1109/BigData55660.2022.10020603}
+  doi={10.1109/BigData55660.2022.10020603},
+  abbr={IEEE BigData},
+  pdf={https://ieeexplore.ieee.org/stamp/stamp.jsp?arnumber=10020603},
+  preview={multitask.png}
 }
 
 @article{elhamod2022cophy,
@@ -125,7 +155,10 @@ @article{elhamod2022cophy
   number={6},
   pages={1--23},
   year={2022},
-  publisher={ACM New York, NY}
+  publisher={ACM New York, NY},
+  abbr={TIST},
+  pdf={https://arxiv.org/abs/2007.01420},
+  preview={cophy.png}
 }
 
 @incollection{daw2022physics,
@@ -134,7 +167,10 @@ @incollection{daw2022physics
   booktitle={Knowledge Guided Machine Learning},
   pages={399--416},
   year={2022},
-  publisher={Chapman and Hall/CRC}
+  publisher={Chapman and Hall/CRC},
+  abbr={Book Chapter},
+  pdf={https://arxiv.org/abs/1911.02682},
+  preview={pga_lstm.png}
 }
 
 @article{elhamod2022hierarchy,
@@ -145,6 +181,9 @@ @article{elhamod2022hierarchy
   number={3},
   pages={642--652},
   year={2022},
+  abbr={Methods in Ecology and Evolution},
+  pdf={https://www.biorxiv.org/content/10.1101/2021.01.17.427006v3},
+  preview={hgnn.png}
 }
 
 @article{bu2021learning,
@@ -153,7 +192,10 @@ @article{bu2021learning
   journal={Advances in Neural Information Processing Systems},
   volume={34},
   pages={3491--3503},
-  year={2021}
+  year={2021},
+  abbr={NeurIPS},
+  pdf={https://proceedings.neurips.cc/paper_files/paper/2021/file/1cc8a8ea51cd0adddf5dab504a285915-Paper.pdf},
+  preview={dam.png}
 }
 
 @inproceedings{papakis2021graph,
@@ -162,93 +204,68 @@ @inproceedings{papakis2021graph
   booktitle={2021 IEEE International Intelligent Transportation Systems Conference (ITSC)},
   pages={2980--2986},
   year={2021},
-  organization={IEEE}
-}
-
-
-@inproceedings{yu2021physics,
-  title={Physics-guided ai for large-scale spatiotemporal data},
-  author={Yu, Rose and Perdikaris, Paris and Karpatne, Anuj},
-  booktitle={Proceedings of the 27th ACM SIGKDD Conference on Knowledge Discovery \& Data Mining},
-  pages={4088--4089},
-  year={2021}
+  organization={IEEE},
+  abbr={ITSC},
+  pdf={https://vtechworks.lib.vt.edu/items/fd1c66fd-8332-45fc-add7-758edd8c101e},
+  preview={papakis.png}
 }
 
 @inproceedings{daw2021pid,
   title={PID-GAN: A GAN Framework based on a Physics-informed Discriminator for Uncertainty Quantification with Physics},
   author={Daw, Arka and Maruf, M and Karpatne, Anuj},
   booktitle={Proceedings of the 27th ACM SIGKDD Conference on Knowledge Discovery \& Data Mining},
   pages={237--247},
-  year={2021}
-}
-
-@inproceedings{elhamod2021biology,
-  title={Biology-guided neural network for species classification},
-  author={Elhamod, M and Maruf, MA and Mandke, PK and Karpatne, A},
-  booktitle={INTEGRATIVE AND COMPARATIVE BIOLOGY},
-  volume={61},
-  pages={E228--E229},
-  year={2021},
-  organization={OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
-}
-
-@inproceedings{maruf2021biology,
-  title={Biology-guided neural network for fish trait discovery},
-  author={Maruf, MA and Elhamod, M and Mandke, PK and Karpatne, A},
-  booktitle={INTEGRATIVE AND COMPARATIVE BIOLOGY},
-  volume={61},
-  pages={E577--E578},
   year={2021},
-  organization={OXFORD UNIV PRESS INC JOURNALS DEPT, 2001 EVANS RD, CARY, NC 27513 USA}
+  abbr={KDD},
+  pdf={https://arxiv.org/abs/2106.02993},
+  preview={pidgan.png}
 }
-
-
-
 ## changed inbook to inproceedings
 
-
-
-
-
-@article{doi:10.1089/big.2020.0071,
-author = {Muralidhar, Nikhil and Bu, Jie and Cao, Ze and He, Long and Ramakrishnan, Naren and Tafti, Danesh and Karpatne, Anuj},
-title = {Physics-Guided Deep Learning for Drag Force Prediction in Dense Fluid-Particulate Systems},
-journal = {Big Data},
-volume = {8},
-number = {5},
-pages = {431-449},
-year = {2020},
-doi = {10.1089/big.2020.0071},
-note ={PMID: 33090021},
-URL = {https://doi.org/10.1089/big.2020.0071},
-eprint = {https://doi.org/10.1089/big.2020.0071},
-}
+##@article{doi:10.1089/big.2020.0071,
+##  author = {Muralidhar, Nikhil and Bu, Jie and Cao, Ze and He, Long and Ramakrishnan, Naren and Tafti, Danesh and Karpatne, Anuj},
+##  title = {Physics-Guided Deep Learning for Drag Force Prediction in Dense Fluid-Particulate Systems},
+##  journal = {Big Data},
+##  volume = {8},
+##  number = {5},
+##  pages = {431-449},
+##  year = {2020},
+##  doi = {10.1089/big.2020.0071},
+##  note ={PMID: 33090021},
+##  URL = {https://doi.org/10.1089/big.2020.0071},
+##  eprint = {https://doi.org/10.1089/big.2020.0071},
+##  abbr={Big Data},
+##  pdf={https://www.liebertpub.com/doi/full/10.1089/big.2020.0071},
+##  preview={phynet.png}
+##}
 
 @article{papakis2020gcnnmatch,
   title={Gcnnmatch: Graph convolutional neural networks for multi-object tracking via sinkhorn normalization},
   author={Papakis, Ioannis and Sarkar, Abhijit and Karpatne, Anuj},
   journal={arXiv preprint arXiv:2010.00067},
-  year={2020}
+  year={2020},
+  pdf={https://arxiv.org/abs/2010.00067},
+  abr={arXiv},
+  preview={gcnnmatch.png}
 }
 
-
-
-
-
-
-
-
 @article{muralidhar2019physics,
   title={Physics-guided design and learning of neural networks for predicting drag force on particle suspensions in moving fluids},
   author={Muralidhar, Nikhil and Bu, Jie and Cao, Ze and He, Long and Ramakrishnan, Naren and Tafti, Danesh and Karpatne, Anuj},
   journal={arXiv preprint arXiv:1911.04240},
-  year={2019}
+  year={2019},
+  pdf={https://arxiv.org/abs/1911.04240},
+  abr={SDM},
+  preview={phynet_color.png}
 }
 
 @inproceedings{daw2019physics,
   title={Physics-aware architecture of neural networks for uncertainty quantification: Application in lake temperature modeling},
   author={Daw, Arka and Karpatne, Anuj},
   year={2019},
-  organization={SIGKDD}
+  organization={SIGKDD},
+  pdf={https://arxiv.org/html/2310.05227v5},
+  abr={arXiv},
+  preview={physics_aware.png}
 }