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Data embedding and prediction by sparse tropical matrix factorization [article]

Amra Omanović, Hilal Kazan, Polona Oblak, Tomaž Curk
2020 arXiv   pre-print
We propose a method called Sparse Tropical Matrix Factorization (STMF) for the estimation of missing (unknown) values.  ...  While NMF assumes normal distribution and tends toward the mean value, STMF can better fit to extreme values and distributions. STMF is the first work that uses tropical semiring on sparse data.  ...  The results published here are in whole or part based upon data generated by the TCGA Research Network: https: //www.cancer.gov/tcga.  ... 
arXiv:2012.05210v1 fatcat:wjno26fg3zbodh2b2vnlqqyyxm

Sparse data embedding and prediction by tropical matrix factorization

Amra Omanović, Hilal Kazan, Polona Oblak, Tomaž Curk
2021 BMC Bioinformatics  
We propose a method called Sparse Tropical Matrix Factorization () for the estimation of missing (unknown) values in sparse data.  ...  Conclusion is the first work that uses tropical semiring on sparse data.  ...  The results published here are in whole or part based upon data generated by the TCGA Research Network: https :// www.cance r.gov/tcga.  ... 
doi:10.1186/s12859-021-04023-9 pmid:33632116 fatcat:abu4ywnzgzalnoidxpg7g5i75i

MODELLING ABOVE GROUND BIOMASS OF MANGROVE FOREST USING SENTINEL-1 IMAGERY

Reginald Jay Labadisos Argamosa, Ariel Conferido Blanco, Alvin Balidoy Baloloy, Christian Gumbao Candido, John Bart Lovern Caboboy Dumalag, Lady Lee Carandang Dimapilis, Enrico Camero Paringit
2018 ISPRS Annals of the Photogrammetry, Remote Sensing and Spatial Information Sciences  
;minus;c; and e) the identified important features by Random Forest variable importance algorithm.  ...  Combinations of polarisations (VV, VH), its derivatives, grey level co-occurrence matrix (GLCM), and its principal components were used as features for modelling AGB.  ...  ACKNOWLEDGEMENTS This research is funded by the DOST Philippine Council for Industry, Energy and Emerging Technology Research and Development (PCIEERD) under the Integrated Assessment and Modelling of  ... 
doi:10.5194/isprs-annals-iv-3-13-2018 fatcat:nobrhmnpfbhstbrjziin27ck4u

Secondary forest regeneration benefits old-growth specialist bats in a fragmented tropical landscape

Ricardo Rocha, Otso Ovaskainen, Adrià López-Baucells, Fábio Z. Farneda, Erica M. Sampaio, Paulo E. D. Bobrowiec, Mar Cabeza, Jorge M. Palmeirim, Christoph F. J. Meyer
2018 Scientific Reports  
Tropical forest loss and fragmentation are due to increase in coming decades.  ...  Here, we use a whole-ecosystem fragmentation experiment to investigate how bat assemblages are influenced by the regeneration of the secondary forest matrix.  ...  Funding was provided by the Portuguese Foundation for Science and Technology to C.  ... 
doi:10.1038/s41598-018-21999-2 pmid:29491428 pmcid:PMC5830632 fatcat:ripmarqj6rex7kqy5hfsunprfm

Disentangling historical signal and pollinator selection on the micromorphology of flowers: an example from the floral epidermis of the Nymphaeaceae

M. Coiro, M. R. Barone Lumaga, Z.-X. Ren
2018 Plant Biology  
Literature cited . (2007) Control of cell and petal morphogenesis by R2R3 MYB transcription factors. Development , 134, 1691-701.  ...  The genus Victoria, as well as subgenera Lotos and Hydrocallis in Nymphaea, presents night-blooming, scented flowers pollinated by scarab beetles.  ...  Imaging was performed with equipment maintained by the Center for Microscopy and Image Analysis, University of Zurich.  ... 
doi:10.1111/plb.12850 pmid:29869401 fatcat:ahnvhwgzvbbddjbtus3icmg3u4

Kernel Analog Forecasting of Tropical Intraseasonal Oscillations

Romeo Alexander, Zhizhen Zhao, Eniko Székely, Dimitrios Giannakis
2017 Journal of the Atmospheric Sciences  
The pattern correlation of the forecasts produced in this manner remains above 0.6 for 50 days for both the MJO and BSISO when 23 yr of training data are used and 37 days for the MJO when 9 yr of data  ...  data with a recently developed nonparametric empirical method.  ...  Székely, and Z. Zhao acknowledge support from ONR Grant N00014-14-0150 and ONR MURI Grant 25-74200-F7112. D. Giannakis and Z. Zhao also acknowledge support from NSF Grant DMS-1521775.  ... 
doi:10.1175/jas-d-16-0147.1 fatcat:rou7ymqqqrgkvdivv6rgm2xqgi

Implicitization of curves and (hyper)surfaces using predicted support

Ioannis Z. Emiris, Tatjana Kalinka, Christos Konaxis, Thang Luu Ba
2013 Theoretical Computer Science  
For predicting the implicit support, we focus on methods that exploit input and output structure in the sense of sparse (or toric) elimination theory, namely by computing the Newton polytope of the implicit  ...  polynomial, via sparse resultant theory.  ...  For the sparse interpolation of resultants, the quasi-Toeplitz structure of the matrix allows us to reduce complexity by one order of magnitude, when ignoring polylogarithmic factors, and arrive at a quadratic  ... 
doi:10.1016/j.tcs.2012.10.018 fatcat:6cvjbbpenne7xd7r3j3gho4bwy

Lumefantrine and Desbutyl-Lumefantrine Population Pharmacokinetic-Pharmacodynamic Relationships in Pregnant Women with Uncomplicated Plasmodium falciparum Malaria on the Thailand-Myanmar Border

Frank Kloprogge, Rose McGready, Warunee Hanpithakpong, Daniel Blessborn, Nicholas P. J. Day, Nicholas J. White, François Nosten, Joel Tarning
2015 Antimicrobial Agents and Chemotherapy  
Lumefantrine and desbutyl-lumefantrine concentrations, implemented in anEmaxmodel, both predicted treatment outcomes, but lumefantrine provided better predictive power.  ...  A simultaneous pharmacokinetic drug-metabolite model was developed based on dense venous and sparse capillary lumefantrine and desbutyl-lumefantrine plasma samples from 116 pregnant patients on the Thailand-Myanmar  ...  The study was supported by UNDP/World Bank/WHO Special Programme for Research and Training in Tropical Diseases (TDR).  ... 
doi:10.1128/aac.00267-15 pmid:26239986 pmcid:PMC4576090 fatcat:bqk7ljxbonbn3g6em55vz656em

Challenges in Estimating Tropical Forest Canopy Height from Planet Dove Imagery

Ovidiu Csillik, Pramukta Kumar, Gregory P. Asner
2020 Remote Sensing  
Monitoring tropical forests using spaceborne and airborne remote sensing capabilities is important for informing environmental policies and conservation actions.  ...  satellite imagery at 1 ha spatial resolution by building a model that associates Planet Dove textural features with airborne light detection and ranging (LiDAR) measurements of TCH.  ...  This represents a helpful advancement towards better monitoring of tropical forests, which can be further used for informing environmental policies and conservation actions.  ... 
doi:10.3390/rs12071160 fatcat:pnplco5f4za6zkyusboq5hnmfe

Topic Detection and Tracking with Time-Aware Document Embeddings [article]

Hang Jiang, Doug Beeferman, Weiquan Mao, Deb Roy
2021 arXiv   pre-print
In the retrospective setting, we apply clustering algorithms to the time-aware embeddings and show substantial improvements over baselines on the News2013 data set.  ...  We fine-tune these time-aware document embeddings with a triplet loss architecture, integrate the model into downstream TDT systems, and evaluate the systems on two benchmark TDT data sets in English.  ...  We find that sinusoidal positional embedding outperforms two alternatives, learned positional embedding and Date2Vec, to encode timestamps for TDT. • We analyze the event predictions of our model and base-line  ... 
arXiv:2112.06166v1 fatcat:daxoxqny2fgulo7sxvhvmjlxxe

Regional influences on community structure across the tropical-temperate divide

Alexander E. White, Kushal K. Dey, Dhananjai Mohan, Matthew Stephens, Trevor D. Price
2019 Nature Communications  
Across the steepest tropical-temperate gradient in the world, that of the Himalaya, bird communities below and above the freezing line are largely populated by different tropical and temperate biotas with  ...  We develop methods to assess the extent to which biotas are geographically discrete, and find that transition zones between regions occupied by tropical-associated or temperate-associated biotas are often  ...  Acknowledgements We thank the Chief Wildlife Wardens of the six Indian Himalayan states for permission to collect the data; VB Mathur and Pratap Singh for their continuing support; and I.  ... 
doi:10.1038/s41467-019-10253-6 pmid:31201312 pmcid:PMC6570764 fatcat:pdosbmc57vbbjjujj4l3oqm3la

A Hierarchical Spatio-Temporal Analog Forecasting Model for Count Data [article]

Patrick L. McDermott, Christopher K. Wikle, Joshua Millspaugh
2017 arXiv   pre-print
The model presented here extends the model-based analog method of McDermott and Wikle (2016) by placing analog forecasting within a fully hierarchical statistical frame- work.  ...  Forecasting waterfowl settling patterns in the northwestern United States and Canada is conducted by applying the hierarchical analog model to a breeding population survey dataset.  ...  Acknowledgments This work was supported by the School of Natural Resources at the University of Missouri, the Missouri Department of Conservation, and was partially supported by the U.S.  ... 
arXiv:1701.04485v1 fatcat:qixqeyxydne4vmqniv4vrpg7le

Graph-guided regularized regression of Pacific Ocean climate variables to increase predictive skill of southwestern US winter precipitation

Abby Stevens, Rebecca Willett, Antonios Mamalakis, Efi Foufoula-Georgiou, Alejandro Tejedor, James T. Randerson, Padhraic Smyth, Stephen Wright
2020 Journal of Climate  
approaches and statistical models informed by known teleconnections.  ...  Recently, promising data-driven approaches have been proposed, but they often suffer from over-parameterization and overfitting due to the short observational record, and they often do not account for  ...  Support for this research was provided by the National Science Foundation (NSF) under a TRIPODS1CLIMATE Grant (DMS-1839336), an NRT Grant (DGE-1633631), and an EAGER Grant (ECCS-1839441), as well as by  ... 
doi:10.1175/jcli-d-20-0079.1 pmid:34045793 pmcid:PMC8152100 fatcat:adad34rrrvgvncnnmreiowege4

Landscape matrix and species traits mediate responses of Neotropical resident birds to forest fragmentation in Jamaica

Christina M. Kennedy, Peter P. Marra, William F. Fagan, Maile C. Neel
2010 Ecological Monographs  
Abundance of almost 70% of species differed in forest embedded in the different landscape matrix types.  ...  Insectivores, frugivores, canopy nesters, understory and canopy foragers, and forest-restricted species rarely observed in matrix habitats had lower abundances in forest fragments embedded in human-dominated  ...  for sparse cell counts (Sokal and Rohlf 1995) .  ... 
doi:10.1890/09-0904.1 fatcat:l22fma5ggffn7naqilh6dlkbym

LANDSCAPE MATRIX AND SPECIES TRAITS MEDIATE RESPONSES OF NEOTROPICAL RESIDENT BIRDS TO FOREST FRAGMENTATION IN JAMAICA

Christina Kennedy, Peter Marra, William Fagan, Maile Neel
2010 Ecological Monographs  
Abundance of almost 70% of species differed in forest embedded in the different landscape matrix types.  ...  Insectivores, frugivores, canopy nesters, understory and canopy foragers, and forest-restricted species rarely observed in matrix habitats had lower abundances in forest fragments embedded in human-dominated  ...  for sparse cell counts (Sokal and Rohlf 1995) .  ... 
doi:10.1890/09-0904 fatcat:yqbbgzc7h5f77fjtbhnu3ynbh4
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