IUCNN – Deep learning approaches to approximate species' extinction risk

IUCNN - deep learning approaches to approximate species' extinction risk

10.1101/2021.06.17.448832 ◽

2021 ◽

Author(s):

Alexander Zizka ◽

Tobias Andermann ◽

Daniele Silvestro

Keyword(s):

Neural Network ◽

Deep Learning ◽

Large Scale ◽

Extinction Risk ◽

Class Imbalance ◽

Network Models ◽

Training Data ◽

Assessment Process ◽

Learning Approaches ◽

Neural Network Models

Aim: The global Red List (RL) from the International Union for the Conservation of Nature is the most comprehensive global quantification of extinction risk, and widely used in applied conservation as well as in biogeographic and ecological research. Yet, due to the time-consuming assessment process, the RL is biased taxonomically and geographically, which limits its application on large scales, in particular for understudied areas such as the tropics, or understudied taxa, such as most plants and invertebrates. Here we present IUCNN, an R-package implementing deep learning models to predict species RL status from publicly available geographic occurrence records (and other traits if available). Innovation: We implement a user-friendly workflow to train and validate neural network models, and subsequently use them to predict species RL status. IUCNN contains functions to address specific issues related to the RL framework, including a regression-based approach to account for the ordinal nature of RL categories and class imbalance in the training data, a Bayesian approach for improved uncertainty quantification, and a target accuracy threshold approach that limits predictions to only those species whose RL status can be predicted with high confidence. Most analyses can be run with few lines of code, without prior knowledge of neural network models. We demonstrate the use of IUCNN on an empirical dataset of ~14,000 orchid species, for which IUCNN models can predict extinction risk within minutes, while outperforming comparable methods. Main conclusions: IUCNN harnesses innovative methodology to estimate the RL status of large numbers of species. By providing estimates of the number and identity of threatened species in custom geographic or taxonomic datasets, IUCNN enables large-scale analyses on the extinction risk of species so far not well represented on the official RL.

Deep Learning Approaches for Whiteboard Image Quality Enhancement

Color and Imaging Conference ◽

10.2352/j.imagingsci.technol.2019.63.4.040404 ◽

2019 ◽

Vol 2019 (1) ◽

pp. 360-368

Author(s):

Mekides Assefa Abebe ◽

Jon Yngve Hardeberg

Keyword(s):

Deep Learning ◽

Image Quality ◽

Image Data ◽

Quality Enhancement ◽

Network Architectures ◽

Learning Approaches ◽

Data Set ◽

Image Quality Enhancement ◽

Processing Techniques ◽

White Balancing

Different whiteboard image degradations highly reduce the legibility of pen-stroke content as well as the overall quality of the images. Consequently, different researchers addressed the problem through different image enhancement techniques. Most of the state-of-the-art approaches applied common image processing techniques such as background foreground segmentation, text extraction, contrast and color enhancements and white balancing. However, such types of conventional enhancement methods are incapable of recovering severely degraded pen-stroke contents and produce artifacts in the presence of complex pen-stroke illustrations. In order to surmount such problems, the authors have proposed a deep learning based solution. They have contributed a new whiteboard image data set and adopted two deep convolutional neural network architectures for whiteboard image quality enhancement applications. Their different evaluations of the trained models demonstrated their superior performances over the conventional methods.

Assessment of the Risk Factors of MDD Recurrence Based on Deep Learning Approaches

SSRN Electronic Journal ◽

10.2139/ssrn.3411719 ◽

2019 ◽

Author(s):

Qian Wu ◽

Weiling Zhao ◽

Xiaobo Yang ◽

Hua Tan ◽

Lei You ◽

...

Keyword(s):

Risk Factors ◽

Deep Learning ◽

Learning Approaches

The Problem of Fraudulent Content on the Web: Deep Learning Approaches

SSRN Electronic Journal ◽

10.2139/ssrn.3575411 ◽

2020 ◽

Author(s):

Priyanka Meel ◽

Farhin Bano ◽

Dr. Dinesh K. Vishwakarma

Keyword(s):

Deep Learning ◽

Learning Approaches ◽

The Web

Deep convolutional neural networks for cardiovascular vulnerable plaque detection

MATEC Web of Conferences ◽

10.1051/matecconf/201927702024 ◽

2019 ◽

Vol 277 ◽

pp. 02024 ◽

Cited By ~ 1

Author(s):

Lincan Li ◽

Tong Jia ◽

Tianqi Meng ◽

Yizhe Liu

Keyword(s):

Neural Networks ◽

Deep Learning ◽

Convolutional Neural Networks ◽

Vulnerable Plaque ◽

Recall Rate ◽

Superior Performance ◽

Learning Approaches ◽

Deep Convolutional Neural Networks ◽

Vulnerable Plaques ◽

Plaque Detection

In this paper, an accurate two-stage deep learning method is proposed to detect vulnerable plaques in ultrasonic images of cardiovascular. Firstly, a Fully Convonutional Neural Network (FCN) named U-Net is used to segment the original Intravascular Optical Coherence Tomography (IVOCT) cardiovascular images. We experiment on different threshold values to find the best threshold for removing noise and background in the original images. Secondly, a modified Faster RCNN is adopted to do precise detection. The modified Faster R-CNN utilize six-scale anchors (122,162,322,642,1282,2562) instead of the conventional one scale or three scale approaches. First, we present three problems in cardiovascular vulnerable plaque diagnosis, then we demonstrate how our method solve these problems. The proposed method in this paper apply deep convolutional neural networks to the whole diagnostic procedure. Test results show the Recall rate, Precision rate, IoU (Intersection-over-Union) rate and Total score are 0.94, 0.885, 0.913 and 0.913 respectively, higher than the 1st team of CCCV2017 Cardiovascular OCT Vulnerable Plaque Detection Challenge. AP of the designed Faster RCNN is 83.4%, higher than conventional approaches which use one-scale or three-scale anchors. These results demonstrate the superior performance of our proposed method and the power of deep learning approaches in diagnose cardiovascular vulnerable plaques.

Deep learning systems detect dysplasia with human-like accuracy using histopathology and probe-based confocal laser endomicroscopy

Scientific Reports ◽

10.1038/s41598-021-84510-4 ◽

2021 ◽

Vol 11 (1) ◽

Author(s):

Shan Guleria ◽

Tilak U. Shah ◽

J. Vincent Pulido ◽

Matthew Fasullo ◽

Lubaina Ehsan ◽

...

Keyword(s):

Deep Learning ◽

Diagnostic Accuracy ◽

High Sensitivity ◽

Confocal Laser Endomicroscopy ◽

Confocal Laser ◽

Learning Approaches ◽

Learning Models ◽

Whole Slide Image ◽

Slide Image ◽

Level Model

AbstractProbe-based confocal laser endomicroscopy (pCLE) allows for real-time diagnosis of dysplasia and cancer in Barrett’s esophagus (BE) but is limited by low sensitivity. Even the gold standard of histopathology is hindered by poor agreement between pathologists. We deployed deep-learning-based image and video analysis in order to improve diagnostic accuracy of pCLE videos and biopsy images. Blinded experts categorized biopsies and pCLE videos as squamous, non-dysplastic BE, or dysplasia/cancer, and deep learning models were trained to classify the data into these three categories. Biopsy classification was conducted using two distinct approaches—a patch-level model and a whole-slide-image-level model. Gradient-weighted class activation maps (Grad-CAMs) were extracted from pCLE and biopsy models in order to determine tissue structures deemed relevant by the models. 1970 pCLE videos, 897,931 biopsy patches, and 387 whole-slide images were used to train, test, and validate the models. In pCLE analysis, models achieved a high sensitivity for dysplasia (71%) and an overall accuracy of 90% for all classes. For biopsies at the patch level, the model achieved a sensitivity of 72% for dysplasia and an overall accuracy of 90%. The whole-slide-image-level model achieved a sensitivity of 90% for dysplasia and 94% overall accuracy. Grad-CAMs for all models showed activation in medically relevant tissue regions. Our deep learning models achieved high diagnostic accuracy for both pCLE-based and histopathologic diagnosis of esophageal dysplasia and its precursors, similar to human accuracy in prior studies. These machine learning approaches may improve accuracy and efficiency of current screening protocols.

Two deep learning approaches to forecasting disaggregated freight flows: convolutional and encoder–decoder recurrent

Soft Computing ◽

10.1007/s00500-021-05678-5 ◽

2021 ◽

Author(s):

Isidro Lloret ◽

José A. Troyano ◽

Fernando Enríquez ◽

Juan-José González-de-la-Rosa

Keyword(s):

Deep Learning ◽

Learning Approaches

Deep Learning with Neuroimaging and Genomics in Alzheimer’s Disease

International Journal of Molecular Sciences ◽

10.3390/ijms22157911 ◽

2021 ◽

Vol 22 (15) ◽

pp. 7911

Author(s):

Eugene Lin ◽

Chieh-Hsin Lin ◽

Hsien-Yuan Lane

Keyword(s):

Alzheimer’S Disease ◽

Alzheimer's Disease ◽

Deep Learning ◽

Future Research ◽

Learning Approaches ◽

Learning Models ◽

Learning Techniques ◽

Neuroimaging Data ◽

Similarities And Differences ◽

Normal Controls

A growing body of evidence currently proposes that deep learning approaches can serve as an essential cornerstone for the diagnosis and prediction of Alzheimer’s disease (AD). In light of the latest advancements in neuroimaging and genomics, numerous deep learning models are being exploited to distinguish AD from normal controls and/or to distinguish AD from mild cognitive impairment in recent research studies. In this review, we focus on the latest developments for AD prediction using deep learning techniques in cooperation with the principles of neuroimaging and genomics. First, we narrate various investigations that make use of deep learning algorithms to establish AD prediction using genomics or neuroimaging data. Particularly, we delineate relevant integrative neuroimaging genomics investigations that leverage deep learning methods to forecast AD on the basis of incorporating both neuroimaging and genomics data. Moreover, we outline the limitations as regards to the recent AD investigations of deep learning with neuroimaging and genomics. Finally, we depict a discussion of challenges and directions for future research. The main novelty of this work is that we summarize the major points of these investigations and scrutinize the similarities and differences among these investigations.

Deep Learning-Based Approaches to Optimize the Electricity Contract Capacity Problem for Commercial Customers

Energies ◽

10.3390/en14082181 ◽

2021 ◽

Vol 14 (8) ◽

pp. 2181

Author(s):

Rafik Nafkha ◽

Tomasz Ząbkowski ◽

Krzysztof Gajowniczek

Keyword(s):

Deep Learning ◽

Power Grid ◽

Hybrid Approach ◽

Electricity Consumption ◽

Maximum Power ◽

Learning Approaches ◽

Two Stage ◽

Load Optimization ◽

Optimal Capacity ◽

Maximal Load

The electricity tariffs available to customers in Poland depend on the connection voltage level and contracted capacity, which reflect the customer demand profile. Therefore, before connecting to the power grid, each consumer declares the demand for maximum power. This amount, referred to as the contracted capacity, is used by the electricity provider to assign the proper connection type to the power grid, including the size of the security breaker. Maximum power is also the basis for calculating fixed charges for electricity consumption, which is controlled and metered through peak meters. If the peak demand exceeds the contracted capacity, a penalty charge is applied to the exceeded amount, which is up to ten times the basic rate. In this article, we present several solutions for entrepreneurs based on the implementation of two-stage and deep learning approaches to predict maximal load values and the moments of exceeding the contracted capacity in the short term, i.e., up to one month ahead. The forecast is further used to optimize the capacity volume to be contracted in the following month to minimize network charge for exceeding the contracted level. As confirmed experimentally with two datasets, the application of a multiple output forecast artificial neural network model and a genetic algorithm (two-stage approach) for load optimization delivers significant benefits to customers. As an alternative, the same benefit is delivered with a deep learning architecture (hybrid approach) to predict the maximal capacity demands and, simultaneously, to determine the optimal capacity contract.

Generation of Cross-Lingual Word Vectors for Low-Resourced Languages Using Deep Learning and Topological Metrics in a Data-Efficient Way

Electronics ◽

10.3390/electronics10121372 ◽

2021 ◽

Vol 10 (12) ◽

pp. 1372

Author(s):

Sanjanasri JP ◽

Vijay Krishna Menon ◽

Soman KP ◽

Rajendran S ◽

Agnieszka Wolk

Keyword(s):

Deep Learning ◽

Language Processing ◽

Semantic Space ◽

Semantic Interpretation ◽

Learning Approaches ◽

Qualitative Comparison ◽

Bilingual Dictionary ◽

Pos Tagging ◽

Part Of Speech ◽

Cross Lingual

Linguists have been focused on a qualitative comparison of the semantics from different languages. Evaluation of the semantic interpretation among disparate language pairs like English and Tamil is an even more formidable task than for Slavic languages. The concept of word embedding in Natural Language Processing (NLP) has enabled a felicitous opportunity to quantify linguistic semantics. Multi-lingual tasks can be performed by projecting the word embeddings of one language onto the semantic space of the other. This research presents a suite of data-efficient deep learning approaches to deduce the transfer function from the embedding space of English to that of Tamil, deploying three popular embedding algorithms: Word2Vec, GloVe and FastText. A novel evaluation paradigm was devised for the generation of embeddings to assess their effectiveness, using the original embeddings as ground truths. Transferability across other target languages of the proposed model was assessed via pre-trained Word2Vec embeddings from Hindi and Chinese languages. We empirically prove that with a bilingual dictionary of a thousand words and a corresponding small monolingual target (Tamil) corpus, useful embeddings can be generated by transfer learning from a well-trained source (English) embedding. Furthermore, we demonstrate the usability of generated target embeddings in a few NLP use-case tasks, such as text summarization, part-of-speech (POS) tagging, and bilingual dictionary induction (BDI), bearing in mind that those are not the only possible applications.