A locally-built, LLM-digested index of recent arXiv papers in quant finance, geometry/topology, and statistical ML — keyword search served straight from SQLite on this machine.
A new model improves analysis of neural activity from calcium imaging.
New methods estimate brain connectivity from calcium imaging data with missing data.
A fundamental challenge in calcium imaging has been to infer the timing of action potentials from the measured noisy calcium fluorescence traces. We systematically evaluate a range of spike inference algorithms on a large benchmark dataset recorded from varying neural tissue (V1 and retina) using different calcium indi…
Calcium imaging permits optical measurement of neural activity. Since intracellular calcium concentration is an indirect measurement of neural activity, computational tools are necessary to infer the true underlying spiking activity from fluorescence measurements. Bayesian model inversion can be used to solve this prob…
In this work, we propose a simple yet effective solution to the problem of connectome inference in calcium imaging data. The proposed algorithm consists of two steps. First, processing the raw signals to detect neural peak activities. Second, inferring the degree of association between neurons from partial correlation …
Calcium imaging has revolutionized systems neuroscience, providing the ability to image large neural populations with single-cell resolution. The resulting datasets are quite large, which has presented a barrier to routine open sharing of this data, slowing progress in reproducible research. State of the art methods fo…
In this paper, we consider linear state-space models with compressible innovations and convergent transition matrices in order to model spatiotemporally sparse transient events. We perform parameter and state estimation using a dynamic compressed sensing framework and develop an efficient solution consisting of two nes…
The Importance Weighted Auto Encoder (IWAE) objective has been shown to improve the training of generative models over the standard Variational Auto Encoder (VAE) objective. Here, we derive importance weighted extensions to AVB and AAE. These latent variable models use implicitly defined inference networks whose approx…
We develop a stochastic whole-brain and body simulator of the nematode roundworm Caenorhabditis elegans (C. elegans) and show that it is sufficiently regularizing to allow imputation of latent membrane potentials from partial calcium fluorescence imaging observations. This is the first attempt we know of to "complete t…
Cardiovascular disease (CVD) is the global leading cause of death. A strong risk factor for CVD events is the amount of coronary artery calcium (CAC). To meet demands of the increasing interest in quantification of CAC, i.e. coronary calcium scoring, especially as an unrequested finding for screening and research, auto…
New method estimates neuronal connectivity from partially observed data.
BNNs enhance reservoir computing by acting as generalization filters.
A simple thresholding technique improves graph selection in neural connectivity studies.
Latent variable models have been widely applied for the analysis of time series resulting from experimental neuroscience techniques. In these datasets, observations are relatively smooth and possibly nonlinear. We present Variational Inference for Nonlinear Dynamics (VIND), a variational inference framework that is abl…
Estimates neural representation dimensionality from small sample sizes.
New method speeds up sparse Bayesian learning without covariance matrix.
Networks capture our intuition about relationships in the world. They describe the friendships between Facebook users, interactions in financial markets, and synapses connecting neurons in the brain. These networks are richly structured with cliques of friends, sectors of stocks, and a smorgasbord of cell types that go…
This paper presents a novel method for the reconstruction of a neural network connectivity using calcium fluorescence data. We introduce a fast unsupervised method to integrate different networks that reconstructs structural connectivity from neuron activity. Our method improves the state-of-the-art reconstruction meth…
Active learning method for neural population dynamics using optogenetics.
We introduce SIM-CE, an advanced, user-friendly modeling and simulation environment in Simulink for performing multi-scale behavioral analysis of the nervous system of Caenorhabditis elegans (C. elegans). SIM-CE contains an implementation of the mathematical models of C. elegans's neurons and synapses, in Simulink, whi…
Many real-world data sets, especially in biology, are produced by complex nonlinear dynamical systems. In this paper, we focus on brain calcium imaging (CaI) of different organisms (zebrafish and rat), aiming to build a model of joint activation dynamics in large neuronal populations, including the whole brain of zebra…
Transcriptomics response of SK-N-AS cells to methamidophos (an acetylcholine esterase inhibitor) exposure was measured at 10 time points between 0.5 and 48 h. The data was analyzed using a combination of traditional statistical methods and novel machine learning algorithms for detecting anomalous behavior and infer cau…
The region of heavy calcium isotopes forms the frontier of experimental and theoretical nuclear structure research where the basic concepts of nuclear physics are put to stringent test. The recent discovery of the extremely neutron-rich nuclei around Ca [Tarasov, 2018] and the experimental determination of masse…
New model uncovers non-Euclidean neural representations.
Deep learning extracts terrain texture covariates for geostatistical modeling.
CatSIM measures image similarity robustly to small changes.
Develops statistical guarantees for image-to-image regression models.
AugurOne trains single image generators without GANs using image warps.
Transmission imaging, as an important imaging technique widely used in astronomy, medical diagnosis, and biology science, has been shown in [49] quite different from reflection imaging used in our everyday life. Understanding the structures of images (the prior information) is important for designing, testing, and choo…
A new metric FRD improves comparing medical images.
This study investigates how much knowledge from natural images can be transferred to pathology images.
Generates high-resolution images from low-resolution inputs.
Computational ghost imaging is an imaging technique in which an object is imaged from light collected using a single-pixel detector with no spatial resolution. Recently, ghost cytometry has been proposed for a high-speed cell-classification method that involves ghost imaging and machine learning in flow cytometry. Ghos…
We study the theoretical properties of image denoising via total variation penalized least-squares. We define the total vatiation in terms of the two-dimensional total discrete derivative of the image and show that it gives rise to denoised images that are piecewise constant on rectangular sets. We prove that, if the t…
Content based image retrieval, a technique which uses visual contents of image to search images from large scale image databases according to users' interests. This paper provides a comprehensive survey on recent technology used in the area of content based face image retrieval. Nowadays digital devices and photo shari…
Latent feature models are attractive for image modeling, since images generally contain multiple objects. However, many latent feature models ignore that objects can appear at different locations or require pre-segmentation of images. While the transformed Indian buffet process (tIBP) provides a method for modeling tra…
The paper analyzes relationships between various image models for restoration.
StrokeCoder uses Transformers to generate images from single examples.
Improved self-supervised learning for document images.
This paper proposes synthetic augmentation for nuclei image segmentation in medical pathology.
Synthesizing images of the eye fundus is a challenging task that has been previously approached by formulating complex models of the anatomy of the eye. New images can then be generated by sampling a suitable parameter space. In this work, we propose a method that learns to synthesize eye fundus images directly from da…
OTRE uses OT to improve retinal images, outperforming existing methods.
Method screens similar capsule endoscopic images, reducing doctor workload and improving accuracy.
LcGAN generates synthetic CT images for hemorrhagic lesion segmentation.
SR-NAM maps low-res images to multiple high-res images realistically.
Image denoising is always a challenging task in the field of computer vision and image processing. In this paper, we have proposed an encoder-decoder model with direct attention, which is capable of denoising and reconstruct highly corrupted images. Our model consists of an encoder and a decoder, where the encoder is a…
Image captioning has demonstrated models that are capable of generating plausible text given input images or videos. Further, recent work in image generation has shown significant improvements in image quality when text is used as a prior. Our work ties these concepts together by creating an architecture that can enabl…
In "extreme" computational imaging that collects extremely undersampled or noisy measurements, obtaining an accurate image within a reasonable computing time is challenging. Incorporating image mapping convolutional neural networks (CNN) into iterative image recovery has great potential to resolve this issue. This pape…