Understanding Episode Hardness in Few-Shot Learning.

Achieving generalization for deep learning models has usually suffered from the bottleneck of annotated sample scarcity. As a common way of tackling this issue, few-shot learning focuses on "episodes", i.e.

Health Care Provider Clustering Using Fusion Penalty in Quasi-Likelihood.

There has been growing research interest in developing methodology to evaluate the health care providers' performance with respect to a patient outcome. Random and fixed effects models are traditionally used for such a purpose. We propose a new method, using a fusion penalty to cluster health care providers based on quasi-likelihood.

3D Reconstruction From a Single Sketch via View-Dependent Depth Sampling.

Reconstructing a 3D shape based on a single sketch image is challenging due to the inherent sparsity and ambiguity present in sketches. Existing methods lose fine details when extracting features to predict 3D objects from sketches. Upon analyzing the 3D-to-2D projection process, we observe that the density map, characterizing the distribution of 2D point clouds, can serve as a proxy to facilitate the reconstruction process.

A single-cell atlas characterizes dysregulation of the bone marrow immune microenvironment associated with outcomes in multiple myeloma.

Multiple Myeloma (MM) remains incurable despite advances in treatment options. Although tumor subtypes and specific DNA abnormalities are linked to worse prognosis, the impact of immune dysfunction on disease emergence and/or treatment sensitivity remains unclear. We established a harmonized consortium to generate an Immune Atlas of MM aimed at informing disease etiology, risk stratification, and potential therapeutic strategies.

Bi-Directional Ensemble Feature Reconstruction Network for Few-Shot Fine-Grained Classification.

The main challenge for fine-grained few-shot image classification is to learn feature representations with higher inter-class and lower intra-class variations, with a mere few labelled samples. Conventional few-shot learning methods however cannot be naively adopted for this fine-grained setting - a quick pilot study reveals that they in fact push for the opposite (i.e.

CreativeSeg: Semantic Segmentation of Creative Sketches.

The problem of sketch semantic segmentation is far from being solved. Despite existing methods exhibiting near-saturating performances on simple sketches with high recognisability, they suffer serious setbacks when the target sketches are products of an imaginative process with high degree of creativity. We hypothesise that human creativity, being highly individualistic, induces a significant shift in distribution of sketches, leading to poor model generalisation.

Epigenetic regulation during cancer transitions across 11 tumour types.

Chromatin accessibility is essential in regulating gene expression and cellular identity, and alterations in accessibility have been implicated in driving cancer initiation, progression and metastasis. Although the genetic contributions to oncogenic transitions have been investigated, epigenetic drivers remain less understood. Here we constructed a pan-cancer epigenetic and transcriptomic atlas using single-nucleus chromatin accessibility data (using single-nucleus assay for transposase-accessible chromatin) from 225 samples and matched single-cell or single-nucleus RNA-sequencing expression data from 206 samples.

Semi-Supervised Learning for FGVC With Out-of-Category Data.

Despite great strides made on fine-grained visual classification (FGVC), current methods are still heavily reliant on fully-supervised paradigms where ample expert labels are called for. Semi-supervised learning (SSL) techniques, acquiring knowledge from unlabeled data, provide a considerable means forward and have shown great promise for coarse-grained problems. However, exiting SSL paradigms mostly assume in-category (i.

A flexible quasi-likelihood model for microbiome abundance count data.

In this article, we present a flexible model for microbiome count data. We consider a quasi-likelihood framework, in which we do not make any assumptions on the distribution of the microbiome count except that its variance is an unknown but smooth function of the mean. By comparing our model to the negative binomial generalized linear model (GLM) and Poisson GLM in simulation studies, we show that our flexible quasi-likelihood method yields valid inferential results.

Integrative multi-omic cancer profiling reveals DNA methylation patterns associated with therapeutic vulnerability and cell-of-origin.

DNA methylation plays a critical role in establishing and maintaining cellular identity. However, it is frequently dysregulated during tumor development and is closely intertwined with other genetic alterations. Here, we leveraged multi-omic profiling of 687 tumors and matched non-involved adjacent tissues from the kidney, brain, pancreas, lung, head and neck, and endometrium to identify aberrant methylation associated with RNA and protein abundance changes and build a Pan-Cancer catalog.

Pan-cancer proteogenomics connects oncogenic drivers to functional states.

Cancer driver events refer to key genetic aberrations that drive oncogenesis; however, their exact molecular mechanisms remain insufficiently understood. Here, our multi-omics pan-cancer analysis uncovers insights into the impacts of cancer drivers by identifying their significant cis-effects and distal trans-effects quantified at the RNA, protein, and phosphoprotein levels. Salient observations include the association of point mutations and copy-number alterations with the rewiring of protein interaction networks, and notably, most cancer genes converge toward similar molecular states denoted by sequence-based kinase activity profiles.

Sketch-Segformer: Transformer-Based Segmentation for Figurative and Creative Sketches.

Sketch is a well-researched topic in the vision community by now. Sketch semantic segmentation in particular, serves as a fundamental step towards finer-level sketch interpretation. Recent works use various means of extracting discriminative features from sketches and have achieved considerable improvements on segmentation accuracy.

Uncertainty-Aware Source-Free Domain Adaptive Semantic Segmentation.

Source-Free Domain Adaptation (SFDA) is becoming topical to address the challenge of distribution shift between training and deployment data, while also relaxing the requirement of source data availability during target domain adaptation. In this paper, we focus on SFDA for semantic segmentation, in which pseudo labeling based target domain self-training is a common solution. However, pseudo labels generated by the source models are particularly unreliable on the target domain data due to the domain shift issue.

Clinical evidence for a role of E2F1-induced replication stress in modulating tumor mutational burden and immune microenvironment.

DNA replication stress (RS) is frequently induced by oncogene activation and is believed to promote tumorigenesis. However, clinical evidence for the role of oncogene-induced RS in tumorigenesis remains scarce, and the mechanisms by which RS promotes cancer development remain incompletely understood. By performing a series of bioinformatic analyses on the oncogene E2F1, other RS-inducing factors, and replication fork processing factors in TCGA cancer database using previously established tools, we show that hyperactivity of E2F1 likely promotes the expression of several of these factors in virtually all types of cancer to induce RS and cytosolic self-DNA production.

Prediction Calibration for Generalized Few-Shot Semantic Segmentation.

Generalized Few-shot Semantic Segmentation (GFSS) aims to segment each image pixel into either base classes with abundant training examples or novel classes with only a handful of (e. g., 1-5) training images per class.

Biologic targets of prescription medications and risk of neurodegenerative disease in United States Medicare beneficiaries.

Objective: To identify prescription medications associated with a lower risk of three neurodegenerative diseases: Parkinson disease, Alzheimer disease, and amyotrophic lateral sclerosis.

Methods: We conducted a population-based, case-control study of U.S.

Making a Bird AI Expert Work for You and Me.

As powerful as fine-grained visual classification (FGVC) is, responding your query with a bird name of "Whip-poor-will" or "Mallard" probably does not make much sense. This however commonly accepted in the literature, underlines a fundamental question interfacing AI and human - what constitutes transferable knowledge for human to learn from AI? This paper sets out to answer this very question using FGVC as a test bed. Specifically, we envisage a scenario where a trained FGVC model (the AI expert) functions as a knowledge provider in enabling average people (you and me) to become better domain experts ourselves.

Single-Cell Discovery and Multiomic Characterization of Therapeutic Targets in Multiple Myeloma.

Unlabelled: Multiple myeloma (MM) is a highly refractory hematologic cancer. Targeted immunotherapy has shown promise in MM but remains hindered by the challenge of identifying specific yet broadly representative tumor markers. We analyzed 53 bone marrow (BM) aspirates from 41 MM patients using an unbiased, high-throughput pipeline for therapeutic target discovery via single-cell transcriptomic profiling, yielding 38 MM marker genes encoding cell-surface proteins and 15 encoding intracellular proteins.

Protective Effects of Lovastatin in a Population-Based ALS Study and Mouse Model.

Objective: The objective of this study was to use a novel combined pharmacoepidemiologic and amyotrophic lateral sclerosis (ALS) mouse model approach to identify potential motor neuron protective medications.

Methods: We constructed a large, population-based case-control study to investigate motor neuron disease (MND) among US Medicare beneficiaries aged 66 to 90 in 2009. We included 1,128 incident MND cases and 56,400 age, sex, race, and ethnicity matched controls.

Dynamic Instance Domain Adaptation.

Most existing studies on unsupervised domain adaptation (UDA) assume that each domain's training samples come with domain labels (e.g., painting, photo).

One Sketch for All: One-Shot Personalized Sketch Segmentation.

We present the first one-shot personalized sketch segmentation method. We aim to segment all sketches belonging to the same category provisioned with a single sketch with a given part annotation while (i) preserving the parts semantics embedded in the exemplar, and (ii) being robust to input style and abstraction. We refer to this scenario as personalized.

Deep Learning for Free-Hand Sketch: A Survey.

Free-hand sketches are highly illustrative, and have been widely used by humans to depict objects or stories from ancient times to the present. The recent prevalence of touchscreen devices has made sketch creation a much easier task than ever and consequently made sketch-oriented applications increasingly popular. The progress of deep learning has immensely benefited free-hand sketch research and applications.

Exploring Local Detail Perception for Scene Sketch Semantic Segmentation.

In this paper, we aim to explore the fine-grained perception ability of deep models for the newly proposed scene sketch semantic segmentation task. Scene sketches are abstract drawings containing multiple related objects. It plays a vital role in daily communication and human-computer interaction.