DePS: An improved deep learning model for de novo peptide sequencing

De novo peptide sequencing from mass spectrometry data is an important method for protein identification. Recently, various deep learning approaches were applied for de novo peptide sequencing and DeepNovoV2 is one of the represetative models. In this study, we proposed an enhanced model, DePS, which can improve the accuracy of de novo peptide sequencing even with missing signal peaks or large number of noisy peaks in tandem mass spectrometry data. It is showed that, for the same test set of DeepNovoV2, the DePS model achieved excellent results of 74.22%, 74.21% and 41.68% for amino acid recall, amino acid precision and peptide recall respectively. Furthermore, the results suggested that DePS outperforms DeepNovoV2 on the cross species dataset.

Active Learning Over Multiple Domains in Natural Language Tasks

Studies of active learning traditionally assume the target and source data stem from a single domain. However, in realistic applications, practitioners often require active learning with multiple sources of out-of-distribution data, where it is unclear a priori which data sources will help or hurt the target domain. We survey a wide variety of techniques in active learning (AL), domain shift detection (DS), and multi-domain sampling to examine this challenging setting for question answering and sentiment analysis. We ask (1) what family of methods are effective for this task? And, (2) what properties of selected examples and domains achieve strong results? Among 18 acquisition functions from 4 families of methods, we find H-Divergence methods, and particularly our proposed variant DAL-E, yield effective results, averaging 2-3% improvements over the random baseline. We also show the importance of a diverse allocation of domains, as well as room-for-improvement of existing methods on both domain and example selection. Our findings yield the first comprehensive analysis of both existing and novel methods for practitioners faced with multi-domain active learning for natural language tasks.

One More Check: Making "Fake Background" Be Tracked Again

The one-shot multi-object tracking, which integrates object detection and ID embedding extraction into a unified network, has achieved groundbreaking results in recent years. However, current one-shot trackers solely rely on single-frame detections to predict candidate bounding boxes, which may be unreliable when facing disastrous visual degradation, e.g., motion blur, occlusions. Once a target bounding box is mistakenly classified as background by the detector, the temporal consistency of its corresponding tracklet will be no longer maintained, as shown in Fig. 1. In this paper, we set out to restore the misclassified bounding boxes, i.e., fake background, by proposing a re-check network. The re-check network propagates previous tracklets to the current frame by exploring the relation between cross-frame temporal cues and current candidates using the modified cross-correlation layer. The propagation results help to reload the "fake background" and eventually repair the broken tracklets. By inserting the re-check network to a strong baseline tracker CSTrack (a variant of JDE), our model achieves favorable gains by $70.7 \rightarrow 76.7$, $70.6 \rightarrow 76.3$ MOTA on MOT16 and MOT17, respectively. Code is publicly available at https://github.com/JudasDie/SOTS.

Joint Positioning and Tracking via NR Sidelink in 5G-Empowered Industrial IoT

The fifth generation (5G) mobile networks with enhanced connectivity and positioning capabilities play an increasingly important role in the development of autonomous and other advanced industrial systems. In this article, we address the prospects of 5G New Radio (NR) sidelink based ad-hoc networks and their applicability for increasing the situational awareness, in terms of continuous tracking of moving connected machines and vehicles, in industrial systems. For increased system flexibility and fast deployments, we assume that the locations of the so-called anchor nodes are unknown, and describe an extended Kalman filter-based joint positioning and tracking framework in which the locations of both the anchor nodes and the target nodes can be estimated simultaneously. We assess and demonstrate the achievable 3D positioning and tracking performance in the context of a realistic industrial warehouse facility, through extensive ray-tracing based evaluations at the 26 GHz NR band. Our findings show that when both angle-based and time-based measurements are utilized, reaching sub-1 meter accuracy is realistic and that the system is also relatively robust against different node geometries. Finally, several research challenges towards achieving robust, high-performance and cost-efficient positioning solutions are outlined and discussed, identifying various potential directions for future work.

Rethinking the competition between detection and ReID in Multi-Object Tracking

Due to balanced accuracy and speed, joint learning detection and ReID-based one-shot models have drawn great attention in multi-object tracking(MOT). However, the differences between the above two tasks in the one-shot tracking paradigm are unconsciously overlooked, leading to inferior performance than the two-stage methods. In this paper, we dissect the reasoning process of the aforementioned two tasks. Our analysis reveals that the competition of them inevitably hurts the learning of task-dependent representations, which further impedes the tracking performance. To remedy this issue, we propose a novel cross-correlation network that can effectively impel the separate branches to learn task-dependent representations. Furthermore, we introduce a scale-aware attention network that learns discriminative embeddings to improve the ReID capability. We integrate the delicately designed networks into a one-shot online MOT system, dubbed CSTrack. Without bells and whistles, our model achieves new state-of-the-art performances on MOT16 and MOT17. We will release our code to facilitate further work.

The Detection of Thoracic Abnormalities ChestX-Det10 Challenge Results

The detection of thoracic abnormalities challenge is organized by the Deepwise AI Lab. The challenge is divided into two rounds. In this paper, we present the results of 6 teams which reach the second round. The challenge adopts the ChestX-Det10 dateset proposed by the Deepwise AI Lab. ChestX-Det10 is the first chest X-Ray dataset with instance-level annotations, including 10 categories of disease/abnormality of 3,543 images. The annotations are located at https://github.com/Deepwise-AILab/ChestX-Det10-Dataset. In the challenge, we randomly split all data into 3001 images for training and 542 images for testing.

On the Transferability of Minimal Prediction Preserving Inputs in Question Answering

Recent work (Feng et al., 2018) establishes the presence of short, uninterpretable input fragments that yield high confidence and accuracy in neural models. We refer to these as Minimal Prediction Preserving Inputs (MPPIs). In the context of question answering, we investigate competing hypotheses for the existence of MPPIs, including poor posterior calibration of neural models, lack of pretraining, and "dataset bias" (where a model learns to attend to spurious, non-generalizable cues in the training data). We discover a perplexing invariance of MPPIs to random training seed, model architecture, pretraining, and training domain. MPPIs demonstrate remarkable transferability across domains - closing half the gap between models' performance on comparably short queries and original queries. Additionally, penalizing over-confidence on MPPIs fails to improve either generalization or adversarial robustness. These results suggest the interpretability of MPPIs is insufficient to characterize generalization capacity of these models. We hope this focused investigation encourages a more systematic analysis of model behavior outside of the human interpretable distribution of examples.

MKQA: A Linguistically Diverse Benchmark for Multilingual Open Domain Question Answering

Progress in cross-lingual modeling depends on challenging, realistic, and diverse evaluation sets. We introduce Multilingual Knowledge Questions and Answers (MKQA), an open-domain question answering evaluation set comprising 10k question-answer pairs aligned across 26 typologically diverse languages (260k question-answer pairs in total). The goal of this dataset is to provide a challenging benchmark for question answering quality across a wide set of languages. Answers are based on a language-independent data representation, making results comparable across languages and independent of language-specific passages. With 26 languages, this dataset supplies the widest range of languages to-date for evaluating question answering. We benchmark state-of-the-art extractive question answering baselines, trained on Natural Questions, including Multilingual BERT, and XLM-RoBERTa, in zero shot and translation settings. Results indicate this dataset is challenging, especially in low-resource languages.

ContourRend: A Segmentation Method for Improving Contours by Rendering

A good object segmentation should contain clear contours and complete regions. However, mask-based segmentation can not handle contour features well on a coarse prediction grid, thus causing problems of blurry edges. While contour-based segmentation provides contours directly, but misses contours' details. In order to obtain fine contours, we propose a segmentation method named ContourRend which adopts a contour renderer to refine segmentation contours. And we implement our method on a segmentation model based on graph convolutional network (GCN). For the single object segmentation task on cityscapes dataset, the GCN-based segmentation con-tour is used to generate a contour of a single object, then our contour renderer focuses on the pixels around the contour and predicts the category at high resolution. By rendering the contour result, our method reaches 72.41% mean intersection over union (IoU) and surpasses baseline Polygon-GCN by 1.22%.