arXiv subjects

Xinyue Wang

Publications and source records attributed to Xinyue Wang.

59 records · Page 4Linked to original sources

arXiv2022

Facilitating Federated Genomic Data Analysis by Identifying Record Correlations while Ensuring Privacy

With the reduction of sequencing costs and the pervasiveness of computing devices, genomic data collection is continually growing. However, data collection is highly fragmented and the data is still siloed across different repositories. Analyzing all of this data would be transformative for genomics research. However, the data is sensitive, and therefore cannot be easily centralized. Furthermore, there may be correlations in the data, which if not detected, can impact the analysis. In this paper, we take the first step towards identifying correlated records across multiple data repositories in a privacy-preserving manner. The proposed framework, based on random shuffling, synthetic record generation, and local differential privacy, allows a trade-off of accuracy and computational efficiency. An extensive evaluation on real genomic data from the OpenSNP dataset shows that the proposed solution is efficient and effective.

cs.CR↗

arXiv2021

Cardiac Segmentation on Late Gadolinium Enhancement MRI: A Benchmark Study from Multi-Sequence Cardiac MR Segmentation Challenge

Accurate computing, analysis and modeling of the ventricles and myocardium from medical images are important, especially in the diagnosis and treatment management for patients suffering from myocardial infarction (MI). Late gadolinium enhancement (LGE) cardiac magnetic resonance (CMR) provides an important protocol to visualize MI. However, automated segmentation of LGE CMR is still challenging, due to the indistinguishable boundaries, heterogeneous intensity distribution and complex enhancement patterns of pathological myocardium from LGE CMR. Furthermore, compared with the other sequences LGE CMR images with gold standard labels are particularly limited, which represents another obstacle for developing novel algorithms for automatic segmentation of LGE CMR. This paper presents the selective results from the Multi-Sequence Cardiac MR (MS-CMR) Segmentation challenge, in conjunction with MICCAI 2019. The challenge offered a data set of paired MS-CMR images, including auxiliary CMR sequences as well as LGE CMR, from 45 patients who underwent cardiomyopathy. It was aimed to develop new algorithms, as well as benchmark existing ones for LGE CMR segmentation and compare them objectively. In addition, the paired MS-CMR images could enable algorithms to combine the complementary information from the other sequences for the segmentation of LGE CMR. Nine representative works were selected for evaluation and comparisons, among which three methods are unsupervised methods and the other six are supervised. The results showed that the average performance of the nine methods was comparable to the inter-observer variations. The success of these methods was mainly attributed to the inclusion of the auxiliary sequences from the MS-CMR images, which provide important label information for the training of deep neural networks.

eess.IV↗

arXiv2020

The Case For Alternative Web Archival Formats To Expedite The Data-To-Insight Cycle

The WARC file format is widely used by web archives to preserve collected web content for future use. With the rapid growth of web archives and the increasing interest to reuse these archives as big data sources for statistical and analytical research, the speed to turn these data into insights becomes critical. In this paper we show that the WARC format carries significant performance penalties for batch processing workload. We trace the root cause of these penalties to its data structure, encoding, and addressing method. We then run controlled experiments to illustrate how severe these problems can be. Indeed, performance gain of one to two orders of magnitude can be achieved simply by reformatting WARC files into Parquet or Avro formats. While these results do not necessarily constitute an endorsement for Avro or Parquet, the time has come for the web archiving community to consider replacing WARC with more efficient web archival formats.

cs.DL↗

arXiv2019

Cantonese Automatic Speech Recognition Using Transfer Learning from Mandarin

We propose a system to develop a basic automatic speech recognizer(ASR) for Cantonese, a low-resource language, through transfer learning of Mandarin, a high-resource language. We take a time-delayed neural network trained on Mandarin, and perform weight transfer of several layers to a newly initialized model for Cantonese. We experiment with the number of layers transferred, their learning rates, and pretraining i-vectors. Key findings are that this approach allows for quicker training time with less data. We find that for every epoch, log-probability is smaller for transfer learning models compared to a Cantonese-only model. The transfer learning models show slight improvement in CER.

cs.CL↗

arXiv2018

Probabilistic Re-aggregation Algorithm [First Draft]

Spatial data about individuals or businesses is often aggregated over polygonal regions to preserve privacy, provide useful insight and support decision making. Given a particular aggregation of data (say into local government areas), the re-aggregation problem is to estimate how that same data would aggregate over a different set of polygonal regions (say electorates) without having access to the original unit records. Data61 is developing new re-aggregation algorithms that both estimate confidence intervals of their predictions and utilize additional related datasets when available to improve accuracy. The algorithms are an improvement over the current re-aggregation procedure in use by the ABS, which is manually applied by the data user, less accurate in validation experiments and provides a single best guess answer. The algorithms are deployed in an accessible web service that automatically learns a model and applies it to user-data. This report formulates the re-aggregation problem, describes Data61's new algorithms, and presents preliminary validation experiments.

stat.AP↗