Imaging Informatics

Multivariate Regression with Gross Errors on Manifold-valued Data

We consider the topic of multivariate regression on manifold-valued output, that is, for a multivariate observation, its output response lies on a manifold. Moreover, we propose a new regression model to deal with the presence of grossly corrupted manifold-valued responses, a bottleneck issue commonly encountered in practical scenarios. Our model first takes a correction step on the grossly corrupted responses via geodesic curves on the manifold, then performs multivariate linear regression on the corrected data.

type: 
Journal Paper
journal: 
IEEE Transactions on Pattern Analysis and Machine Intelligence, 2018, doi: 10.1109/TPAMI.2017.2776260
Url: 
http://ieeexplore.ieee.org/document/8246552/
Impact Factor: 
8.329

Tumor-adjacent tissue co-expression profile analysis reveals pro-oncogenic ribosomal gene signature for prognosis of resectable hepatocellular carcinoma

Currently, molecular markers are not used when determining the prognosis and treatment strategy for patients with hepatocellular carcinoma (HCC). In the present study, we proposed that the identification of common pro-oncogenic pathways in primary tumors (PT) and adjacent non-malignant tissues (AT) typically used to predict HCC patient risks may result in HCC biomarker discovery. We examined the genome-wide mRNA expression profiles of paired PT and AT samples from 321 HCC patients.

type: 
Journal Paper
journal: 
Molecular Oncology, 8 Nov 2017, doi: 10.1002/1878-0261.12153
pubmed: 
29117471
Url: 
https://www.ncbi.nlm.nih.gov/pubmed/29117471
Impact Factor: 
5.314
Date of acceptance: 
2017-10-16

High-throughput Prediction of Nephrotoxicity in Humans

The Lush Science Prize 2016 was awarded to Daniele Zink and Lit-Hsin Loo for the interdisciplinary
and collaborative work between their research groups in developing alternative methods for the
prediction of nephrotoxicity in humans. The collaboration has led to the establishment of a series of pioneering alternative methods for nephrotoxicity prediction, which includes: predictive gene expression
markers based on pro-inflammatory responses; predictive in vitro cellular models based on pluripotent

type: 
Journal Paper
journal: 
ATLA 45, Pg 241-252, 5 Nov 2017
Url: 
http://www.atla.org.uk/high-throughput-prediction-of-nephrotoxicity-in-humans/
Impact Factor: 
1.021

Multiview and Multimodal Pervasive Indoor Localization

Pervasive indoor localization (PIL) aims to locate an indoor mobile-phone user without any infrastructure assistance. Conventional PIL approaches employ a single probe (i.e., target) measurement to localize by identifying its best match out of a fingerprint gallery. However, a single measurement usually captures limited and inadequate location features. More importantly, the reliance on a single measurement bears the inherent risk of being inaccurate and unreliable, due to the fact that the measurement could be noisy and even corrupted.

type: 
Conference Paper/Poster
journal: 
Multi Media 17, Proceedings of the 2017 ACM on Multimedia Conference, Pg 109-117. Mountain view, California, USA, Oct 23-27 2017, doi: 10.1145/3123266.3123436
Url: 
https://dl.acm.org/citation.cfm?id=3123266.3123436
Date of acceptance: 
2017-12-29

Multiview and Multimodal Pervasive Indoor Localization

Pervasive indoor localization (PIL) aims to locate an indoor mobile-phone user without any infrastructure assistance. Conventional PIL approaches employ a single probe (i.e., target) measurement to localize by identifying its best match out of a fingerprint gallery. However, a single measurement usually captures limited and inadequate location features. More importantly, the reliance on a single measurement bears the inherent risk of being inaccurate and unreliable, due to the fact that the measurement could be noisy and even corrupted.

type: 
Conference Paper/Poster
journal: 
"Multi Media 17, Proceedings of the 2017 ACM on Multimedia Conference, Pg 109-117. Mountain view, California, USA, Oct 23-27 2017, doi: 10.1145/3123266.3123436 "
Url: 
https://dl.acm.org/citation.cfm?id=3123266.3123436

Quantitative Localization of a Golgi Protein by Imaging Its Center of Fluorescence Mass

The Golgi complex consists of serially stacked membrane cisternae which can be further categorized into sub-Golgi regions, including the cis-Golgi, medial-Golgi, trans-Golgi and trans-Golgi network. Cellular functions of the Golgi are determined by the characteristic distribution of its resident proteins. The spatial resolution of conventional light microscopy is too low to resolve sub-Golgi structure or cisternae. Thus, the immuno-gold electron microscopy is a method of choice to localize a protein at the sub-Golgi level.

type: 
Journal Paper
journal: 
JoVE Journal of Visualized Experiments, 2017, doi:10.3791/55996
Url: 
https://www.jove.com/video/55996
Date of acceptance: 
2017-12-29

Transduction on Directed Graphs via Absorbing Random Walks

In this paper we consider the problem of graph-based transductive classification, and we are particularly interested in the directed graph scenario which is a natural form for many real world applications.Different from existing research efforts that either only deal with undirected graphs or circumvent directionality by means of symmetrization, we propose a novel random walk approach on directed graphs using absorbing Markov chains, which can be regarded as maximizing the accumulated expected number of visits from the unlabeled transient states.

type: 
Journal Paper
journal: 
IEEE Transactions on Pattern Analysis and Machine Intelligence, Issue 99, 2017, doi:10.1109/TPAMI.2017.2730871
pubmed: 
28809671
Url: 
http://ieeexplore.ieee.org/document/8008851/
Impact Factor: 
8.329

The role of apical contractility in determining cell morphology in multilayered epithelial sheets and tubes

A multilayered epithelium is made up of individual cells that are stratified in an orderly fashion, layer by layer. In such tissues, individual cells can adopt a wide range of shapes ranging from columnar to squamous. From histological images, we observe that, in flat epithelia such as the skin, the cells in the top layer are squamous while those in the middle and bottom layers are columnar, whereas in tubular epithelia, the cells in all layers are columnar.

type: 
Journal Paper
journal: 
Physical Biology, Vol. 14, No. 4, 2017, PMID: 28639563, doi: 10.1088/1478-3975/aa7afc
Url: 
https://www.ncbi.nlm.nih.gov/pubmed/28639563
Date of acceptance: 
2017-06-22

Semi-automated quantitative Drosophila wings measurements

BACKGROUND:
Drosophila melanogaster is an important organism used in many fields of biological research such as genetics and developmental biology. Drosophila wings have been widely used to study the genetics of development, morphometrics and evolution. Therefore there is much interest in quantifying wing structures of Drosophila. Advancement in technology has increased the ease in which images of Drosophila can be acquired. However such studies have been limited by the slow and tedious process of acquiring phenotypic data.

RESULTS:

type: 
Journal Paper
journal: 
BMC Bioinformatics 2017 Jun 28;18(1):319. doi: 10.1186/s12859-017-1720-y
pubmed: 
28659123
Url: 
https://www.ncbi.nlm.nih.gov/pubmed/28659123
Impact Factor: 
2.435
Date of acceptance: 
2017-06-09

Gland segmentation in prostatehistopathological images

Glandular structural features are important for the tumor pathologist in the assessment of cancer malignancy of prostate tissue slides. The varying shapes and sizes of glands combined with the tedious manual observation task can result in inaccurate assessment. There are also discrepancies and low-level agreement among pathologists, especially in cases of Gleason pattern 3 and pattern 4 prostate adenocarcinoma. An automated gland segmentation system can highlight various glandular shapes and structures for further analysis by the pathologist.

type: 
Journal Paper
journal: 
Journal of Medical Imaging, 2017 Apr;4(2):027501, doi: 10.1117/1.JMI.4.2.027501
pubmed: 
28653016
Url: 
https://www.ncbi.nlm.nih.gov/pubmed/28653016
Date of acceptance: 
2017-06-01
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