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Article ; Online: Erratum: THOMAS ZIEGLER, CUONG THE PHAM, TAN VAN NGUYEN, TRUONG QUANG NGUYEN, JIAN WANG, YING-YONG WANG, BRYAN L. STUART amp; MINH DUC LE (2019) A new species of Opisthotropis from northern Vietnam previously misidentified as the Yellow-spotted Mountain Stream Keelback O. maculosa Stuart amp; Chuaynkern, 2007 (Squamata: Natricidae). Zootaxa, 4613, 579-586.

Ziegler, Thomas / Pham, Cuong The / VAN Nguyen, Tan / Nguyen, Truong Quang / Wang, Jian / Wang, Ying-Yong / Stuart, Bryan L / Le, Minh Duc

Zootaxa

2021 Volume 4903, Issue 4, Page(s) zootaxa.4903.4.8

Language	English
Publishing date	2021-01-11
Publishing country	New Zealand
Document type	Journal Article ; Published Erratum
ISSN	1175-5334
ISSN (online)	1175-5334
DOI	10.11646/zootaxa.4903.4.8
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Book ; Online: Data exploitation

Lê, Hoàng-Ân / Pham, Minh-Tan

multi-task learning of object detection and semantic segmentation on partially annotated data

2023

Abstract: Multi-task partially annotated data where each data point is annotated for only a single task are potentially helpful for data scarcity if a network can leverage the inter-task relationship. In this paper, we study the joint learning of object detection ... ...

Abstract	Multi-task partially annotated data where each data point is annotated for only a single task are potentially helpful for data scarcity if a network can leverage the inter-task relationship. In this paper, we study the joint learning of object detection and semantic segmentation, the two most popular vision problems, from multi-task data with partial annotations. Extensive experiments are performed to evaluate each task performance and explore their complementarity when a multi-task network cannot optimize both tasks simultaneously. We propose employing knowledge distillation to leverage joint-task optimization. The experimental results show favorable results for multi-task learning and knowledge distillation over single-task learning and even full supervision scenario. All code and data splits are available at https://github.com/lhoangan/multas Comment: Accepted for publishing at BMVC 2023
Keywords	Computer Science - Computer Vision and Pattern Recognition
Subject code	004 ; 006
Publishing date	2023-11-07
Publishing country	us
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Book ; Online: Knowledge Distillation for Object Detection

Lê, Hoàng-Ân / Pham, Minh-Tan

from generic to remote sensing datasets

2023

Abstract: Knowledge distillation, a well-known model compression technique, is an active research area in both computer vision and remote sensing communities. In this paper, we evaluate in a remote sensing context various off-the-shelf object detection knowledge ... ...

Abstract	Knowledge distillation, a well-known model compression technique, is an active research area in both computer vision and remote sensing communities. In this paper, we evaluate in a remote sensing context various off-the-shelf object detection knowledge distillation methods which have been originally developed on generic computer vision datasets such as Pascal VOC. In particular, methods covering both logit mimicking and feature imitation approaches are applied for vehicle detection using the well-known benchmarks such as xView and VEDAI datasets. Extensive experiments are performed to compare the relative performance and interrelationships of the methods. Experimental results show high variations and confirm the importance of result aggregation and cross validation on remote sensing datasets. Comment: Accepted for publishing at IGARSS 2023
Keywords	Computer Science - Computer Vision and Pattern Recognition
Subject code	004
Publishing date	2023-07-18
Publishing country	us
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Leuconostoc mesenteroides utilizes glucose fermentation to produce electricity and ameliorates high-fat diet-induced abdominal fat mass

Phạm, Minh Tân / Tran, Thi Dung / Zayabaatar, Enkhbat

Arch Microbiol. 2022 Nov., v. 204, no. 11 p.670-670

2022

Abstract: Bacteria capable of producing electricity in intestinal microbiota have been discovered. However, no studies have explored butyric acid which generated by electrogenic bacteria on the host organism have significant physiological impacts on certain organs. ...

Abstract	Bacteria capable of producing electricity in intestinal microbiota have been discovered. However, no studies have explored butyric acid which generated by electrogenic bacteria on the host organism have significant physiological impacts on certain organs. We found that the capacity for electrical current generation by the commensal gut Leuconostoc mesenteroides EH-1 (L. mesenteroides EH-1) during glucose fermentation. The electricity production was essential for the gut colonization of L. mesenteroides EH-1 since the inhibition of electricity production by cyclophilin A inhibitor (TMN355) significantly diminished the number of bacteria attached to the human gut epithelial cell surface. The adipocyte differentiation contributes to the increased 4-hydroxy-2-nonenal (4-HNE), considered as a biomarker of reactive oxygen species (ROS). The effect of intestinal electrogenic microbiota in the high-fat diet (HFD)-induced 4-HNE and abdominal fat accumulation in mice was investigated in this study. The oral administration of glucose with a butyric acid-producing L. mesenteroides EH-1 bacterium attenuated the expression of 4-HNE and abdominal fat. The level of 4-HNE and abdominal fat depot were markedly increased in mice administered with cyclophilin A inhibitor-pretreated bacteria or GLPG-0974, an antagonist of free fatty acid receptor 2 (Ffar2). Our studies suggest a novel means by which the probiotic bacteria can modulate fat mass deposition and oxidative stress via the cyclophilin A-mediated electron production and the butyric acid-activated Ffar2 pathway.
Keywords	Leuconostoc mesenteroides ; abdominal fat ; adipocytes ; antagonists ; bacteria ; biomarkers ; butyric acid ; cyclophilin A ; electric current ; electricity generation ; epithelial cells ; fermentation ; free fatty acids ; glucose ; high fat diet ; humans ; intestinal microorganisms ; intestines ; oral administration ; oxidative stress ; probiotics ; reactive oxygen species
Language	English
Dates of publication	2022-11
Size	p. 670.
Publishing place	Springer Berlin Heidelberg
Document type	Article ; Online
ZDB-ID	124824-8
ISSN	1432-072X ; 0302-8933
ISSN (online)	1432-072X
ISSN	0302-8933
DOI	10.1007/s00203-022-03281-2
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Electrogenic Staphylococcus epidermidis colonizes nasal cavities and alleviates IL-6 progression induced by the SARS2-CoV nucleocapsid protein.

Zayabaatar, Enkhbat / Tang, Nguyen Mai Trinh / Pham, Minh Tan

Journal of applied microbiology

2023 Volume 134, Issue 8

Abstract: Aim: Certain probiotic bacteria have been shown to possess an immunomodulatory effect and a protective effect on influenza infections. Using the Staphylococcus epidermidis K1 colonized mice model, we assessed the effect of nasal administration of ... ...

Abstract	Aim: Certain probiotic bacteria have been shown to possess an immunomodulatory effect and a protective effect on influenza infections. Using the Staphylococcus epidermidis K1 colonized mice model, we assessed the effect of nasal administration of glycerol or flavin mononucleotide (FMN) on the production of interleukin (IL)-6 mediated by the severe acute respiratory syndrome coronavirus 2 (SARS2-CoV) nucleocapsid protein (NPP). Methods and results: FMN, one of the key electron donors for the generation of electricity facilitated by S. epidermidis ATCC 12228, was detected in the glycerol fermentation medium. Compared to the S. epidermidis ATCC 12228, the S. epidermidis K1 isolate showed significant expression of the electron transfer genes, including pyruvate dehydrogenase (pdh), riboflavin kinase (rk), 1,4-dihydroxy-2-naphthoate octaprenyltransferase (menA), and type II NADH quinone oxidoreductase (ndh2). Institute of cancer research (ICR) mice were intranasally administered with S. epidermidis K1 with or without pretreatment with riboflavin kinase inhibitors, then nasally treated with glycerol or FMN before inoculating the NPP. Furthermore, J774A.1 macrophages were exposed to NPP serum and then treated with NPP of SARS2-CoV. The IL-6 levels in the bronchoalveolar lavage fluid (BALF) of mice and macrophages were quantified using a mouse IL-6 enzyme-linked immunosorbent assay kit. Conclusions: Here, we report that nasal administration of NPP strongly elevates IL-6 levels in both BALF and J774A.1 macrophages. It is worth noting that NPP-neutralizing antibodies can decrease IL-6 levels in macrophages. The nasal administration of glycerol or FMN to S. epidermidis K1-colonized mice results in a reduction of NPP-induced IL-6 production.
MeSH term(s)	Humans ; Interleukin-6/genetics ; Interleukin-6/metabolism ; Nasal Cavity ; Staphylococcus epidermidis/metabolism ; Glycerol/metabolism ; COVID-19 ; Nucleocapsid Proteins/metabolism
Chemical Substances	Interleukin-6 ; Glycerol (PDC6A3C0OX) ; Nucleocapsid Proteins
Language	English
Publishing date	2023-08-07
Publishing country	England
Document type	Journal Article
ZDB-ID	1358023-1
ISSN	1365-2672 ; 1364-5072
ISSN (online)	1365-2672
ISSN	1364-5072
DOI	10.1093/jambio/lxad179
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Article: Lactobacillus plantarum

Ganzorig, Binderiya / Zayabaatar, Enkhbat / Pham, Minh Tan / Marito, Shinta / Huang, Chun-Ming / Lee, Yu-Hsiang

Biomedicines

2023 Volume 11, Issue 3

Abstract: The mechanism behind how flavin mononucleotide (FMN)-producing bacteria attach to a host intestine remains unclear. In order to address this issue, this study isolated the Gram-positive ... ...

Abstract	The mechanism behind how flavin mononucleotide (FMN)-producing bacteria attach to a host intestine remains unclear. In order to address this issue, this study isolated the Gram-positive bacteria
Language	English
Publishing date	2023-02-23
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2720867-9
ISSN	2227-9059
ISSN	2227-9059
DOI	10.3390/biomedicines11030677
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Article ; Online: When intervention becomes imperative: a case report of spontaneous vulvar edema during pregnancy.

Trang, Vo Anh Vinh / Pham, Thao-Ngan Nguyen / Le, Bao Huy / Truyen, Thien Tan Tri Tai / Trinh, Hoang Kim Tu / Le, Kieu-Minh / Pham, Huu Doan / Nguyen, Ngoc Minh Tam / Tran, Quoc Kha / Nguyen, Phuc Cam Hoang / Tran, Vinh Hung

AJOG global reports

2024 Volume 4, Issue 2, Page(s) 100339

Abstract: Spontaneous idiopathic vulvar edema during the second trimester is a rare condition. The approach to managing this condition involves relieving symptoms, identifying underlying causes, and implementing appropriate treatment. Managing such cases during ... ...

Abstract	Spontaneous idiopathic vulvar edema during the second trimester is a rare condition. The approach to managing this condition involves relieving symptoms, identifying underlying causes, and implementing appropriate treatment. Managing such cases during pregnancy is challenging because of concerns for potential adverse fetal outcomes. Conservative management expects the condition to be relieved spontaneously postpartum, whereas invasive treatment offers a more rapid resolution. Treatment choices are controversial because each method has its pros and cons and influences the delivery process to a certain extent. Surgical drainage becomes a viable option when patients are not responsive to medications. We report a case of spontaneous massive vulvar edema in a 22-year-old primigravida in her 23rd week of pregnancy. After ruling out other notable causes of vulvar edema, we decided to intervene using an invasive procedure because she complained of progressive symptoms and discomfort. Subsequently, the edema subsided postprocedure, and the patient experienced successful labor with no complications. This report aims to alert clinicians that drainage attempts should be considered in pregnant patients with worsening symptoms.
Language	English
Publishing date	2024-03-16
Publishing country	United States
Document type	Case Reports
ISSN	2666-5778
ISSN (online)	2666-5778
DOI	10.1016/j.xagr.2024.100339
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Article ; Online: Leuconostoc mesenteroides utilizes glucose fermentation to produce electricity and ameliorates high-fat diet-induced abdominal fat mass.

Pham, Minh Tan / Tran, Thi Dung / Zayabaatar, Enkhbat

Archives of microbiology

2022 Volume 204, Issue 11, Page(s) 670

Abstract	Bacteria capable of producing electricity in intestinal microbiota have been discovered. However, no studies have explored butyric acid which generated by electrogenic bacteria on the host organism have significant physiological impacts on certain organs. We found that the capacity for electrical current generation by the commensal gut Leuconostoc mesenteroides EH-1 (L. mesenteroides EH-1) during glucose fermentation. The electricity production was essential for the gut colonization of L. mesenteroides EH-1 since the inhibition of electricity production by cyclophilin A inhibitor (TMN355) significantly diminished the number of bacteria attached to the human gut epithelial cell surface. The adipocyte differentiation contributes to the increased 4-hydroxy-2-nonenal (4-HNE), considered as a biomarker of reactive oxygen species (ROS). The effect of intestinal electrogenic microbiota in the high-fat diet (HFD)-induced 4-HNE and abdominal fat accumulation in mice was investigated in this study. The oral administration of glucose with a butyric acid-producing L. mesenteroides EH-1 bacterium attenuated the expression of 4-HNE and abdominal fat. The level of 4-HNE and abdominal fat depot were markedly increased in mice administered with cyclophilin A inhibitor-pretreated bacteria or GLPG-0974, an antagonist of free fatty acid receptor 2 (Ffar2). Our studies suggest a novel means by which the probiotic bacteria can modulate fat mass deposition and oxidative stress via the cyclophilin A-mediated electron production and the butyric acid-activated Ffar2 pathway.
MeSH term(s)	Abdominal Fat/metabolism ; Animals ; Bacteria/metabolism ; Butyric Acid ; Cyclophilin A/metabolism ; Diet, High-Fat/adverse effects ; Electricity ; Fatty Acids, Nonesterified/metabolism ; Fermentation ; Glucose/metabolism ; Humans ; Leuconostoc mesenteroides/metabolism ; Mice ; Reactive Oxygen Species/metabolism
Chemical Substances	Fatty Acids, Nonesterified ; Reactive Oxygen Species ; Butyric Acid (107-92-6) ; Cyclophilin A (EC 5.2.1.-) ; Glucose (IY9XDZ35W2)
Language	English
Publishing date	2022-10-14
Publishing country	Germany
Document type	Journal Article
ZDB-ID	124824-8
ISSN	1432-072X ; 0302-8933
ISSN (online)	1432-072X
ISSN	0302-8933
DOI	10.1007/s00203-022-03281-2
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Book ; Online: Weakly supervised marine animal detection from remote sensing images using vector-quantized variational autoencoder

Pham, Minh-Tan / Gangloff, Hugo / Lefèvre, Sébastien

2023

Abstract: This paper studies a reconstruction-based approach for weakly-supervised animal detection from aerial images in marine environments. Such an approach leverages an anomaly detection framework that computes metrics directly on the input space, enhancing ... ...

Abstract	This paper studies a reconstruction-based approach for weakly-supervised animal detection from aerial images in marine environments. Such an approach leverages an anomaly detection framework that computes metrics directly on the input space, enhancing interpretability and anomaly localization compared to feature embedding methods. Building upon the success of Vector-Quantized Variational Autoencoders in anomaly detection on computer vision datasets, we adapt them to the marine animal detection domain and address the challenge of handling noisy data. To evaluate our approach, we compare it with existing methods in the context of marine animal detection from aerial image data. Experiments conducted on two dedicated datasets demonstrate the superior performance of the proposed method over recent studies in the literature. Our framework offers improved interpretability and localization of anomalies, providing valuable insights for monitoring marine ecosystems and mitigating the impact of human activities on marine animals. Comment: 4 pages, accepted to IGARSS 2023
Keywords	Computer Science - Computer Vision and Pattern Recognition
Subject code	006
Publishing date	2023-07-13
Publishing country	us
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Book ; Online: Joint multi-modal Self-Supervised pre-training in Remote Sensing

Berg, Paul / Pham, Minh-Tan / Courty, Nicolas

Application to Methane Source Classification

2023

Abstract: With the current ubiquity of deep learning methods to solve computer vision and remote sensing specific tasks, the need for labelled data is growing constantly. However, in many cases, the annotation process can be long and tedious depending on the ... ...

Abstract	With the current ubiquity of deep learning methods to solve computer vision and remote sensing specific tasks, the need for labelled data is growing constantly. However, in many cases, the annotation process can be long and tedious depending on the expertise needed to perform reliable annotations. In order to alleviate this need for annotations, several self-supervised methods have recently been proposed in the literature. The core principle behind these methods is to learn an image encoder using solely unlabelled data samples. In earth observation, there are opportunities to exploit domain-specific remote sensing image data in order to improve these methods. Specifically, by leveraging the geographical position associated with each image, it is possible to cross reference a location captured from multiple sensors, leading to multiple views of the same locations. In this paper, we briefly review the core principles behind so-called joint-embeddings methods and investigate the usage of multiple remote sensing modalities in self-supervised pre-training. We evaluate the final performance of the resulting encoders on the task of methane source classification. Comment: 4 pages, 1 figure. Accepted to IGARSS 2023
Keywords	Computer Science - Computer Vision and Pattern Recognition
Subject code	006
Publishing date	2023-06-16
Publishing country	us
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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