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Article: From predator to protector:

Han, Jian / Dong, Zhiming / Ji, Wenbo / Lv, Wen / Luo, Ming / Fu, Benzhong

2024 Volume 15, Page(s) 1378288

Abstract: Fire blight, caused by the Gram-negative ... ...

Abstract	Fire blight, caused by the Gram-negative bacterium
Language	English
Publishing date	2024-04-08
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2587354-4
ISSN	1664-302X
ISSN	1664-302X
DOI	10.3389/fmicb.2024.1378288
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Article ; Online: Computer vision to recognize construction waste compositions: A novel boundary-aware transformer (BAT) model.

Dong, Zhiming / Chen, Junjie / Lu, Weisheng

Journal of environmental management

2022 Volume 305, Page(s) 114405

Abstract: Recognition of construction waste compositions using computer vision (CV) is increasingly explored to enable its subsequent management, e.g., determining chargeable levy at disposal facilities or waste sorting using robot arms. However, the applicability ...

Abstract	Recognition of construction waste compositions using computer vision (CV) is increasingly explored to enable its subsequent management, e.g., determining chargeable levy at disposal facilities or waste sorting using robot arms. However, the applicability of existing CV-enabled construction waste recognition in real-life scenarios is limited by their relatively low accuracy, characterized by a failure to distinguish boundaries among different waste materials. This paper aims to propose a novel boundary-aware Transformer (BAT) model for fine-grained composition recognition of construction waste mixtures. First, a pre-processing workflow is devised to separate the hard-to-recognize edges from the background. Second, a Transformer structure with a self-designed cascade decoder is developed to segment different waste materials from construction waste mixtures. Finally, a learning-enabled edge refinement scheme is used to fine-tune the ignored boundaries, further boosting the segmentation precision. The performance of the BAT model was evaluated on a benchmark dataset comprising nine types of materials in a cluttered and mixture state. It recorded a 5.48% improvement of MIoU (mean intersection over union) and 3.65% of MAcc (Mean Accuracy) against the baseline. The research contributes to the body of interdisciplinary knowledge by presenting a novel deep learning model for construction waste material semantic segmentation. It can also expedite the applications of CV in construction waste management to achieve a circular economy.
MeSH term(s)	Computers ; Construction Industry ; Construction Materials ; Industrial Waste/analysis ; Recycling ; Waste Management
Chemical Substances	Industrial Waste
Language	English
Publishing date	2022-01-04
Publishing country	England
Document type	Journal Article
ZDB-ID	184882-3
ISSN	1095-8630 ; 0301-4797
ISSN (online)	1095-8630
ISSN	0301-4797
DOI	10.1016/j.jenvman.2021.114405
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Article: Computer vision to recognize construction waste compositions: A novel boundary-aware transformer (BAT) model

Dong, Zhiming / Chen, Junjie / Lu, Weisheng

Journal of environmental management. 2022 Mar. 01, v. 305

2022

Abstract	Recognition of construction waste compositions using computer vision (CV) is increasingly explored to enable its subsequent management, e.g., determining chargeable levy at disposal facilities or waste sorting using robot arms. However, the applicability of existing CV-enabled construction waste recognition in real-life scenarios is limited by their relatively low accuracy, characterized by a failure to distinguish boundaries among different waste materials. This paper aims to propose a novel boundary-aware Transformer (BAT) model for fine-grained composition recognition of construction waste mixtures. First, a pre-processing workflow is devised to separate the hard-to-recognize edges from the background. Second, a Transformer structure with a self-designed cascade decoder is developed to segment different waste materials from construction waste mixtures. Finally, a learning-enabled edge refinement scheme is used to fine-tune the ignored boundaries, further boosting the segmentation precision. The performance of the BAT model was evaluated on a benchmark dataset comprising nine types of materials in a cluttered and mixture state. It recorded a 5.48% improvement of MIoU (mean intersection over union) and 3.65% of MAcc (Mean Accuracy) against the baseline. The research contributes to the body of interdisciplinary knowledge by presenting a novel deep learning model for construction waste material semantic segmentation. It can also expedite the applications of CV in construction waste management to achieve a circular economy.
Keywords	circular economy ; computer vision ; data collection ; waste management
Language	English
Dates of publication	2022-0301
Publishing place	Elsevier Ltd
Document type	Article
ZDB-ID	184882-3
ISSN	1095-8630 ; 0301-4797
ISSN (online)	1095-8630
ISSN	0301-4797
DOI	10.1016/j.jenvman.2021.114405
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Article ; Online: Comparative evaluation of the flavour-promoting role of autochthonous yeast strains on dry sausages

Wen, Rongxin / Dong, Zhiming / Lv, Yichao / Liu, Haotian / Bayana, Bazhenova / Kong, Baohua / Chen, Qian

LWT. 2023 July, v. 184 p.115032-

2023

Abstract: The taste and odour profiles of dry sausages separately inoculated with four autochthonous yeasts (Debaryomyces hansenii SH4, Candida zeylanoides DQ7, Torulaspora delbrueckii HG7 and Pichia kudriavzevii MDJ1) were investigated. The inoculation of yeast ... ...

Abstract	The taste and odour profiles of dry sausages separately inoculated with four autochthonous yeasts (Debaryomyces hansenii SH4, Candida zeylanoides DQ7, Torulaspora delbrueckii HG7 and Pichia kudriavzevii MDJ1) were investigated. The inoculation of yeast increased the scores of fermented, floral and fruity odour and decreased the scores of sour taste. Notably, D. hansenii SH4 and C. zeylanoides DQ7 inoculated sausages had higher umami free amino acid contents than control sausage, as well as showed the highest umami and salty taste scores of 3.64 and 5.42, respectively. Meanwhile, the inoculation of D. hansenii SH4, Pichia kudriavzevii MDJ1 and C. zeylanoides DQ7 could increase the contents of ester, alcohol and aldehyde by 1.31, 1.32 and 1.38 times from dry sausages, respectively. Partial least squares regression analysis revealed that nine taste compounds and 34 odour compounds were mainly responsible for sensory differences between dry sausages. This study provided new insights into the relationship between chemical compounds and sensory characteristics of dry sausage, demonstrating that four autochthonous yeasts contribute significantly to the flavour formation of dry sausage.
Keywords	Candida zeylanoides ; Debaryomyces hansenii ; Pichia kudriavzevii ; Torulaspora delbrueckii ; alcohols ; aldehydes ; fermentation ; free amino acids ; odors ; regression analysis ; saltiness ; sausages ; sourness ; taste ; umami ; yeasts ; Dry sausage ; Yeast ; Taste profile ; Odour profile ; Partial least squares regression
Language	English
Dates of publication	2023-07
Publishing place	Elsevier Ltd
Document type	Article ; Online
ZDB-ID	241369-3
ISSN	0460-1173 ; 0023-6438
ISSN	0460-1173 ; 0023-6438
DOI	10.1016/j.lwt.2023.115032
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Article ; Online: Exploring potential correlations between bacterial communities, organic acids, and volatile metabolites of traditional fermented sauerkraut collected from different regions of Heilongjiang Province in Northeast China.

Wang, Jiawang / Sui, Yumeng / Lu, Jiasheng / Dong, Zhiming / Liu, Haotian / Kong, Baohua / Chen, Qian

Food chemistry: X

2023 Volume 19, Page(s) 100840

Abstract: In this study, the bacterial communities and flavor metabolites of 27 traditional naturally fermented sauerkraut samples collected from nine regions of Heilongjiang Province in Northeast China were investigated. The dominant genera ... ...

Abstract	In this study, the bacterial communities and flavor metabolites of 27 traditional naturally fermented sauerkraut samples collected from nine regions of Heilongjiang Province in Northeast China were investigated. The dominant genera were
Language	English
Publishing date	2023-08-19
Publishing country	Netherlands
Document type	Journal Article
ISSN	2590-1575
ISSN (online)	2590-1575
DOI	10.1016/j.fochx.2023.100840
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Article ; Online: Combination of ultrasound treatment and starter culture for improving the quality of beef jerky

Hu, Katherine Fan / Dong, Zhiming / Wen, Rongxin / Kong, Baohua / Yu, Weihua / Wang, Jianzhao / Liu, Haotian / Chen, Qian

Meat Science. 2023 Oct., v. 204 p.109240-

2023

Abstract: The effects of treatment by ultrasound (US), inoculation of Pediococcus acidilactici BP2 strain (BP), and their combination (US-BP) on the quality characteristics of beef jerky were investigated during fermentation for 6 days. Moisture contents and water ...

Abstract	The effects of treatment by ultrasound (US), inoculation of Pediococcus acidilactici BP2 strain (BP), and their combination (US-BP) on the quality characteristics of beef jerky were investigated during fermentation for 6 days. Moisture contents and water activity were highest after the US and US-BP treatments (P < 0.05). These effects were attributed to the decreased moisture mobility in beef jerky during ultrasonication. Meanwhile, samples treated with US and US-BP displayed more broken muscle fibers and larger gaps and cavities between the adjacent muscle bundles, resulting in lower shear force values compared to the other samples (P < 0.05), which indicated that the US and US-BP treatments improved the tenderness of beef jerky. Moreover, treatment with BP promoted the flavor development of beef jerky. The US-BP treatment improved the sensory attributes of beef jerky. In conclusion, US-BP is a promising strategy to improve the quality of beef jerky.
Keywords	Pediococcus acidilactici ; fermentation ; flavor ; meat jerky ; meat science ; muscles ; starter cultures ; ultrasonic treatment ; ultrasonics ; water activity ; Beef jerky ; Ultrasound ; Starter culture ; Tenderness ; Flavor characteristic
Language	English
Dates of publication	2023-10
Publishing place	Elsevier Ltd
Document type	Article ; Online
ZDB-ID	753319-6
ISSN	1873-4138 ; 0309-1740
ISSN (online)	1873-4138
ISSN	0309-1740
DOI	10.1016/j.meatsci.2023.109240
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Article ; Online: Long Non-coding RNA LINC01503 Promotes Gastric Cardia Adenocarcinoma Progression via miR-133a-5p/VIM Axis and EMT Process.

Guo, Yanli / Sun, Pingping / Guo, Wei / Dong, Zhiming

Digestive diseases and sciences

2020 Volume 66, Issue 10, Page(s) 3391–3403

Abstract: Background: LINC01503 has been reported to act as a candidate oncogenic lncRNA in several types of human cancer. However, the functions and underlying mechanisms of LINC01503 in gastric cardia adenocarcinoma (GCA) remain unclear.: Aims: To ... ...

Abstract	Background: LINC01503 has been reported to act as a candidate oncogenic lncRNA in several types of human cancer. However, the functions and underlying mechanisms of LINC01503 in gastric cardia adenocarcinoma (GCA) remain unclear. Aims: To investigate the roles and underlying mechanisms of LINC01503 in GCA progression. Materials and methods: Gene expressions were detected by quantitative real-time PCR (qRT-PCR). Gain-of-function assays were performed to evaluate the function of LINC01503 in gastric cancer cells. Bioinformatics analysis, luciferase reporter assay, and RIP assay were performed to identify associations among LINC01503, miR-133a-5p, and VIM. Results: The expression level of LINC01503 was significantly elevated in GCA tissues and cell lines. High expression of LINC01503 was correlated with lymph node metastasis, TNM stage, and poor prognosis of GCA patients. Knockdown of LINC01503 significantly reduced proliferation, migration, and invasion ability in GC cells. LINC01503 might function as a competing endogenous RNA (ceRNA) via sponging miR-133a-5p to upregulate the expression of VIM. Furthermore, overexpression of LINC01503 promoted the progression of epithelial mesenchymal transition (EMT) in vitro. Conclusion: LINC01503 serves as an oncogenic lncRNA to promote GCA progression via affecting LINC01503/miR-133a-5p/VIM axis and EMT process. LINC01503 not only has a critical role in GCA progression but also provide a novel potential biomarker in predicting prognosis for GCA patients.
MeSH term(s)	Adenocarcinoma/genetics ; Adenocarcinoma/metabolism ; Cell Line, Tumor ; Cell Proliferation ; Epithelial-Mesenchymal Transition/physiology ; Female ; Gene Expression Regulation, Neoplastic ; Humans ; Male ; MicroRNAs/genetics ; MicroRNAs/metabolism ; Middle Aged ; RNA, Long Noncoding/genetics ; RNA, Long Noncoding/metabolism ; Stomach Neoplasms/genetics ; Stomach Neoplasms/metabolism ; Up-Regulation ; Vimentin/genetics ; Vimentin/metabolism
Chemical Substances	MIRN133 microRNA, human ; MicroRNAs ; RNA, Long Noncoding ; VIM protein, human ; Vimentin
Language	English
Publishing date	2020-11-17
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	304250-9
ISSN	1573-2568 ; 0163-2116
ISSN (online)	1573-2568
ISSN	0163-2116
DOI	10.1007/s10620-020-06690-9
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Article: Corrigendum: LncRNA FOXP4-AS1 promotes the progression of esophageal squamous cell carcinoma by interacting with MLL2/H3K4me3 to upregulate FOXP4.

Niu, Yunfeng / Wang, Gaoyan / Li, Yan / Guo, Wei / Guo, Yanli / Dong, Zhiming

Frontiers in oncology

2022 Volume 12, Page(s) 1041732

Abstract: This corrects the article DOI: 10.3389/fonc.2021.773864.]. ...

Abstract	[This corrects the article DOI: 10.3389/fonc.2021.773864.].
Language	English
Publishing date	2022-10-14
Publishing country	Switzerland
Document type	Published Erratum
ZDB-ID	2649216-7
ISSN	2234-943X
ISSN	2234-943X
DOI	10.3389/fonc.2022.1041732
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Article: Antisense lncRNA PCNA-AS1 promotes esophageal squamous cell carcinoma progression through the miR-2467-3p/PCNA axis.

Hu, Tao / Niu, Yunfeng / Fu, Jianfeng / Dong, Zhiming / He, Dongwei / Liu, Junfeng

Open medicine (Warsaw, Poland)

2022 Volume 17, Issue 1, Page(s) 1483–1494

Abstract: Multiple studies have indicated that long non-coding RNAs are aberrantly expressed in cancers and are pivotal in developing various tumors. No studies have investigated the expression and function of long non-coding antisense RNA PCNA-AS1 in esophageal ... ...

Abstract	Multiple studies have indicated that long non-coding RNAs are aberrantly expressed in cancers and are pivotal in developing various tumors. No studies have investigated the expression and function of long non-coding antisense RNA PCNA-AS1 in esophageal squamous cell carcinoma (ESCC). In this study, the expression of PCNA-AS1 was identified by qRT-PCR. Cell function assays were used to explore the potential effect of PCNA-AS1 on ESCC progression. A prediction website was utilized to discover the relationships among PCNA-AS1, miR-2467-3p and proliferating cell nuclear antigen (PCNA). Dual luciferase reporter gene and RNA immunoprecipitation (RIP) assays were executed to verify the binding activity between PCNA-AS1, miR-2467-3p and PCNA. As a result, PCNA-AS1 was highly expressed in ESCC and was associated with patient prognosis. PCNA-AS1 overexpression strongly contributed to ESCC cell proliferation, invasion and migration. PCNA-AS1 and PCNA were positively correlated in ESCC. Bioinformatics analysis, RIP and luciferase reporter gene assays revealed that PCNA-AS1 could act as a competitive endogenous RNA to sponge miR-2467-3p, thus upregulating PCNA. In conclusion, the current outcome demonstrates that PCNA-AS1 may be a star molecule in the treatment of ESCC.
Language	English
Publishing date	2022-09-20
Publishing country	Poland
Document type	Journal Article
ZDB-ID	2829380-0
ISSN	2391-5463
ISSN	2391-5463
DOI	10.1515/med-2022-0552
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Article ; Online: Downregulation of LINC00886 facilitates epithelial-mesenchymal transition through SIRT7/ELF3/miR-144 pathway in esophageal squamous cell carcinoma.

Dong, Zhiming / Yang, Liu / Lu, Juntao / Guo, Yanli / Shen, Supeng / Liang, Jia / Guo, Wei

Clinical & experimental metastasis

2022 Volume 39, Issue 4, Page(s) 661–677

Abstract: LINC00886 has been reported to be down-regulated in laryngeal squamous cell carcinoma, and aberrant DNA methylation status of it has been screened in several tumor types. However, the roles of LINC00886 in esophageal squamous cell carcinoma (ESCC) ... ...

Abstract	LINC00886 has been reported to be down-regulated in laryngeal squamous cell carcinoma, and aberrant DNA methylation status of it has been screened in several tumor types. However, the roles of LINC00886 in esophageal squamous cell carcinoma (ESCC) remained unclarified. The present study was to investigate the expression level, epigenetic inactivation mechanisms, and functions of LINC00886 in ESCC tumorigenesis. Frequent down-regulation of LINC00886 was verified in esophageal cancer cells and ESCC tissues. There are CpG islands spanning the promoter and exon 1 regions of LINC00886 gene, and DNA hypermethylation of proximal promoter led to transcriptional inhibition of LINC00886, moreover, histone modification also played certain roles in LINC00886 transcription. LINC00886 functioned as a tumor suppressor by inhibiting proliferation, migration, and invasion of esophageal cancer cells. LINC00886 was down-regulated following TGF-β1 treatment in esophageal cancer cells and participated in epithelial-mesenchymal transition (EMT) process by regulating EMT-related genes, especially ZEB1 and ZEB2. ELF3 was proved to be one of the downstream target genes of LINC00886. LINC00886 may interact with and recruit SIRT7 to decrease acetylation level of H3K18 on the promoter region of ELF3 to inhibit its expression. Furthermore, ELF3 may promote EMT process via promoting ZEB1 and ZEB2 expression through binding to the promoter region of miR-144 to suppress miR-144-3p transcriptional activity in ESCC. These data suggest that LINC00886 may act as a tumor suppressor gene in ESCC and its down-regulation through epigenetic mechanisms promotes EMT process via SIRT7/ELF3/miR-144 pathway in ESCC. Thus, LINC00886 may be a potential therapeutic target for ESCC treatment.
MeSH term(s)	Cell Line, Tumor ; Cell Movement/genetics ; Cell Proliferation/genetics ; DNA-Binding Proteins/metabolism ; Down-Regulation ; Epithelial-Mesenchymal Transition ; Esophageal Neoplasms/genetics ; Esophageal Neoplasms/pathology ; Esophageal Squamous Cell Carcinoma/genetics ; Esophageal Squamous Cell Carcinoma/pathology ; Gene Expression Regulation, Neoplastic ; Humans ; MicroRNAs/genetics ; Proto-Oncogene Proteins c-ets/genetics ; Proto-Oncogene Proteins c-ets/metabolism ; RNA, Long Noncoding/genetics ; Sirtuins/genetics ; Sirtuins/metabolism ; Transcription Factors/genetics ; Transcription Factors/metabolism
Chemical Substances	DNA-Binding Proteins ; ELF3 protein, human ; MIRN144 microRNA, human ; MicroRNAs ; Proto-Oncogene Proteins c-ets ; RNA, Long Noncoding ; SIRT7 protein, human ; Transcription Factors ; Sirtuins (EC 3.5.1.-)
Language	English
Publishing date	2022-05-26
Publishing country	Netherlands
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	604952-7
ISSN	1573-7276 ; 0262-0898
ISSN (online)	1573-7276
ISSN	0262-0898
DOI	10.1007/s10585-022-10171-w
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