Guojun Zhang

Hebei Normal University of Science and Technology

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Wu‐Jun Gao

Henan Normal University

Chuan‐Liang Deng

Henan Normal University

Shufen Li

Chinese Academy of Sciences

Haiying Xu

Beijing Academy of Agricultural and Forestry Sciences

Lei Sun

Chinese Academy of Agricultural Sciences

Ailing Yan

Beijing Academy of Agricultural and Forestry Sciences

Xuejin Zhang

University of Illinois Urbana-Champaign

Huiling Wang

Henan Provincial People's Hospital

Jinhong Yuan

Henan Normal University

Jiancheng Ren

Beijing Academy of Agricultural and Forestry Sciences

Cooperative Institutions

Chinese Academy of Sciences

China Agricultural University

Ministry of Agriculture and Rural Affairs

University of Chinese Academy of Sciences

Sun Yat-sen University

Shantou University

Chinese Academy of Medical Sciences & Peking Union Medical College

Henan Normal University

Cancer Hospital of Shantou University Medical College

Beijing Academy of Agricultural and Forestry Sciences

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Identification of QTLs and candidate genes controlling berry size in table grape by integrating QTL and transcriptomic analysis

Scientia Horticulturae (2022)

Huiling Wang Ailing Yan Xiaoyue Wang Guojun Zhang Zhenhua Liu

Candidate gene

10.1016/j.scienta.2022.111403

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Citations (11)

Regulation of Autophagy-Related Protein and Cell Differentiation by High Mobility Group Box 1 Protein in Adipocytes

Mediators of Inflammation (2016)

Huanhuan Feng Lili Yu Guojun Zhang Guoyan Liu Can Yang

High mobility group box 1 protein (HMGB1) is a molecule related to the development of inflammation. Autophagy is vital to maintain cellular homeostasis and protect against inflammation of adipocyte injury. Our recent work focused on the relationship of HMGB1 and autophagy in 3T3-L1 cells. In vivo experimental results showed that, compared with the normal-diet group, the high-fat diet mice displayed an increase in adipocyte size in the epididymal adipose tissues. The expression levels of HMGB1 and LC3II also increased in epididymal adipose tissues in high-fat diet group compared to the normal-diet mice. The in vitro results indicated that HMGB1 protein treatment increased LC3II formation in 3T3-L1 preadipocytes in contrast to that in the control group. Furthermore, LC3II formation was inhibited through HMGB1 knockdown by siRNA. Treatment with the HMGB1 protein enhanced LC3II expression after 2 and 4 days but decreased the expression after 8 and 10 days among various differentiation stages of adipocytes. By contrast, FABP4 expression decreased on the fourth day and increased on the eighth day. Hence, the HMGB1 protein modulated autophagy-related proteins and lipid-metabolism-related genes in adipocytes and could be a new target for treatment of obesity and related metabolic diseases.

HMGB1

3T3-L1

10.1155/2016/1936386

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"Aishenmeigui": an extremely early maturing seedless grape with muscat flavor

Vitis (2015)

Haiying Xu Lei Sun Guojun Zhang Ai-Ling Yan

Introduction: In northern China, the fresh market needs early maturing table grape cultivars, especially with the character of seedlessness and muscat flavor. The 'Aishenmeigui' grape (Vitis vinifera L.) is a seedless cultivar which matures extremely early. The purple reddish skin and sweet muscat flavor attract a lot of customers. The cultivar was released in 1995. Since then it has been spreading in some provinces in northern China, showing very competitive market potential when growing in high tunnels and greenhouses.

Table grape

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Alcohol acyltransferase gene and ester precursors differentiate composition of volatile esters in three interspecific hybrids of Vitis labrusca × V. Vinifera during berry development period

Food Chemistry (2019)

Xu Qian Yaran Liu Guojun Zhang Ailing Yan Huiling Wang

Ethyl ester

Acyltransferases

Phenylacetate

10.1016/j.foodchem.2019.05.104

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Citations (28)

Critical protein GAPDH and its regulatory mechanisms in cancer cells.

DOAJ (DOAJ: Directory of Open Access Journals) (2015)

Jinying Zhang Fan Zhang Chao‐Qun Hong Armando E. Giuliano Xiaojiang Cui

Glyceraldehyde-3-phosphate dehydrogenase (GAPDH), initially identified as a glycolytic enzyme and considered as a housekeeping gene, is widely used as an internal control in experiments on proteins, mRNA, and DNA. However, emerging evidence indicates that GAPDH is implicated in diverse functions independent of its role in energy metabolism; the expression status of GAPDH is also deregulated in various cancer cells. One of the most common effects of GAPDH is its inconsistent role in the determination of cancer cell fate. Furthermore, studies have described GAPDH as a regulator of cell death; other studies have suggested that GAPDH participates in tumor progression and serves as a new therapeutic target. However, related regulatory mechanisms of its numerous cellular functions and deregulated expression levels remain unclear. GAPDH is tightly regulated at transcriptional and posttranscriptional levels, which are involved in the regulation of diverse GAPDH functions. Several cancer-related factors, such as insulin, hypoxia inducible factor-1 (HIF-1), p53, nitric oxide (NO), and acetylated histone, not only modulate GAPDH gene expression but also affect protein functions via common pathways. Moreover, posttranslational modifications (PTMs) occurring in GAPDH in cancer cells result in new activities unrelated to the original glycolytic function of GAPDH. In this review, recent findings related to GAPDH transcriptional regulation and PTMs are summarized. Mechanisms and pathways involved in GAPDH regulation and its different roles in cancer cells are also described.

Glyceraldehyde 3-phosphate dehydrogenase

10.7497/j.issn.2095-3941.2014.0019

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Citations (172)

Ruminal in situ disappearance kinetics of six nutritive ingredients in leaves and stems of young tetraploid black locust in growing steers

Forestry Studies in China (2009)

Jin-zhong Jiang Peng Sun Yun Li Guojun Zhang Jianhua Liu

Robinia

Neutral Detergent Fiber

10.1007/s11632-009-0026-1

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$f$-MICL: Understanding and Generalizing InfoNCE-based Contrastive Learning

arXiv (Cornell University) (2024)

Yiwei Lu Guojun Zhang Sun Sun Hongyu Guo Yaoliang Yu

In self-supervised contrastive learning, a widely-adopted objective function is InfoNCE, which uses the heuristic cosine similarity for the representation comparison, and is closely related to maximizing the Kullback-Leibler (KL)-based mutual information. In this paper, we aim at answering two intriguing questions: (1) Can we go beyond the KL-based objective? (2) Besides the popular cosine similarity, can we design a better similarity function? We provide answers to both questions by generalizing the KL-based mutual information to the $f$-Mutual Information in Contrastive Learning ($f$-MICL) using the $f$-divergences. To answer the first question, we provide a wide range of $f$-MICL objectives which share the nice properties of InfoNCE (e.g., alignment and uniformity), and meanwhile result in similar or even superior performance. For the second question, assuming that the joint feature distribution is proportional to the Gaussian kernel, we derive an $f$-Gaussian similarity with better interpretability and empirical performance. Finally, we identify close relationships between the $f$-MICL objective and several popular InfoNCE-based objectives. Using benchmark tasks from both vision and natural language, we empirically evaluate $f$-MICL with different $f$-divergences on various architectures (SimCLR, MoCo, and MoCo v3) and datasets. We observe that $f$-MICL generally outperforms the benchmarks and the best-performing $f$-divergence is task and dataset dependent.

Contrastive analysis

10.48550/arxiv.2402.10150

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Development and Characterization of Novel EST-SSRs from Larix gmelinii and Their Cross-Species Transferability

Molecules (2015)

Guojun Zhang Zhenzhen Sun Di Zhou Min Xiong Wang Xian

A set of 899 L. gmelinii expression sequence tags (ESTs), available at the National Center of Biotechnology Information (NCBI), was employed to address the feasibility on development of simple sequence repeat (SSR) markers for Larch species. Totally, 634 non-redundant unigenes including 145 contigs and 489 singletons were finally identified and mainly involved in biosynthetic, metabolic processes and response to stress according to BLASTX results, gene ontology (GO) categories and Kyoto Encyclopedia of Genes and Genomes (KEGG) maps. Approximately 11.7% (74) unigenes contained 90 candidate SSRs, which were mainly trinucleotides (29, 32.2%) and dinucleotides (26, 28.9%). A relatively high frequency of SSRs was respectively found in the Open Reading Frame (ORF, about 54.4%) and 5′-untranslated region (5′-UTR, 31.2%), while a low frequency was observed in the 3′-untranslated region (3′-UTR, about 14.4%). Of the 45 novel EST-SSRs markers, nine were found to be polymorphic at two L. gmelinii populations. The number of alleles per locus (Na) ranged from two to four, and the observed (Ho) and expected (He) heterozygosity values were 0.200–0.733 and 0.408–0.604, respectively. The inbreeding coefficients (FIS) for all loci were more than zero except Lg41. Most of these 9EST-SSR markers were transferable to its related species L. kaempferi, L. principis-rupprechtii and L. olgensis. These novel EST-SSRs will be useful for further research on comparative genomics, genetic resources conservation and molecular breeding in larch trees.

KEGG

Transferability

10.3390/molecules200712469

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Citations (10)

The G1 phase optical reporter serves as a sensor of CDK4/6 inhibition in vivo

International Journal of Biological Sciences (2021)

Cuiping Guo Yuxian Guo Jingjing Liu Yiyang Gao Min Wei

Visualization of cell-cycle G1 phase for monitoring the early response of cell cycle specific drug remains challenging.In this study, we developed genetically engineered bioluminescent reporters by fusing full-length cyclin E to the C-terminal luciferase (named as CycE-Luc and CycE-Luc2).Next, HeLa cell line or an ER-positive breast cancer cell line MCF-7 was transfected with these reporters.In cellular assays, the bioluminescent signal of CycE-Luc and CycE-Luc2 was accumulated in the G1 phase and decreased after exiting from the G1 phase.The expression of CycE-Luc and CycE-Luc2 fusion protein was regulated in a cell cycle-dependent manner, which was mediated by proteasome ubiquitination and degradation.Next, our in vitro and in vivo experiment confirmed that the cell cycle arrested by anti-cancer agents (palbociclib or 5-FU) was monitored quantitatively and dynamically by bioluminescent imaging of these reporters in a real-time and non-invasive manner.Thus, these optical reporters could reflect the G1 phase alternation of cell cycle, and might become a future clinically translatable approach for predicting and monitoring response to palbociclib in patients with ER-positive breast cancer.

Palbociclib

HeLa

Cyclin B1

Bioluminescence imaging

G1 phase

10.7150/ijbs.52101

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Citations (2)

Scorpion venom component III inhibits cell proliferation by modulating NF-κB activation in human leukemia cells

Experimental and Therapeutic Medicine (2012)

Xiangfeng Song Guojun Zhang Aiping Sun Jiqiang Guo Zhongwei Tian

Scorpion venom contains various groups of compounds that exhibit anticancer activity against a variety of malignancies through a poorly understood mechanism. While the aberrant activation of nuclear factor κB (NF‑κB) has been linked with hematopoietic malignancies, we hypothesized that scorpion venom mediates its effects by modulating the NF‑κB signaling pathway. In the present study, we examined the effects of scorpion venom component III (SVCIII) on the human leukemia cell lines THP‑1 and Jurkat and focused on the NF‑κB signaling pathway. Our results showed that SVCIII inhibited cell proliferation, caused cell cycle arrest at G1 phase and inhibited the expression of cell cycle regulatory protein cyclin D1 in a dose-dependent manner in THP‑1 and Jurkat cells. SVCIII also suppressed the constitutive NF‑κB activation through inhibition of the phosphorylation and degradation of IκBα. NF‑κB luciferase reporter activity was also inhibited by SVCIII. Our data suggest that SVCIII, a natural compound, may exert its antiproliferative effects by inhibiting the activation of NF‑κB and, thus, has potential use in the treatment of hematopoietic malignancies, alone or in combination with other agents.

Jurkat cells

IκBα

Scorpion Venoms

10.3892/etm.2012.548

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Citations (16)