Jie Zhang, Jiaxiang Zhao^*, Pengchang Xu

CMES-Computer Modeling in Engineering & Sciences, Vol.131, No.2, pp. 905-917, 2022, DOI:10.32604/cmes.2022.019097 - 14 March 2022

Abstract Accurately, reliably and rapidly identifying intrinsically disordered (IDPs) proteins is essential as they often play important roles in various human diseases; moreover, they are related to numerous important biological activities. However, current computational methods have yet to develop a network that is sufficiently deep to make predictions about IDPs and demonstrate an improvement in performance. During this study, we constructed a deep neural network that consisted of five identical variant models, ResNet18, combined with an MLP network, for classification. Resnet18 was applied for the first time as a deep model for predicting IDPs, which allowed More >

MICHAEL HUBER^*, SANDRO CAPELLMANN

BIOCELL, Vol.46, No.5, pp. 1125-1129, 2022, DOI:10.32604/biocell.2022.018513 - 06 January 2022

Abstract Mast cells (MCs), hematopoietic cells of the myeloid lineage, are well-known for their pro-inflammatory nature contributing to the development of various allergic and autoimmune diseases. One of the characteristic receptors on MCs, the high-affinity receptor for IgE (FcεRI), is activated in its IgE-bound state via binding and crosslinking by polyvalent antigen. This results in its phosphorylation by the SRC family kinase LYN, initiating differential signaling pathways, eventually triggering immunological effector functions, such as degranulation and cytokine production. Few publications have reported on FcεRI-dependent but antigen-independent MC activation by antibody-mediated crosslinking of membrane molecules (e.g., transmembrane More >

YUKA IKEDA, NOZOMI NAGASE, AI TSUJI, KURUMI TANIGUCHI, YASUKO KITAGISHI, SATORU MATSUDA^*

BIOCELL, Vol.46, No.5, pp. 1163-1167, 2022, DOI:10.32604/biocell.2022.018177 - 06 January 2022

Abstract Stemness of cancer cells contains limitless self-renewal proliferation. For the purpose of proliferation, secretome might exert its effects via the paracrine signaling. Specific microRNAs enclosed in the secretome of cancer stem cells could regulate the expression of anti-proliferative APRO family proteins. The biological functions of APRO family proteins seems to be quite intricate, however, which might be a key modulator of microRNAs, then could regulate the proliferation of cancer cells. In addition to affecting proliferation/differentiation during cellular development, APRO family proteins might also play an imperious role on keeping homeostasis in healthy stem cells under a More >

HAKIM MANGHWAR^1,#,*, AMJAD HUSSAIN^2,#

BIOCELL, Vol.46, No.3, pp. 623-632, 2022, DOI:10.32604/biocell.2022.017316 - 18 November 2021

Abstract Plants are recurrently exposed to myriads of biotic and abiotic stresses leading to several biochemical and physiological variations that cause severe impacts on plant growth and survival. To overcome these challenges, plants activate two primary defense mechanisms, such as structural response (cell wall strengthening and waxy epidermal cuticle development) and metabolic changes, including the synthesis of anti-microbial compounds and proteins, especially the pathogenesis-related (PR) proteins. PR proteins are members of a super large family of defense proteins that exhibit antimicrobial activities. Their over-expression in plants provides tolerance to many abiotic and biotic stresses. PR proteins… More >

Sicong Zheng^#, Jingjing Song^#, Cheng Luo, Xin Li, Qiqi Ma, Beibei Jiang^*, Qinglin Liu, Yuanzhi Pan

Phyton-International Journal of Experimental Botany, Vol.91, No.3, pp. 525-539, 2022, DOI:10.32604/phyton.2022.017629 - 26 October 2021

Abstract Studying the genetic basis and regulatory mechanism of chrysanthemum lateral bud outgrowth is of great significance for reduction the production cost of cut chrysanthemum. To clarify the molecular basis of lateral bud elongation after removal of apical dominance in chrysanthemum, label-free quantification analysis was used to analyze the proteome changes after apical bud removal. Quantitative real-time PCR (qPCR) was used to analyze the changes in the expression of three plant hormone-related genes. A total of 440 differentially expressed proteins were successfully identified at three time points during the lateral bud elongation. The number of differentially… More >

FRANCISCO J. BARRANTES^#,*

BIOCELL, Vol.45, No.6, pp. 1479-1484, 2021, DOI:10.32604/biocell.2021.016502 - 01 September 2021

Abstract Cholesterol is a major lipid in biological membranes. It not only plays a structural role but also modulates a wide range of functional properties of neurotransmitter and hormone receptors and ion channels. The membraneembedded segments of the paradigm neurotransmitter receptor for acetylcholine (nAChR) contain linear sequences of amino acids with the capacity to recognize cholesterol. These cholesterol consensus domains have been designated as “CARC” and its mirror sequence “CRAC”. CARC preferentially occurs in the exoplasmic-facing membrane leaflet, and CRAC, in the cytoplasmic-facing hemilayer. Both motifs are highly conserved among ion-channel and neurotransmitter receptor proteins in… More >

ALAA OMRAN ALMAGRABI¹, YASER DAANIAL KHAN², SHER AFZAL KHAN^3,*

BIOCELL, Vol.45, No.5, pp. 1287-1298, 2021, DOI:10.32604/biocell.2021.013770 - 12 July 2021

Abstract Phosphoaspartate is one of the major components of eukaryotes and prokaryotic two-component signaling pathways, and it communicates the signal from the sensor of histidine kinase, through the response regulator, to the DNA alongside transcription features and initiates the transcription of correct response genes. Thus, the prediction of phosphoaspartate sites is critical, and its experimental identification can be expensive, time-consuming, and tedious. For this purpose, we propose iPhosD-PseAAC, a new computational model for predicting phosphoaspartate sites in a particular protein sequence using Chou’s 5-steps rues: (1) Benchmark dataset. (2) The feature extraction techniques such as pseudo More >

HUI ZHANG^1,3,#, SHIRUI CHEN^1,3,#, MENGTING LIU^1,2, YAOCHI WANG^1,2, CONG XIN^1,2, JING MA^1,3, XIAODONG ZHENG^1,2, YUANDI HUANG^1,2, BO ZHANG^3,4, XUEJUN ZHANG^1,2, LIANGDAN SUN^1,2,*, SEN YANG^1,3,*

BIOCELL, Vol.45, No.5, pp. 1321-1335, 2021, DOI:10.32604/biocell.2021.016524 - 12 July 2021

Abstract The skin is the largest organ of the human body, and its aging is visible to the naked eye. The aging rate of men and women is slightly different. This study compared the protein expression of skin samples on the curved forearms of 11 healthy women and 9 healthy men. Quantitative proteomics analysis found that the expression of epidermal proteins in men and women of the same age group was different. Compared with female skin, in male skin, 20 proteins were upregulated, and 7 proteins were downregulated. These data suggest that men and women have… More >

Fenni Lv^1,2,#, Sen Wang^3,#, Ruiping Tian¹, Peng Wang², Kang Liu^1,*

Phyton-International Journal of Experimental Botany, Vol.90, No.6, pp. 1645-1660, 2021, DOI:10.32604/phyton.2021.016947 - 28 June 2021

Abstract Villin (VLN) is considered to be one of the most important actin-binding proteins, participates in modulating the actin cytoskeleton dynamics, plays essential role in plant development and resisting adverse environments. However, systematic studies of the VLN gene family have not been reported in cotton (Gossypium). In this study, 14 GhVLNs were identified in G. hirsutum. These GhVLN genes were distributed in 6 A-subgenome chromosomes and 6 D-subgenome chromosomes of the allotetraploid upland cotton and classified into three phylogenetical groups based on the classification model of AtVLNs. In addition, the 14 GhVLN genes have highly conserved gene structure and motif… More >

Xin Li, Feiya Liao, Qiqi Ma, Beibei Jiang^*, Yuanzhi Pan, Cheng Luo, Xinjie Wang, Aining Ran

Phyton-International Journal of Experimental Botany, Vol.90, No.5, pp. 1415-1423, 2021, DOI:10.32604/phyton.2021.016143 - 27 May 2021

Abstract Chrysanthemum is one of the most important ornamental flowers in the world, and temperature has a significant influence on its field production. In the present study, differentially expressed proteins were investigated in the leaves of Dendranthema grandiflorum ‘Jinba’ under high temperature stress using label-free quantitative proteomics techniques. The expressed proteins were comparatively identified and analyzed. A total of 1,463 heat-related, differentially expressed proteins were successfully identified by Liquid Chromatography-tandem Mass Spectrometry (LC-MS/MS), and 1,463 heat-related, differentially expressed proteins were successfully identified by mass spectrometry after a high temperature treatment. Among these, 701 proteins were upregulated and… More >