LncRTPred: Predicting RNA –RNA mode of interaction mediated by lncRNA
AbstractLong non-coding RNAs (lncRNAs) play a significant role in various biological processes. Hence, it is utmost important to elucidate their functions in order to understand the molecular mechanism of a complex biological system. This versatile RNA molecule has diverse modes of interaction, one of which constitutes lncRNA –mRNA interaction. Hence, identifying its target mRNA is essential to understand the function of an lncRNA explicitly. Existing lncRNA target prediction tools mainly adopt thermodynamics approach. Large execution time and inability to perform real-time prediction limit their usage. Further, lack o f...
Source: IUBMB Life - August 24, 2023 Category: Research Authors: Gourab Das,
Troyee Das,
Sibun Parida,
Zhumur Ghosh Tags: RESEARCH ARTICLE Source Type: research
Long ‐term abuse of caffeine sodium benzoate induces endothelial cells injury and leads to coagulation dysfunction
AbstractOur hospital admitted a patient who had difficulty in coagulation even after blood replacement, and the patient had abused caffeine sodium benzoate (CSB) for more than 20 years. Hence, we aimed to explore whether CSB may cause dysfunction in vascular endothelial cells and its possible mechanism. Low, medium, and high concentrations of serum of long-term CSB intake patients were used to treat HUVECs, with LPS as the positive control. MTT and CCK8 were performed to verify CSB's damaging effect on HUVECs. The expression of ET-1, ICAM-1, VCAM-1, and E-selectin were measured by ELISA. TUNEL assay and Matrigel tube fo...
Source: IUBMB Life - August 20, 2023 Category: Research Authors: Tianwei Yu,
Hongwei Wang,
Rong Guo,
Jianzhong Liu,
Lili Tian,
Suri Guga,
Weixin Li,
Huiying Zhao,
Feiya Suo,
Hao Yang,
Quanzhi Yan Tags: RESEARCH ARTICLE Source Type: research
RNA processing and degradation mechanisms shaping the mitochondrial transcriptome of budding yeasts
AbstractYeast mitochondrial genes are expressed as polycistronic transcription units that contain RNAs from different classes and show great evolutionary variability. The promoters are simple, and transcriptional control is rudimentary. Posttranscriptional mechanisms involving RNA maturation, stability, and degradation are thus the main force shaping the transcriptome and determining the expression levels of individual genes. Primary transcripts are fragmented by tRNA excision by RNase P and tRNase Z, additional processing events occur at the dodecamer site at the 3 ′ end of protein-coding sequences. groups I and II intr...
Source: IUBMB Life - August 19, 2023 Category: Research Authors: Pawel Golik Tags: SPECIAL ISSUE Source Type: research
Issue Information
(Source: IUBMB Life)
Source: IUBMB Life - August 15, 2023 Category: Research Tags: ISSUE INFORMATION Source Type: research
Cover Image
On the Cover: Schematic representation of LINC01376 mediated effects observed in the present study by Peng et al.; Article first published: 27 March 2023;https://doi.org/10.1002/iub.2721 (Source: IUBMB Life)
Source: IUBMB Life - August 14, 2023 Category: Research Tags: COVER IMAGE Source Type: research
Issue Information
(Source: IUBMB Life)
Source: IUBMB Life - August 14, 2023 Category: Research Tags: ISSUE INFORMATION Source Type: research
Cover Image
On the Cover: Schematic representation of LINC01376 mediated effects observed in the present study by Peng et al.; Article first published: 27 March 2023;https://doi.org/10.1002/iub.2721 (Source: IUBMB Life)
Source: IUBMB Life - August 14, 2023 Category: Research Tags: COVER IMAGE Source Type: research
RetroGREAT signaling: The lessons we learn from yeast
AbstractThe mitochondrial retrograde signaling (RTG) pathway of communication from mitochondria to the nucleus was first studied in yeastSaccharomyces cerevisiae. It rewires cellular metabolism according to the mitochondrial state by reprogramming nuclear gene expression in response to mitochondrial triggers. The main players involved in retrograde signaling are the Rtg1 and Rtg3 transcription factors, and a set of positive and negative regulators, including the Rtg2, Mks1, Lst8, and Bmh1/2 proteins. Retrograde regulation is integrated with other processes, including stress response, osmoregulation, and nutrient sensing th...
Source: IUBMB Life - August 11, 2023 Category: Research Authors: Thi Hoang Diu Bui,
Karolina Labedzka ‐Dmoch Tags: SPECIAL ISSUE Source Type: research
Machine learning ‐based establishment and validation of age‐related patterns for predicting prognosis in non‐small cell lung cancer within the context of the tumor microenvironment
In this study, we explored the effects of aging on NSCLC using 307 genes associated with human aging from the Human Ageing Genomic Resources. We identified 53 aging-associated genes that significantly correlate with overall survival of NSCLC patients, including the clinically validated gene BUB1B. Furthermore, we developed an aging-associated enrichment score to categorize patients based on their aging subtypes and evaluated their prognostic and therapeutic response values in LC. Our analyses yielded two aging-associated subtypes with unique profiles in the tumor microenvironment, demonstrating varying responses to immunot...
Source: IUBMB Life - August 10, 2023 Category: Research Authors: Zeming Ma,
Haibo Han,
Zhiwei Zhou,
Shijie Wang,
Fan Liang,
Liang Wang,
Hong Ji,
Yue Yang,
Jinfeng Chen Tags: RESEARCH ARTICLE Source Type: research
