Gene regulatory network inference resources: A practical overview

D Mercatelli, L Scalambra, L Triboli, F Ray… - Biochimica et Biophysica …, 2020 - Elsevier
Transcriptional regulation is a fundamental molecular mechanism involved in almost every
aspect of life, from homeostasis to development, from metabolism to behavior, from reaction …

[HTML][HTML] Microfluidics facilitates the development of single-cell RNA sequencing

Y Pan, W Cao, Y Mu, Q Zhu - Biosensors, 2022 - mdpi.com
Single-cell RNA sequencing (scRNA-seq) technology provides a powerful tool for
understanding complex biosystems at the single-cell and single-molecule level. The past …

Analysis of molecular mechanism of erxian decoction in treating osteoporosis based on formula optimization model

L Yang, L Fan, K Wang, Y Chen, L Liang… - Oxidative medicine …, 2021 - Wiley Online Library
Osteoporosis (OP) is a highly prevalent orthopedic condition in postmenopausal women and
the elderly. Currently, OP treatments mainly include bisphosphonates, receptor activator of …

[HTML][HTML] Integrated modeling framework reveals co-regulation of transcription factors, miRNAs and lncRNAs on cardiac developmental dynamics

S Li, B Yan, B Wu, J Su, J Lu, TW Lam… - Stem Cell Research & …, 2023 - Springer
Aims Dissecting complex interactions among transcription factors (TFs), microRNAs
(miRNAs) and long noncoding RNAs (lncRNAs) are central for understanding heart …

Integrated transcriptomic and regulatory network analyses identify microRNA-200c as a novel repressor of human pluripotent stem cell-derived cardiomyocyte …

EN Poon, B Hao, D Guan, M Jun Li, J Lu… - Cardiovascular …, 2018 - academic.oup.com
Aims MicroRNAs (miRNAs) are crucial for the post-transcriptional control of protein-
encoding genes and together with transcription factors (TFs) regulate gene expression; …

[HTML][HTML] A novel network pharmacology strategy to decode mechanism of Lang Chuang Wan in treating systemic lupus erythematosus

Y Gao, K Wang, P Wang, X Li, J Chen, B Zhou… - Frontiers in …, 2020 - frontiersin.org
Complex disease is a cascade process which is associated with functional abnormalities in
multiple proteins and protein-protein interaction (PPI) networks. One drug one target has not …

[HTML][HTML] A novel strategy for decoding and validating the combination principles of huanglian jiedu decoction from multi-scale perspective

KX Wang, Y Gao, WX Gong, XF Ye, LY Fan… - Frontiers in …, 2020 - frontiersin.org
Traditional Chinese medicine (TCM) formulas treat complex diseases through combined
botanical drugs which follow specific compatibility rules to reduce toxicity and increase …

[HTML][HTML] BGRMI: A method for inferring gene regulatory networks from time-course gene expression data and its application in breast cancer research

LF Iglesias-Martinez, W Kolch, T Santra - Scientific Reports, 2016 - nature.com
Reconstructing gene regulatory networks (GRNs) from gene expression data is a
challenging problem. Existing GRN reconstruction algorithms can be broadly divided into …

The current status and challenges in computational analysis of genomic big data

Y Qin, HK Yalamanchili, J Qin, B Yan, J Wang - Big data research, 2015 - Elsevier
DNA, RNA and protein are three major kinds of biological macromolecules with up to billions
of basic elements in such biological organisms as human or mouse. They function at …

CirGRDB: a database for the genome-wide deciphering circadian genes and regulators

X Li, L Shi, K Zhang, W Wei, Q Liu, F Mao… - Nucleic Acids …, 2018 - academic.oup.com
Circadian rhythms govern various kinds of physiological and behavioral functions of the
living organisms, and disruptions of the rhythms are highly detrimental to health. Although …