Stabilized COre gene and Pathway Election uncovers pan-cancer shared pathways and a cancer-specific driver

P Kossinna, W Cai, X Lu, CS Shemanko, Q Zhang - Science advances, 2022 - science.org
Approaches systematically characterizing interactions via transcriptomic data usually follow
two systems:(i) coexpression network analyses focusing on correlations between genes and …

Network as a language for precision medicine

L Farina - Annali dell'Istituto Superiore di Sanità, 2021 - annali.iss.it
The article takes as a starting point the observation of a deep and long-standing gap
between the views of biologists/physicians and that of physicists/data scientists when …

[HTML][HTML] Genome-wide DNA methylation and RNA-seq analyses identify genes and pathways associated with doxorubicin resistance in a canine diffuse large B-cell …

CH Hsu, H Tomiyasu, CH Liao, CS Lin - Plos one, 2021 - journals.plos.org
Doxorubicin resistance is a major challenge in the successful treatment of canine diffuse
large B-cell lymphoma (cDLBCL). In the present study, MethylCap-seq and RNA-seq were …

[HTML][HTML] Transcriptome analysis revealed hub genes for muscle growth in Indian major carp, Catla catla (Hamilton, 1822)

V Mohindra, LM Chowdhury, N Chauhan, RK Maurya… - Genomics, 2022 - Elsevier
Catla (Catla catla) is the fastest growing Indian major carp species and forms an important
component of the freshwater aquaculture systems in the Indian sub-continent. The molecular …

[HTML][HTML] Bioinformatics and network biology approach to identifying type 2 diabetes genes and pathways that influence the progression of breast cancer

MS Sarkar, MM Mia, M Al Amin, MS Hossain, MZ Islam - Heliyon, 2023 - cell.com
Breast cancer is the second most prevalent malignancy affecting women. Postmenopausal
women breast tumor is one of the top causes of death in women, accounting for 23% of …

[HTML][HTML] Identification of key genes as early warning signals of acute myocardial infarction based on weighted gene correlation network analysis and dynamic network …

C Song, Z Qiao, L Chen, J Ge, R Zhang… - Frontiers in …, 2022 - frontiersin.org
Purpose The specific mechanisms and biomarkersunderlying the progression of stable
coronary artery disease (CAD) to acute myocardial infarction (AMI) remain unclear. The …

scGIR: deciphering cellular heterogeneity via gene ranking in single-cell weighted gene correlation networks

F Xu, H Hu, H Lin, J Lu, F Cheng, J Zhang… - Briefings in …, 2024 - academic.oup.com
Single-cell RNA sequencing (scRNA-seq) has emerged as a powerful tool for investigating
cellular heterogeneity through high-throughput analysis of individual cells. Nevertheless …

The GRN concept as a guide for evolutionary developmental biology

C Feigin, S Li, J Moreno… - Journal of Experimental …, 2023 - Wiley Online Library
Organismal phenotypes result largely from inherited developmental programs, usually
executed during embryonic and juvenile life stages. These programs are not blank slates …

[HTML][HTML] Transcriptional modulation of the hippo signaling pathway by drugs used to treat bipolar disorder and schizophrenia

B Panizzutti, CC Bortolasci, B Spolding… - International Journal of …, 2021 - mdpi.com
Recent reports suggest a link between positive regulation of the Hippo pathway with bipolar
disorder (BD), and the Hippo pathway is known to interact with multiple other signaling …

[HTML][HTML] Chromosome groups 5, 6 and 7 harbor major quantitative trait loci controlling root traits in bread wheat (Triticum aestivum L.)

T Halder, H Liu, Y Chen, G Yan… - Frontiers in Plant …, 2023 - frontiersin.org
Identifying genomic regions for root traits in bread wheat can help breeders develop climate-
resilient and high-yielding wheat varieties with desirable root traits. This study used the …