Long non-coding RNAs: mechanisms, experimental, and computational approaches in identification, characterization, and their biomarker potential in cancer

A Chowdhary, V Satagopam, R Schneider - Frontiers in Genetics, 2021 - frontiersin.org
Long non-coding RNAs are diverse class of non-coding RNA molecules> 200 base pairs of
length having various functions like gene regulation, dosage compensation, epigenetic …

Noncoding RNA circuitry in melanoma onset, plasticity, and therapeutic response

K Grafanaki, I Grammatikakis, A Ghosh… - Pharmacology & …, 2023 - Elsevier
Melanoma, the cancer of the melanocyte, is the deadliest form of skin cancer with an
aggressive nature, propensity to metastasize and tendency to resist therapeutic intervention …

Single-cell transcriptomic landscape of human blood cells

X Xie, M Liu, Y Zhang, B Wang, C Zhu… - National science …, 2021 - academic.oup.com
High throughput single-cell RNA-seq has been successfully implemented to dissect the
cellular and molecular features underlying hematopoiesis. However, an elaborate and …

Benchmarking UMI-based single-cell RNA-seq preprocessing workflows

Y You, L Tian, S Su, X Dong, JS Jabbari, PF Hickey… - Genome Biology, 2021 - Springer
Background Single-cell RNA-sequencing (scRNA-seq) technologies and associated
analysis methods have rapidly developed in recent years. This includes preprocessing …

Genomic data imputation with variational auto-encoders

YL Qiu, H Zheng, O Gevaert - GigaScience, 2020 - academic.oup.com
Background As missing values are frequently present in genomic data, practical methods to
handle missing data are necessary for downstream analyses that require complete data …

Integrative pan-cancer genomic and transcriptomic analyses of refractory metastatic cancer

Y Pradat, J Viot, AA Yurchenko, K Gunbin, L Cerbone… - Cancer discovery, 2023 - AACR
Metastatic relapse after treatment is the leading cause of cancer mortality, and known
resistance mechanisms are missing for most treatments administered to patients. To bridge …

Comparative transcriptomic analysis of THP‐1‐derived macrophages infected with Mycobacterium tuberculosis H37Rv, H37Ra and BCG

W Pu, C Zhao, J Wazir, Z Su, M Niu… - Journal of Cellular …, 2021 - Wiley Online Library
Tuberculosis (TB) remains a worldwide healthcare concern, and the exploration of the host‐
pathogen interaction is essential to develop therapeutic modalities and strategies to control …

StCoExpNet: a global co-expression network analysis facilitates identifying genes underlying agronomic traits in potatoes

VS Bonthala, B Stich - Plant Cell Reports, 2024 - Springer
Potato (Solanum tuberosum L.) is the world's most crucial non-cereal food crop and ranks
third in food production after wheat and rice. Despite the availability of several potato …

[HTML][HTML] Identification of long non-coding RNA-mRNA interactions and genome-wide lncRNA annotation in animal transcriptome profiling

YB Park, JM Kim - Journal of Animal Science and Technology, 2023 - ncbi.nlm.nih.gov
Protein-translated mRNA analysis has been extensively used to determine the function of
various traits in animals. The non-coding RNA (ncRNA), which was known to be non …

[HTML][HTML] Non-coding natural antisense transcripts: Analysis and application

JC Krappinger, L Bonstingl, K Pansy, K Sallinger… - Journal of …, 2021 - Elsevier
Non-coding natural antisense transcripts (ncNATs) are regulatory RNA sequences that are
transcribed in the opposite direction to protein-coding or non-coding transcripts. These …