Ganesan Arunkumar
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View article: MetaChrome: An Open-Source, User-Friendly Tool for Automated Metaphase Chromosome Analysis
MetaChrome: An Open-Source, User-Friendly Tool for Automated Metaphase Chromosome Analysis Open
DNA Fluorescence In Situ Hybridization (FISH) is an essential technique to study chromosome biology and genetics, enabling precise visualization of specific genomic loci to study structural abnormalities, gene mapping, and chromosomal rear…
View article: Oncogenic lncRNA transgene transcription modulates epigenetic memory at a naïve chromosomal locus
Oncogenic lncRNA transgene transcription modulates epigenetic memory at a naïve chromosomal locus Open
Maintaining genome integrity is essential for the proper functioning and development of organisms. An intriguing aspect is that neocentromeres can form at non-centromeric sites. CENP-A, a key epigenetic marker of centromeres, is often misl…
View article: Linker Histone H1.5 Contributes to Centromere Integrity in Human Cells
Linker Histone H1.5 Contributes to Centromere Integrity in Human Cells Open
Mammalian H1 linker histones comprise a group of 11 non-allelic variants which have key roles in modulating chromatin. H1 variant specific genomic distribution contributes to fine tuning regulation of gene expression and chromatin architec…
View article: Oncogenic lncRNA transgene transcription modulates epigenetic memory at a naïve chromosomal locus
Oncogenic lncRNA transgene transcription modulates epigenetic memory at a naïve chromosomal locus Open
Maintaining genome integrity is crucial for the proper functioning and development of organisms. One intriguing aspect of genome integrity is the formation and function of neocentromeres at non-centromeric sites. CENP-A, a centromere-speci…
View article: Epigenetic Modifier Drug Valproic Acid Enhances Cancer Metaphase Chromosome Elasticity and Electron Transport: An Atomic Force Microscopy Approach
Epigenetic Modifier Drug Valproic Acid Enhances Cancer Metaphase Chromosome Elasticity and Electron Transport: An Atomic Force Microscopy Approach Open
The structural integrity of the chromosomes is essential to every functional process within eukaryotic nuclei. Chromosomes are DNA-histone complexes that are essential for the inheritance of genetic information to the offspring, and any de…
View article: Valproic Acid Treatment Enhances Chromosome Flexibility and Electron Transport in MCF7 Breast Cancer Cells
Valproic Acid Treatment Enhances Chromosome Flexibility and Electron Transport in MCF7 Breast Cancer Cells Open
The structural integrity of the chromosomes is essential to every functional process within the eukaryotic nuclei. Chromosomes are DNA-histone complexes essential for the inheritance of genetic information to the offspring and any defect i…
View article: Group Heteroscedasticity - A Silent Saboteur of Power and False Discovery in RNA-Seq Differential Expression
Group Heteroscedasticity - A Silent Saboteur of Power and False Discovery in RNA-Seq Differential Expression Open
Despite the availability of several high-profile, state-of-the-art methods, analyzing bulk RNA-Seq data continues to face significant challenges. Evidence from recent studies has highlighted that popular differential expression (DE) tools,…
View article: Synergistic effect of graphene oxide and coloidalnano-silica on the microstructure and strength properties of fly ash blended cement composites
Synergistic effect of graphene oxide and coloidalnano-silica on the microstructure and strength properties of fly ash blended cement composites Open
Cement concretes are widely used and very effective in the construction industry. Micro-scale problems such as porosity, micro-cracks, etc. Many researchers have done research work globally to address this issue. This research investigatio…
View article: Analyzing the mechanical and material characteristics of cellular lightweight foam concrete and optimizing design mix through linear regression analysis
Analyzing the mechanical and material characteristics of cellular lightweight foam concrete and optimizing design mix through linear regression analysis Open
This paper explores the use of novel lightweight concrete as an alternative material, focusing on Cellular Lightweight Foam Concrete (CLFC), renowned for its strength, low weight, thermal insulation, and sustainability. The study encompass…
View article: LncRNAs: the good, the bad, and the unknown
LncRNAs: the good, the bad, and the unknown Open
Long non-coding RNAs (lncRNAs) are significant contributors in maintaining genomic integrity through epigenetic regulation. LncRNAs can interact with chromatin-modifying complexes in both cis and trans pathways, drawing them to specific ge…
View article: Breaking the aging epigenetic barrier
Breaking the aging epigenetic barrier Open
Aging is an inexorable event occurring universally for all organisms characterized by the progressive loss of cell function. However, less is known about the key events occurring inside the nucleus in the process of aging. The advent of ch…
View article: Oncogenic lncRNAs alter epigenetic memory at a fragile chromosomal site in human cancer cells
Oncogenic lncRNAs alter epigenetic memory at a fragile chromosomal site in human cancer cells Open
Chromosome instability is a critical event in cancer progression. Histone H3 variant CENP-A plays a fundamental role in defining centromere identity, structure, and function but is innately overexpressed in several types of solid cancers. …
View article: Centromeric Transcription: A Conserved Swiss-Army Knife
Centromeric Transcription: A Conserved Swiss-Army Knife Open
In most species, the centromere is comprised of repetitive DNA sequences, which rapidly evolve. Paradoxically, centromeres fulfill an essential function during mitosis, as they are the chromosomal sites wherein, through the kinetochore, th…
View article: Association between functional TERT promoter polymorphism rs2853669 and cervical cancer risk in South Indian women
Association between functional TERT promoter polymorphism rs2853669 and cervical cancer risk in South Indian women Open
A single nucleotide polymorphism (SNP) rs2853669 (A>G) in the telomerase reverse transcriptase (TERT) promoter has recently been reported in chr5:1,295,349 T>C (T349C), and was shown to be associated with increased cancer risk and poor sur…
View article: Faculty Opinions recommendation of Circular ecDNA promotes accessible chromatin and high oncogene expression.
Faculty Opinions recommendation of Circular ecDNA promotes accessible chromatin and high oncogene expression. Open
Oncogenes are commonly amplified on extrachromosomal DNA particles (ecDNA) in cancer 1,2 , but our understanding of the structure of ecDNA and its impact on gene regulation is limited.We integrated ultrastructural imaging, long range-optic…
View article: Comprehensive analysis of aberrantly expressed lncRNAs and construction of ceRNA network in gastric cancer
Comprehensive analysis of aberrantly expressed lncRNAs and construction of ceRNA network in gastric cancer Open
Gastric cancer remains fifth most common cancer often diagnosed at an advanced stage and is the second leading cause of cancer-related death worldwide. Long non-coding RNAs (lncRNAs) involved in various cellular pathways are essential for …
View article: LncRNA<i>OIP5-AS1</i>is overexpressed in undifferentiated oral tumors and integrated analysis identifies as a downstream effector of stemness-associated transcription factors
LncRNA<i>OIP5-AS1</i>is overexpressed in undifferentiated oral tumors and integrated analysis identifies as a downstream effector of stemness-associated transcription factors Open
Long non-coding RNAs (lncRNAs) play an important role in the regulation of key cellular processes in early development and in cancer. LncRNA Oip5-as1 facilitates stem cell self-renewal in mouse by sponging mmu-miR-7 and modulating NANOG le…
View article: Dysregulation of miR-200 family microRNAs and epithelial-mesenchymal transition markers in oral squamous cell carcinoma
Dysregulation of miR-200 family microRNAs and epithelial-mesenchymal transition markers in oral squamous cell carcinoma Open
MicroRNAs (miRNAs) are reported to function as a major component in the cellular signaling circuit, which regulates epithelial-mesenchymal transition (EMT). Dysregulation of the microRNA-200 (miR-200) family and EMT-associated genes enable…
View article: Expression profiling of long non-coding RNA identifies linc-RoR as a prognostic biomarker in oral cancer
Expression profiling of long non-coding RNA identifies linc-RoR as a prognostic biomarker in oral cancer Open
Oral squamous cell carcinoma is the most aggressive cancer that is associated with high recurrence, metastasis, and poor treatment outcome. Dysregulation of long non-coding RNAs has been shown to promote tumor growth and metastasis in seve…
View article: Long non-coding RNA CCAT1 is overexpressed in oral squamous cell carcinomas and predicts poor prognosis
Long non-coding RNA CCAT1 is overexpressed in oral squamous cell carcinomas and predicts poor prognosis Open
Oral squamous cell carcinoma (SCC) is the most common malignant tumor in India with 5-year survival rates totaling <50%. Recently, dysregulation of non-coding RNA was reported as a potential hallmark of carcinogenesis. Colon Cancer Associa…
View article: Genotyping of <i>CYP2C9</i> and <i>VKORC1</i> polymorphisms predicts south Indian patients with deep vein thrombosis as fast metabolizers of warfarin/acenocoumarin
Genotyping of <i>CYP2C9</i> and <i>VKORC1</i> polymorphisms predicts south Indian patients with deep vein thrombosis as fast metabolizers of warfarin/acenocoumarin Open
Deep vein thrombosis (DVT) is a life-threatening disease. Warfarin and acenocoumarol are anticoagulants used to treat DVT and vary among individuals in terms of treatment response/toxicity. Single nucleotide polymorphisms (SNPs) in CYP2C9 …
View article: Oral squamous cell carcinoma: microRNA expression profiling and integrative analyses for elucidation of tumourigenesis mechanism
Oral squamous cell carcinoma: microRNA expression profiling and integrative analyses for elucidation of tumourigenesis mechanism Open
The identified differentially expressed miRNAs and signaling pathways deregulated in OSCC have implications for the development of novel therapeutic strategies. To the best of our knowledge, this is the first report to show the association…
View article: Additional file 3: of Oral squamous cell carcinoma: microRNA expression profiling and integrative analyses for elucidation of tumourigenesis mechanism
Additional file 3: of Oral squamous cell carcinoma: microRNA expression profiling and integrative analyses for elucidation of tumourigenesis mechanism Open
Microarray data providing the expression matrix and normalization values for samples of Batch I, Batch II, Batch I and II merged and the outcome of unsupervised and supervised clustering analysis. (XLSX 2362Â kb)
View article: Down Regulation of miR-34a and miR-143 May Indirectly Inhibit p53 in Oral Squamous Cell Carcinoma: a Pilot Study
Down Regulation of miR-34a and miR-143 May Indirectly Inhibit p53 in Oral Squamous Cell Carcinoma: a Pilot Study Open
Low levels of miR-380-5p and miR-504 that directly target the 3'UTR of TP53 suggest that p53 may not be repressed by these two miRNAs in OSCC. On the other hand, low levels of miR-34a or miR-143 may relieve MDM4 and SIRT1 or MDM2 respectiv…