Vishnu M. Dhople
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View article: Requirement of ClpX for CtsR dissociation from its operator elements upon heat stress in Bacillus subtilis
Requirement of ClpX for CtsR dissociation from its operator elements upon heat stress in Bacillus subtilis Open
A sudden increase in temperature triggers Bacillus subtilis to activate expression of stress-specific heat shock proteins of the CtsR (class three stress gene repressor) regulon to withstand the adverse conditions. Key members of this regu…
View article: Immunoglobulin sub-class levels define inter-donor plasma variability: a longitudinal dual-lab study
Immunoglobulin sub-class levels define inter-donor plasma variability: a longitudinal dual-lab study Open
Advancements in mass spectrometry have transformed plasma proteomics, allowing for high-throughput analysis of large cohorts. This study utilized the TIMES cohort, consisting of 51 healthy participants monitored monthly over 12 months, to …
View article: Requirement of ClpX for CtsR dissociation from its operator elements upon heat stress in <i>Bacillus subtilis</i>
Requirement of ClpX for CtsR dissociation from its operator elements upon heat stress in <i>Bacillus subtilis</i> Open
A sudden increase in temperature triggers Bacillus subtilis to activate expression of stress-specific heat shock proteins of the CtsR ( c lass t hree s tress gene r epressor) regulon to withstand the adverse conditions. Key members of this…
View article: MassSpecPreppy—An end‐to‐end solution for automated protein concentration determination and flexible sample digestion for proteomics applications
MassSpecPreppy—An end‐to‐end solution for automated protein concentration determination and flexible sample digestion for proteomics applications Open
In proteomics, fast, efficient, and highly reproducible sample preparation is of utmost importance, particularly in view of fast scanning mass spectrometers enabling analyses of large sample series. To address this need, we have developed …
View article: MassSpecPreppy - an end-to-end solution for automated protein concentration determination and flexible sample digestion for proteomics applications
MassSpecPreppy - an end-to-end solution for automated protein concentration determination and flexible sample digestion for proteomics applications Open
In proteomics, fast, efficient and highly reproducible sample preparation is of utmost importance, particularly in view of fast scanning mass spectrometers enabling analyses of large sample series. To address this need, we have developed t…
View article: The Vibrio vulnificus stressosome is an oxygen-sensor involved in regulating iron metabolism
The Vibrio vulnificus stressosome is an oxygen-sensor involved in regulating iron metabolism Open
Stressosomes are stress-sensing protein complexes widely conserved among bacteria. Although a role in the regulation of the general stress response is well documented in Gram-positive bacteria, the activating signals are still unclear, and…
View article: Sputum Proteome Signatures of Mechanically Ventilated Intensive Care Unit Patients Distinguish Samples with or without Anti-pneumococcal Activity
Sputum Proteome Signatures of Mechanically Ventilated Intensive Care Unit Patients Distinguish Samples with or without Anti-pneumococcal Activity Open
Respiratory pathogens like Streptococcus pneumoniae can cause severe pneumonia. Nonetheless, mechanically ventilated intensive care patients, who have a high risk of contracting pneumonia, rarely develop pneumococcal pneumonia.
View article: Additional file 16 of Y chromosomal noncoding RNAs regulate autosomal gene expression via piRNAs in mouse testis
Additional file 16 of Y chromosomal noncoding RNAs regulate autosomal gene expression via piRNAs in mouse testis Open
Additional file 16: Table S1. piRNA mapping to Pirmy and Pirmy-like RNAs in SRA database. Table showing piRNA sequences from Pirmy and Pirmy-like RNAs aligning to piRNAs in SRA databases (SRP000623 and SRP001701). The chromosomal localizat…
View article: Additional file 4 of Y chromosomal noncoding RNAs regulate autosomal gene expression via piRNAs in mouse testis
Additional file 4 of Y chromosomal noncoding RNAs regulate autosomal gene expression via piRNAs in mouse testis Open
Additional file 4: Supplementary data sheet. Annotation of the splice junctions of Pirmy isoforms with reference to genomic contig NT_166343.2: The exon-intron junctions of all 80 splice isoforms have been annotated by aligning them to the…
View article: Additional file 15 of Y chromosomal noncoding RNAs regulate autosomal gene expression via piRNAs in mouse testis
Additional file 15 of Y chromosomal noncoding RNAs regulate autosomal gene expression via piRNAs in mouse testis Open
Additional file 15: Raw data relating to Figure 6H. Sheets 1 and 2 contain the raw data for SOD and PLA2G12B along with the corresponding control used; Sheet 3 shows the computations for drawing the graph.
View article: Additional file 7 of Y chromosomal noncoding RNAs regulate autosomal gene expression via piRNAs in mouse testis
Additional file 7 of Y chromosomal noncoding RNAs regulate autosomal gene expression via piRNAs in mouse testis Open
Additional file 7: qPCR raw data relating to Figure S4. Excel sheet showing the Ct values from qPCR and the calculations for estimation of copy number of Pirmy and Pirmy-like RNAs in XYRIII and XYRIIIqdel genomes.
View article: Additional file 12 of Y chromosomal noncoding RNAs regulate autosomal gene expression via piRNAs in mouse testis
Additional file 12 of Y chromosomal noncoding RNAs regulate autosomal gene expression via piRNAs in mouse testis Open
Additional file 12: Raw data relating to Figure S5C. Excel sheet showing the Ct values from qPCR and the calculations for transcript expression levels in testes from XYRIII and XYRIIIqdel mice.
View article: From Proteomics to Personalized Medicine: The Importance of Isoflavone Dose and Estrogen Receptor Status in Breast Cancer Cells
From Proteomics to Personalized Medicine: The Importance of Isoflavone Dose and Estrogen Receptor Status in Breast Cancer Cells Open
Continuing efforts are directed towards finding alternative breast cancer chemotherapeutics, with improved safety and efficacy profiles. Soy isoflavones represent promising agents but, despite extensive research, limited information exists…
View article: Index
Index Open
View article: Y chromosomal noncoding RNAs regulate autosomal gene expression via piRNAs in mouse testis
Y chromosomal noncoding RNAs regulate autosomal gene expression via piRNAs in mouse testis Open
Majority of the genes expressed during spermatogenesis are autosomal. Mice with different deletions of Yq show sub-fertility, sterility and sperm abnormalities. The connection between Yq deletion and autosomal gene regulation is not well u…
View article: Plasma protein absolute quantification by nano-LC Q-TOF UDMSE for clinical biomarker verification
Plasma protein absolute quantification by nano-LC Q-TOF UDMSE for clinical biomarker verification Open
Background and aims. Proteome-based biomarker studies are targeting proteins that could serve as diagnostic, prognosis, and prediction molecules. In the clinical routine, immunoassays are currently used for the absolute quantification of s…
View article: Author Index
Author Index Open
View article: P582Effects of the soluble guanylate cyclase stimulator riociguat in pressure-overload induced heart failure in mice
P582Effects of the soluble guanylate cyclase stimulator riociguat in pressure-overload induced heart failure in mice Open
View article: Epigenetic suppression of human telomerase (hTERT) is mediated by the metastasis suppressor NME2 in a G-quadruplex–dependent fashion
Epigenetic suppression of human telomerase (hTERT) is mediated by the metastasis suppressor NME2 in a G-quadruplex–dependent fashion Open
Transcriptional activation of the human telomerase reverse transcriptase (hTERT) gene, which remains repressed in adult somatic cells, is critical during tumorigenesis. Several transcription factors and the epigenetic state of the <…
View article: Data on the impact of the blood sample collection methods on blood protein profiling studies
Data on the impact of the blood sample collection methods on blood protein profiling studies Open
Complete blood protein profiles of 4 different blood sample collection methods (EDTA-, heparin- and citrate plasma and serum) were investigated and the data presented herein is an extension of the research article in Ilies et al. [1]. Spec…
View article: Epigenetic suppression of human telomerase ( hTERT ) is mediated by the metastasis suppressor NME2 in a G-quadruplex–dependent fashion
Epigenetic suppression of human telomerase ( hTERT ) is mediated by the metastasis suppressor NME2 in a G-quadruplex–dependent fashion Open
Transcriptional activation of the human telomerase reverse transcriptase (hTERT) gene, which remains repressed in adult somatic cells, is critical during tumorigenesis. Several transcription factors and the epigenetic state of the hTERT pr…
View article: Proteome data from a host-pathogen interaction study with Staphylococcus aureus and human lung epithelial cells
Proteome data from a host-pathogen interaction study with Staphylococcus aureus and human lung epithelial cells Open
View article: Improved reconstitution of Trizol derived protein extracts provides high quality samples for comprehensive proteomic characterization of cell cultures
Improved reconstitution of Trizol derived protein extracts provides high quality samples for comprehensive proteomic characterization of cell cultures Open
Background: The study of RNA, DNA, and protein from the same sample is a great advantage but can be challenging. Using Trizol, one can simultaneously extract RNA, DNA, and protein, leading to efficient sample use and more comprehensive ana…
View article: Activated Protein C Ameliorates Renal Ischemia-Reperfusion Injury by Restricting Y-Box Binding Protein-1 Ubiquitination
Activated Protein C Ameliorates Renal Ischemia-Reperfusion Injury by Restricting Y-Box Binding Protein-1 Ubiquitination Open
Ischemia-reperfusion injury (IRI) is the leading cause of ARF. A pathophysiologic role of the coagulation system in renal IRI has been established, but the functional relevance of thrombomodulin (TM)-dependent activated protein C (aPC) gen…
View article: Brain Derived Neurotrophic Factor Contributes to the Cardiogenic Potential of Adult Resident Progenitor Cells in Failing Murine Heart
Brain Derived Neurotrophic Factor Contributes to the Cardiogenic Potential of Adult Resident Progenitor Cells in Failing Murine Heart Open
Comparative profiling of resident Sca-1 cells revealed elevated BDNF levels in the failing heart. Exogenous BDNF (i) stimulated migration, which might improve the homing ability of Sca-1 cells derived from the failing heart and (ii) repres…