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525 results on '"Vikrant, Kumar"'

1. ASXLs binding to the PHD2/3 fingers of MLL4 provides a mechanism for the recruitment of BAP1 to active enhancers

Author

Zhang, Yi, Xie, Guojia, Lee, Ji-Eun, Zandian, Mohamad, Sudarshan, Deepthi, Estavoyer, Benjamin, Benz, Caroline, Viita, Tiina, Asgaritarghi, Golareh, Lachance, Catherine, Messmer, Clémence, Simonetti, Leandro, Sinha, Vikrant Kumar, Lambert, Jean-Philippe, Chen, Yu-Wen, Wang, Shu-Ping, Ivarsson, Ylva, Affar, El Bachir, Côté, Jacques, Ge, Kai, and Kutateladze, Tatiana G.

Published
2024
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10. MLL4 binds TET3

Author

Becht, Dustin C., Mohid, Sk Abdul, Lee, Ji-Eun, Zandian, Mohamad, Benz, Caroline, Biswas, Soumi, Sinha, Vikrant Kumar, Ivarsson, Ylva, Ge, Kai, Zhang, Yi, and Kutateladze, Tatiana G.

Published
2024
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13. ExoClock Project: An open platform for monitoring the ephemerides of Ariel targets with contributions from the public

Author

Kokori, Anastasia, Tsiaras, Angelos, Edwards, Billy, Rocchetto, Marco, Tinetti, Giovanna, Wünsche, Anaël, Paschalis, Nikolaos, Agnihotri, Vikrant Kumar, Bachschmidt, Matthieu, Bretton, Marc, Caines, Hamish, Caló, Mauro, Casali, Roland, Crow, Martin, Dawes, Simon, Deldem, Marc, Deligeorgopoulos, Dimitrios, Dymock, Roger, Evans, Phil, Falco, Carmelo, Ferratfiat, Stephane, Fowler, Martin, Futcher, Stephen, Guerra, Pere, Hurter, Francois, Jones, Adrian, Kang, Wonseok, Kim, Taewoo, Lee, Richard, Lopresti, Claudio, Marino, Antonio, Mallonn, Matthias, Mortari, Fabio, Morvan, Mario, Mugnai, Lorenzo V., Nastasi, Alessandro, Perroud, Valère, Pereira, Cédric, Phillips, Mark, Pintr, Pavel, Raetz, Manfred, Regembal, Francois, Savage, John, Sedita, Danilo, Sioulas, Nick, Strikis, Iakovos, Thurston, Geoffrey, Tomacelli, Andrea, and Tomatis, Alberto

Subjects
Astrophysics - Earth and Planetary Astrophysics, Astrophysics - Instrumentation and Methods for Astrophysics
Abstract

The Ariel mission will observe spectroscopically around 1000 exoplanets to further characterise their atmospheres. For the mission to be as efficient as possible, a good knowledge of the planets' ephemerides is needed before its launch in 2028. While ephemerides for some planets are being refined on a per-case basis, an organised effort to collectively verify or update them when necessary does not exist. In this study, we introduce the ExoClock project, an open, integrated and interactive platform with the purpose of producing a confirmed list of ephemerides for the planets that will be observed by Ariel. The project has been developed in a manner to make the best use of all available resources: observations reported in the literature, observations from space instruments and, mainly, observations from ground-based telescopes, including both professional and amateur observatories. To facilitate inexperienced observers and at the same time achieve homogeneity in the results, we created data collection and validation protocols, educational material and easy to use interfaces, open to everyone. ExoClock was launched in September 2019 and now counts over 140 participants from more than 15 countries around the world. In this release, we report the results of observations obtained until the 15h of April 2020 for 119 Ariel candidate targets. In total, 632 observations were used to either verify or update the ephemerides of 83 planets. Additionally, we developed the Exoplanet Characterisation Catalogue (ECC), a catalogue built in a consistent way to assist the ephemeris refinement process. So far, the collaborative open framework of the ExoClock project has proven to be highly efficient in coordinating scientific efforts involving diverse audiences. Therefore, we believe that it is a paradigm that can be applied in the future for other research purposes, too., Comment: 33 pages, 3 figures, 3 tables, accepted for publication in Experimental Astronomy, data available through OSF at DOI: 10.17605/OSF.IO/3W7HM

Published
2020
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14. GJ 3470 c: A Saturn-like Exoplanet Candidate in the Habitable Zone of GJ 3470

Author

Scott, Phillip, Walter, Bradley, Ye, Quanzhi, Mitchell, David, Heiland, Leo, Gao, Xing, Palado, Alejandro, Otabek, Burkhonov, Casal, Jesus Delgado, Hill, Colin, Garcia, Alberto, Alton, Kevin B., Ogmen, Yenal, Agnihotri, Vikrant Kumar, and Caballero, Alberto

Subjects
Astrophysics - Earth and Planetary Astrophysics
Abstract

We report the discovery of a new exoplanet candidate orbiting the star GJ 3470. A total of three transits were detected by OKSky Observatory: the first one on December 23, 2019, the second one on February 27, 2020, and the third one on May 3, 2020. We estimate an average transit depth of 0.84 percent and duration of 1 hour and 2 minutes. Based on this parameter, we calculate a radius of 9.2 Earth radii, which would correspond to the size of a Saturn-like exoplanet. We also estimate an orbital period of 66 days that places the exoplanet inside the habitable zone, near the orbital distance at Earths equivalent radiation. Another twelve potential transits that do not belong to GJ 3470 b are also reported. Despite our candidate for GJ 3470 c still has to be confirmed by the scientific community, the discovery represents a turning point in exoplanet research for being the first candidate discovered through an international project managed by amateur astronomers.

Published
2020

19. Target-based drug discovery: Applications of fluorescence techniques in high throughput and fragment-based screening

Author

Vikrant Kumar, Puneeth Kumar Chunchagatta Lakshman, Thazhe Kootteri Prasad, Kavyashree Manjunath, Sneha Bairy, Akshaya S. Vasu, B. Ganavi, Subbarao Jasti, and Neelagandan Kamariah

Subjects
Target-based drug discovery, High throughput screening, Fragment based ligand discovery, Fluorescence-based assays, Fluorescence polarization, Förster resonance energy transfer, Science (General), Q1-390, Social sciences (General), H1-99
Abstract

Target-based discovery of first-in-class therapeutics demands an in-depth understanding of the molecular mechanisms underlying human diseases. Precise measurements of cellular and biochemical activities are critical to gain mechanistic knowledge of biomolecules and their altered function in disease conditions. Such measurements enable the development of intervention strategies for preventing or treating diseases by modulation of desired molecular processes. Fluorescence-based techniques are routinely employed for accurate and robust measurements of in-vitro activity of molecular targets and for discovering novel chemical molecules that modulate the activity of molecular targets. In the current review, the authors focus on the applications of fluorescence-based high throughput screening (HTS) and fragment-based ligand discovery (FBLD) techniques such as fluorescence polarization (FP), Förster resonance energy transfer (FRET), fluorescence thermal shift assay (FTSA) and microscale thermophoresis (MST) for the discovery of chemical probe to exploring target’s role in disease biology and ultimately, serve as a foundation for drug discovery. Some recent advancements in these techniques for compound library screening against important classes of drug targets, such as G-protein-coupled receptors (GPCRs) and GTPases, as well as phosphorylation- and acetylation-mediated protein-protein interactions, are discussed. Overall, this review presents a landscape of how these techniques paved the way for the discovery of small-molecule modulators and biologics against these targets for therapeutic benefits.

Published
2024
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20. Proteomics and Bioinformatics Investigations Link Overexpression of FGF8 and Associated Hub Genes to the Progression of Ovarian Cancer and Poor Prognosis

Author

Vikrant Kumar, Anil Kumar Tomar, Ayushi Thapliyal, and Savita Yadav

Subjects
Biochemistry, QD415-436
Abstract

Ovarian cancer’s asymptomatic nature, high recurrence rate, and resistance to platinum-based chemotherapy highlight the need to find and characterize new diagnostic and therapeutic targets. While prior studies have linked aberrant expression of fibroblast growth factor 8 (FGF8) to various cancer types, its precise role has remained elusive. Recently, we observed that FGF8 silencing reduces the cancer-promoting properties of ovarian cancer cells, and thus, this study aimed to understand how FGF8 regulates the development of ovarian cancer. LC-MS/MS-based quantitative proteomics analysis identified 418 DEPs, and most of them were downregulated in FGF8-silenced ovarian cancer cells. Many of these DEPs are associated with cancer progression and unfavorable prognosis. To decipher the biological significance of DEPs, bioinformatics analyses encompassing gene ontology, pathway analysis, protein-protein interaction networks, and expression analysis of hub genes were carried out. Hub genes identified in the FGF8 protein network were upregulated in ovarian cancer compared to controls and were linked to poor prognosis. Subsequently, the expression of hub genes was correlated with patient survival and regulation of the tumor microenvironment. Conclusively, FGF8 and associated hub genes help in the progression of ovarian cancer, and their overexpression may lead to higher immune infiltration, poor prognosis, and poor survival.

Published
2024
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27. Biosensor-integrated transposon mutagenesis reveals rv0158 as a coordinator of redox homeostasis in Mycobacterium tuberculosis

Author

Somnath Shee, Reshma T Veetil, Karthikeyan Mohanraj, Mayashree Das, Nitish Malhotra, Devleena Bandopadhyay, Hussain Beig, Shalini Birua, Shreyas Niphadkar, Sathya Narayanan Nagarajan, Vikrant Kumar Sinha, Chandrani Thakur, Raju S Rajmani, Nagasuma Chandra, Sunil Laxman, Mahavir Singh, Areejit Samal, Aswin N Seshasayee, and Amit Singh

Subjects
Mycobacterium tuberculosis, redoxosome, endogenous ROS, lipid metabolism, methylcitrate cycle, carbon source, Medicine, Science, Biology (General), QH301-705.5
Abstract

Mycobacterium tuberculosis (Mtb) is evolutionarily equipped to resist exogenous reactive oxygen species (ROS) but shows vulnerability to an increase in endogenous ROS (eROS). Since eROS is an unavoidable consequence of aerobic metabolism, understanding how Mtb manages eROS levels is essential yet needs to be characterized. By combining the Mrx1-roGFP2 redox biosensor with transposon mutagenesis, we identified 368 genes (redoxosome) responsible for maintaining homeostatic levels of eROS in Mtb. Integrating redoxosome with a global network of transcriptional regulators revealed a hypothetical protein (Rv0158) as a critical node managing eROS in Mtb. Disruption of rv0158 (rv0158 KO) impaired growth, redox balance, respiration, and metabolism of Mtb on glucose but not on fatty acids. Importantly, rv0158 KO exhibited enhanced growth on propionate, and the Rv0158 protein directly binds to methylmalonyl-CoA, a key intermediate in propionate catabolism. Metabolite profiling, ChIP-Seq, and gene-expression analyses indicate that Rv0158 manages metabolic neutralization of propionate toxicity by regulating the methylcitrate cycle. Disruption of rv0158 enhanced the sensitivity of Mtb to oxidative stress, nitric oxide, and anti-TB drugs. Lastly, rv0158 KO showed poor survival in macrophages and persistence defect in mice. Our results suggest that Rv0158 is a metabolic integrator for carbon metabolism and redox balance in Mtb.

Published
2023
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