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Article ; Online: Addendum: A case report of androgen receptor inhibitor therapy in recurrent high-grade serous ovarian cancer.

Limaye, Sewanti / Kumar, Prashant / Pragya, Ramya / Sambath, Janani / Patil, Darshana / Srinivasan, Ajay / Apurva, Sachin / Srivastava, Navin / Patil, Sanket / Patil, Revati / Datta, Vineet / Akolkar, Dadasaheb / Datar, Rajan

Oncotarget

2022 Volume 13, Page(s) 982

Language	English
Publishing date	2022-08-04
Publishing country	United States
Document type	Journal Article ; Published Erratum
ZDB-ID	2560162-3
ISSN	1949-2553 ; 1949-2553
ISSN (online)	1949-2553
ISSN	1949-2553
DOI	10.18632/oncotarget.28262
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Addendum: Liquid biopsy and multi-analyte testing guided treatment of

Nagarkar, Rajnish / Patil, Darshana / Limaye, Sewanti / Devhare, Pradip / Ghaisas, Ashwini / Srivastava, Navin / Apurwa, Sachin / Patil, Sanket / John, Jinumary / Raazi, Zarrine / Shreenivas, Aditya / Sambath, Janani / Srinivasan, Ajay / Kumar, Prashant / Akolkar, Dadasaheb / Datar, Rajan

Oncotarget

2022 Volume 13, Page(s) 1215

Language	English
Publishing date	2022-11-02
Publishing country	United States
Document type	Published Erratum
ZDB-ID	2560162-3
ISSN	1949-2553 ; 1949-2553
ISSN (online)	1949-2553
ISSN	1949-2553
DOI	10.18632/oncotarget.28296
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Article: Response to pazopanib-based combination regimen in a case of FGFR3 amplified gastric adenocarcinoma.

Limaye, Sewanti / Patil, Darshana / Akolkar, Dadasaheb / Srivastava, Navin / Patil, Revati / Apurwa, Sachin / Patil, Sanket / John, Jinumary / Gosavi, Rahul / Nesargikar, Prabhu / Kumar, Prashant / Datta, Vineet / Bose, Chirantan / Raazi, Zarrine / Srinivasan, Ajay / Datar, Rajan

Clinical case reports

2021 Volume 9, Issue 11, Page(s) e04986

Abstract: Angiogenesis inhibitors (AGI) are not presently used for the treatment of gastric cancers. This report demonstrates that angiogenesis inhibitor can be safely and effectively used in combination with cytotoxic anti-cancer agents for treatment of Gastric ... ...

Abstract	Angiogenesis inhibitors (AGI) are not presently used for the treatment of gastric cancers. This report demonstrates that angiogenesis inhibitor can be safely and effectively used in combination with cytotoxic anti-cancer agents for treatment of Gastric cancers.
Language	English
Publishing date	2021-11-07
Publishing country	England
Document type	Case Reports
ZDB-ID	2740234-4
ISSN	2050-0904
ISSN	2050-0904
DOI	10.1002/ccr3.4986
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Article ; Online: Liquid biopsy and multi-analyte testing guided treatment of

Oncotarget

2020 Volume 11, Issue 45, Page(s) 4195–4200

Abstract: Periampullary adenocarcinomas are rare neoplasm that originates from the pancreatic head, the ampulla of vater, the distal bile duct or the duodenum. Surgical resection followed by adjuvant therapy is considered as the standard of care treatment for ... ...

Abstract	Periampullary adenocarcinomas are rare neoplasm that originates from the pancreatic head, the ampulla of vater, the distal bile duct or the duodenum. Surgical resection followed by adjuvant therapy is considered as the standard of care treatment for these carcinomas. Despite several advances in diagnostics and therapeutics, only 5% of these patients have an overall survival of five years or more. Currently, there is a dearth of viable therapeutic targets for this disease. The role of HER2 in cancer biology has been studied extensively in several tumour subtypes, and HER2 based targeted therapies have shown to have therapeutic benefits on different cancers. In this case report, we present a case of HER2 positive distal common bile duct carcinoma - a subtype of periampullary carcinoma with multiple relapses where multi-analyte testing with Encyclopedic Tumor Analysis (ETA) (Exacta
Language	English
Publishing date	2020-11-10
Publishing country	United States
Document type	Case Reports
ZDB-ID	2560162-3
ISSN	1949-2553 ; 1949-2553
ISSN (online)	1949-2553
ISSN	1949-2553
DOI	10.18632/oncotarget.27793
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Article ; Online: A case report of androgen receptor inhibitor therapy in recurrent high-grade serous ovarian cancer.

Oncotarget

2020 Volume 11, Issue 46, Page(s) 4358–4363

Abstract: Ovarian cancer is common gynaecological malignancy and a leading cause of death among women. Despite the advances in treatment strategies, majority of patients present with recurrence after first- or second-line treatment. Targeted therapy that has ... ...

Abstract	Ovarian cancer is common gynaecological malignancy and a leading cause of death among women. Despite the advances in treatment strategies, majority of patients present with recurrence after first- or second-line treatment. Targeted therapy that has proven to be effective in other advanced or metastatic solid tumors have also demonstrated its efficacy in ovarian cancer. Recent studies have shown that the androgen receptor (AR) signalling is involved in pathogenicity and progression of cancer. Current observations suggest AR could be a potential target in managing the disease. In this case report we present a patient with high grade serous ovarian cancer (HGSOC) with multiple relapses with excellent disease control on AR inhibition with bicalutamide.
Language	English
Publishing date	2020-11-17
Publishing country	United States
Document type	Case Reports
ZDB-ID	2560162-3
ISSN	1949-2553 ; 1949-2553
ISSN (online)	1949-2553
ISSN	1949-2553
DOI	10.18632/oncotarget.27809
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Article ; Online: Detection of human parvovirus 4 DNA in the patients with acute encephalitis syndrome during seasonal outbreaks of the disease in Gorakhpur, India.

Arankalle, Vidya A / Srivastava, Navin / Kushwaha, Komal P / Sen, Agnibha / Ramdasi, Ashwini Y / Patel, Priyanka A / Kuthe, Sumeet / Haldipur, Bangari / Sakpal, Gajanan N / Lole, Kavita S / Ingle, Nilesh B

Emerging microbes & infections

2019 Volume 8, Issue 1, Page(s) 130–138

Abstract: Seasonal outbreaks of acute encephalitis syndrome (AES) at Gorakhpur, India have been recognized since 2006. So far, the causative agent has not been identified. Use of next generation sequencing identified human parvovirus 4 (HPARV4) sequences in a CSF/ ... ...

Abstract	Seasonal outbreaks of acute encephalitis syndrome (AES) at Gorakhpur, India have been recognized since 2006. So far, the causative agent has not been identified. Use of next generation sequencing identified human parvovirus 4 (HPARV4) sequences in a CSF/plasma pool. These sequences showed highest identity with sequences earlier identified in similar patients from south India. Real-time PCR detected HPARV4 DNA in 20/78 (25.6%) CSF and 6/31 (19.3%) plasma of AES patients. Phylogenetic analysis classified three almost complete genomes and 24 partial NS1 sequences as genotype 2A. The observed association of HPARV4 with AES needs further evaluation. ELISAs for the detection of IgM and IgG antibodies against scrub typhus (Orientia tsutsugamushi, OT) showed ∼70% IgM/IgG positivity suggestive of etiologic association. Prospective, comprehensive studies are needed to confirm association of these agents, singly or in combination with AES in Gorakhpur region.
MeSH term(s)	Acute Febrile Encephalopathy/blood ; Acute Febrile Encephalopathy/cerebrospinal fluid ; Acute Febrile Encephalopathy/epidemiology ; Acute Febrile Encephalopathy/virology ; Child ; Child, Preschool ; DNA, Viral/genetics ; Disease Outbreaks ; Female ; High-Throughput Nucleotide Sequencing/methods ; Humans ; Immunoglobulin G/blood ; Immunoglobulin M/blood ; India/epidemiology ; Infant ; Male ; Parvoviridae Infections/blood ; Parvoviridae Infections/cerebrospinal fluid ; Parvoviridae Infections/diagnosis ; Parvoviridae Infections/epidemiology ; Parvovirus/genetics ; Parvovirus/immunology ; Parvovirus/isolation & purification ; Phylogeny ; Sequence Analysis, DNA/methods
Chemical Substances	DNA, Viral ; Immunoglobulin G ; Immunoglobulin M
Language	English
Publishing date	2019-03-07
Publishing country	United States
Document type	Journal Article
ZDB-ID	2681359-2
ISSN	2222-1751 ; 2222-1751
ISSN (online)	2222-1751
ISSN	2222-1751
DOI	10.1080/22221751.2018.1563455
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Development and validation of a multigene variant profiling assay to guide targeted and immuno therapy selection in solid tumors.

PloS one

2021 Volume 16, Issue 2, Page(s) e0246048

Abstract: We present data on analytical validation of the multigene variant profiling assay (CellDx) to provide actionable indications for selection of targeted and immune checkpoint inhibitor (ICI) therapy in solid tumors. CellDx includes Next Generation ... ...

Abstract	We present data on analytical validation of the multigene variant profiling assay (CellDx) to provide actionable indications for selection of targeted and immune checkpoint inhibitor (ICI) therapy in solid tumors. CellDx includes Next Generation Sequencing (NGS) profiling of gene variants in a targeted 452-gene panel as well as status of total Tumor Mutation Burden (TMB), Microsatellite instability (MSI), Mismatch Repair (MMR) and Programmed Cell Death-Ligand 1 (PD-L1) respectively. Validation parameters included accuracy, sensitivity, specificity and reproducibility for detection of Single Nucleotide Alterations (SNAs), Copy Number Alterations (CNAs), Insertions and Deletions (Indels), Gene fusions, MSI and PDL1. Cumulative analytical sensitivity and specificity of the assay were 99.03 (95% CI: 96.54-99.88) and 99.23% (95% CI: 98.54% - 99.65%) respectively with 99.20% overall Accuracy (95% CI: 98.57% - 99.60%) and 99.7% Precision based on evaluation of 116 reference samples. The clinical performance of CellDx was evaluated in a subsequent analysis of 299 clinical samples where 861 unique mutations were detected of which 791 were oncogenic and 47 were actionable. Indications in MMR, MSI and TMB for selection of ICI therapies were also detected in the clinical samples. The high specificity, sensitivity, accuracy and reproducibility of the CellDx assay is suitable for clinical application for guiding selection of targeted and immunotherapy agents in patients with solid organ tumors.
MeSH term(s)	Genetic Variation/genetics ; High-Throughput Nucleotide Sequencing ; Humans ; Immunotherapy ; Limit of Detection ; Molecular Targeted Therapy ; Multigene Family/genetics ; Mutation ; Neoplasms/genetics ; Neoplasms/immunology ; Neoplasms/therapy
Language	English
Publishing date	2021-02-08
Publishing country	United States
Document type	Journal Article ; Validation Study
ZDB-ID	2267670-3
ISSN	1932-6203 ; 1932-6203
ISSN (online)	1932-6203
ISSN	1932-6203
DOI	10.1371/journal.pone.0246048
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Article: Comparison of PCR based marker systems for genetic analysis in different cultivars of mango.

Srivastava, Navin / Bajpai, Anju / Chandra, Ramesh / Rajan, S / Muthukumar, M / Srivastava, Manoj Kumar

Journal of environmental biology

2012 Volume 33, Issue 2, Page(s) 159–166

Abstract: Native diversity is well represented in northern and eastern parts of India for mango. We evaluated three important polymerase chain reaction (PCR) based marker techniques viz., random amplified polymorphic DNA (RAPD), inter simple sequence repeat (ISSR) ...

Abstract	Native diversity is well represented in northern and eastern parts of India for mango. We evaluated three important polymerase chain reaction (PCR) based marker techniques viz., random amplified polymorphic DNA (RAPD), inter simple sequence repeat (ISSR) and directed amplified mini satellite DNA (DAMD) and examined their suitability for depicting genetic relationships and discrimination among closely related group of 46 mango varieties grown in the different agro-ecological zones in Uttar Pradesh, Bihar and West Bengal. Nine RAPD, eleven ISSR and four DAMD primers generated 110, 160 and 43 discrete fragments, respectively, accounting for polymorphism of 87.3, 79.83 and 83.72%, respectively. Cumulative analysis of these markers resulted in comprehensive UPGMA based dendrogram where in native mangoes representing important breeding lines and varieties from Uttar Pradesh fall more or less in separate cluster, while Bihar and West Bengal cultivars represent genetically different lineage forming distinct separate cluster. The prime focus on the study was towards identification of genetic variability that warrants establishing origin and molecular evolution of mango cultivars of eastern and northern India because they are the rich gene pool for conservation. Highest diversity index (DI) and polymorphic information content (PIC) values were found in DAMD indicating it to be more informative than others. Similarly, high effective multiplex ratio (EMR) and marker index (MI) were recorded by ISSR reflecting ability to simultaneously detect a large number of bands. The study accomplished establishing genetic relationship and also DNA fingerprint development. The data is also useful for mapping studies for gene identification.
MeSH term(s)	DNA, Plant/genetics ; Genetic Markers ; Genetic Variation ; Mangifera/genetics ; Phylogeny ; Polymerase Chain Reaction/veterinary ; Random Amplified Polymorphic DNA Technique
Chemical Substances	DNA, Plant ; Genetic Markers
Language	English
Publishing date	2012-03
Publishing country	India
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	0254-8704
ISSN	0254-8704
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Article: De Novo Transcriptome Sequencing in Trigonella foenum-graecum L. to Identify Genes Involved in the Biosynthesis of Diosgenin

Vaidya, Kanak / Ghosh, Arpita / Kumar, Vinay / Chaudhary, Spandan / Srivastava, Navin / Katudia, Kalpesh / Tiwari, Tanushree / Chikara, Surendra K

The plant genome. 2013 July, v. 6, no. 2

2013

Abstract: Trigonella foenum-graecum L. (fenugreek) is a viable alternative for production of diosgenin because of its shorter growing cycle, lower production costs, and consistent yield and quality. We studied de novo transcriptome analysis along with the ... ...

Abstract	Trigonella foenum-graecum L. (fenugreek) is a viable alternative for production of diosgenin because of its shorter growing cycle, lower production costs, and consistent yield and quality. We studied de novo transcriptome analysis along with the diosgenin pathway in Trigonella foenum-graecum and identified the genes responsible for diosgenin biosynthesis. The GMV-1 variety of Trigonella foenum-graecum has been used in the present study for transcriptome analysis by sequencing messenger ribonucleic acid (RNA) with a SOLiD 4 Genome Analyzer. Deep sequencing data of the transcriptome was assembled using various assembly tools along with functional annotation of genes, and pathway analysis for diosgenin biosynthesis was deciphered. A total of 42 million high quality reads were obtained. De novo assembly was performed using Velvet at different k-mer, Oases, and CLC Genomics Workbench, which generated 20,561 transcript contigs. CAP3 was used to reduce the redundancy of contigs obtained through these assemblers. A total of 18,333 transcript contigs were functionally annotated. Kyoto Encyclopedia of Genes and Genomes pathway mapping showed that 6775 transcripts were related to plant biochemical pathways including the diosgenin biosynthesis pathway. The large number of transcripts reported in the current study will serve as a valuable genetic resource for Trigonella foenum-graecum. Sequence information of the genes that were involved in diosgenin biosynthesis could be used for metabolic engineering of Trigonella foenum-graecum to increase diosgenin content.
Keywords	Trigonella foenum-graecum ; biochemical pathways ; biosynthesis ; diosgenin ; fenugreek ; genes ; high-throughput nucleotide sequencing ; messenger RNA ; metabolic engineering ; production costs ; transcriptome ; transcriptomics
Language	English
Dates of publication	2013-07
Publishing place	Crop Science Society of America
Document type	Article
Note	epub
ZDB-ID	2375444-8
ISSN	1940-3372 ; 0011-183X
ISSN (online)	1940-3372
ISSN	0011-183X
DOI	10.3835/plantgenome2012.08.0021
Database	NAL-Catalogue (AGRICOLA)

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Article: Genetic diversity and population structure analysis of mango (Mangifera indica) cultivars assessed by microsatellite markers

Ravishankar, Kundapura V / Bommisetty, Padmakar / Bajpai, Anju / Srivastava, Navin / Mani, Bellam H / Vasugi, Chinnaiyan / Rajan, Shailendra / Dinesh, Makki R

Trees. 2015 June, v. 29, no. 3

2015

Abstract: KEY MESSAGE : SSR marker characterization of Indian mango cultivars revealed two distinct groups of populations with geographical affiliation. Six SSR loci with low PI have been identified as universal markers for mango characterization. In this study, ... ...

Abstract	KEY MESSAGE : SSR marker characterization of Indian mango cultivars revealed two distinct groups of populations with geographical affiliation. Six SSR loci with low PI have been identified as universal markers for mango characterization. In this study, genetic diversity and population structure of mango cultivars were assessed by employing fourteen simple sequence repeat markers, with high polymorphic information content. A set of 387 mango accessions from different regions of India was used. Model-based structure analysis revealed the presence of two subpopulations comprising the cultivars from ‘South-West’ region and ‘North-East’ region. A similar clustering pattern was observed in the dendrogram analysis, with two major groups identified that were further sub-grouped based on their genetic relatedness. Analysis of molecular variance showed a significant variance component among and within mango sub-populations derived from the structure analysis. The proportion of genetic differentiation among individuals within the two populations was found to be significant with a FSTvalue of 0.248. The extent of genetic diversity was found to be higher in case of ‘South and West’ population than ‘North and East’ population. Six SSR loci with low probability of identity values have been chosen as universal markers for mango characterization. Our results highlight genetic diversity encompassed by mango cultivars and genetic distinctness of ‘South-West’ and ‘North-East’ region cultivars.
Keywords	Mangifera indica ; cultivars ; genetic markers ; genetic relationships ; genetic variation ; loci ; mangoes ; microsatellite repeats ; population structure ; probability ; trees ; variance ; India
Language	English
Dates of publication	2015-06
Size	p. 775-783.
Publishing place	Springer-Verlag
Document type	Article
ZDB-ID	90595-1
ISSN	1432-2285 ; 0931-1890
ISSN (online)	1432-2285
ISSN	0931-1890
DOI	10.1007/s00468-015-1155-x
Database	NAL-Catalogue (AGRICOLA)

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