Proteomic profiling of retinoblastoma by high resolution mass spectrometry

Danda, Ravikanth; Ganapathy, Kalaivani; Sathe, Gajanan; Madugundu, Anil K.; Ramachandran, Sharavan; Krishnan, Uma Maheswari; Khetan, Vikas; Rishi, Pukhraj; Prasad, T. S. Keshava; Pandey, Akhilesh; Krishnakumar, Subramanian; Gowda, Harsha; Elchuri, Sailaja

doi:10.1186/s12014-016-9128-7

Cited by 29 publications

(27 citation statements)

References 39 publications

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“…IGF2BP1 was showed to be overexpressed in both retinoblastoma and choriocarcinoma. In retinoblastoma, the gene promotes tumor cell proliferation and migration [ 99 ]. In choriocarcinoma cell lines, the depletion of ribosomal protein S6 kinase (RSK2) or protein phosphatase methylesterase 1 (PPME1) inhibits cell migration and invasion, which is similar to that after knockdown of IGF2BP1 that controls RSK2 and PPME expression, whereas it did not influence cellular proliferation and morphology [ 100 ], indicating that IGF2BP1 promotes choriocarcinoma cell migration and invasion partly via the effect of RSK2 and PPME1.…”

Section: Aberrant Expression and The Roles Of Igf2bp1 In Cancersmentioning

confidence: 99%

Insulin-like growth factor 2 mRNA-binding protein 1 (IGF2BP1) in cancer

et al. 2018

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The insulin-like growth factor-2 mRNA-binding protein 1 (IGF2BP1) plays essential roles in embryogenesis and carcinogenesis. IGF2BP1 serves as a post-transcriptional fine-tuner regulating the expression of some essential mRNA targets required for the control of tumor cell proliferation and growth, invasion, and chemo-resistance, associating with a poor overall survival and metastasis in various types of human cancers. Therefore, IGF2BP1 has been traditionally regarded as an oncogene and potential therapeutic target for cancers. Nevertheless, a few studies have also demonstrated its tumor-suppressive role. However, the details about the contradictory functions of IGF2BP1 are unclear. The growing numbers of microRNAs (miRNAs) and long non-coding RNAs (lncRNAs) have been identified as its direct regulators, during tumor cell proliferation, growth, and invasion in multiple cancers. Thus, the mechanisms of post-transcriptional modulation of gene expression mediated by IGF2BP1, miRNAs, and lncRNAs in determining the fate of the development of tissues and organs, as well as tumorigenesis, need to be elucidated. In this review, we summarized the tissue distribution, expression, and roles of IGF2BP1 in embryogenesis and tumorigenesis, and focused on modulation of the interconnectivity between IGF2BP1 and its targeted mRNAs or non-coding RNAs (ncRNAs). The potential use of inhibitors of IGF2BP1 and its related pathways in cancer therapy was also discussed.

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Section: Aberrant Expression and The Roles Of Igf2bp1 In Cancersmentioning

confidence: 99%

Insulin-like growth factor 2 mRNA-binding protein 1 (IGF2BP1) in cancer

et al. 2018

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“…Besides, proteins and non-coding RNAs, specifically miRNAs of exosomes, are identified, isolated, and characterized for their role in various pathological conditions [ 93 , 94 ]. In the recent study, the proteins of exosomes are characterized by the RB tumor tissue and from the RB vitreous seeding (RBVS) in the vitreous humor [ 95 ]. In RBVS exosomes, the proteins involved in the invasion and metastasis are identified, regulating functions, such as extracellular matrix (ECM) remodeling and metabolism of glucose and amino acids, etc.…”

Section: Retinoblastoma and Exosomesmentioning

confidence: 99%

“…In RBVS exosomes, the proteins involved in the invasion and metastasis are identified, regulating functions, such as extracellular matrix (ECM) remodeling and metabolism of glucose and amino acids, etc. [ 95 ]. Besides, to prognosticate RB, less invasive procedures, such as a liquid biopsy, would serve as the best option for children and are less painful than the invasive procedures, such as bone marrow aspiration or lumbar puncture, for the detection of metastasis.…”

Section: Retinoblastoma and Exosomesmentioning

confidence: 99%

Exosomes: Insights from Retinoblastoma and Other Eye Cancers

Lande

Gupta

Ranjan

et al. 2020

IJMS

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Exosomes, considered as cell debris or garbage bags, have been later characterized as nanometer-sized extracellular double-membrane lipid bilayer bio-vesicles secreted by the fusion of vesicular bodies with the plasma membrane. The constituents and the rate of exosomes formation differ in different pathophysiological conditions. Exosomes are also observed and studied in different parts of the eye, like the retina, cornea, aqueous, and vitreous humor. Tear fluid consists of exosomes that are shown to regulate various cellular processes. The role of exosomes in eye cancers, especially retinoblastoma (RB), is not well explored, although few studies point towards their presence. Retinoblastoma is an intraocular tumor that constitutes 3% of cases of cancer in children. Diagnosis of RB may require invasive procedures, which might lead to the spread of the disease to other parts. Due to this reason, better ways of diagnosis are being explored. Studies on the exosomes in RB tumors and serum might help designing better diagnostic approaches for RB. In this article, we reviewed studies on exosomes in the eye, with a special emphasis on RB. We also reviewed miRNAs expressed in RB tumor, serum, and cell lines and analyzed the targets of these miRNAs from the proteins identified in the RB tumor exosomes. hsa-miR-494 and hsa-miR-9, upregulated and downregulated, respectively in RB, have the maximum number of targets. Although oppositely regulated, they share the same targets in the proteins identified in RB tumor exosomes. Overall this review provides the up-to-date progress in the area of eye exosome research, with an emphasis on RB.

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“…In this section, we detail how these datasets could be utilized to make testable predictions into the molecular reprograming of Retinoblastoma cells. Microarray transcriptional profiling and proteomics analysis of Retinoblastoma tumors have identified a number of putative metabolic changes within the tumor cells ( Kooi et al, 2015 ; Danda et al, 2016 ). From these studies, dysregulated lipid metabolism, mitochondrial energy metabolism and photoreceptor metabolism were implicated as key processes linked to Retinoblastoma progression.…”

Section: Metabolic Pathway Predictionmentioning

confidence: 99%

RNA-Sequencing of Primary Retinoblastoma Tumors Provides New Insights and Challenges Into Tumor Development

2018

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Retinoblastoma is rare tumor of the retina caused by the homozygous loss of the Retinoblastoma 1 tumor suppressor gene (RB1). Loss of the RB1 protein, pRB, results in de-regulated activity of the E2F transcription factors, chromatin changes and developmental defects leading to tumor development. Extensive microarray profiles of these tumors have enabled the identification of genes sensitive to pRB disruption, however, this technology has a number of limitations in the RNA profiles that they generate. The advent of RNA-sequencing has enabled the global profiling of all of the RNA within the cell including both coding and non-coding features and the detection of aberrant RNA processing events. In this perspective, we focus on discussing how RNA-sequencing of rare Retinoblastoma tumors will build on existing data and open up new area’s to improve our understanding of the biology of these tumors. In particular, we discuss how the RB-research field may be to use this data to determine how RB1 loss results in the expression of; non-coding RNAs, causes aberrant RNA processing events and how a deeper analysis of metabolic RNA changes can be utilized to model tumor specific shifts in metabolism. Each section discusses new opportunities and challenges associated with these types of analyses and aims to provide an honest assessment of how understanding these different processes may contribute to the treatment of Retinoblastoma.

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Proteomic profiling of retinoblastoma by high resolution mass spectrometry

Cited by 29 publications

References 39 publications

Insulin-like growth factor 2 mRNA-binding protein 1 (IGF2BP1) in cancer

Insulin-like growth factor 2 mRNA-binding protein 1 (IGF2BP1) in cancer

Exosomes: Insights from Retinoblastoma and Other Eye Cancers

RNA-Sequencing of Primary Retinoblastoma Tumors Provides New Insights and Challenges Into Tumor Development

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