Shovik Bandyopadhyay

ORCID: 0000-0003-3919-3914
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About
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Research Areas
  • CAR-T cell therapy research
  • Single-cell and spatial transcriptomics
  • Acute Myeloid Leukemia Research
  • Biosimilars and Bioanalytical Methods
  • Immune cells in cancer
  • Acute Lymphoblastic Leukemia research
  • Molecular Biology Techniques and Applications
  • T-cell and B-cell Immunology
  • Cancer, Lipids, and Metabolism
  • Bone and Joint Diseases
  • Viral Infectious Diseases and Gene Expression in Insects
  • Epigenetics and DNA Methylation
  • Chronic Myeloid Leukemia Treatments
  • Radiopharmaceutical Chemistry and Applications
  • Hematopoietic Stem Cell Transplantation
  • Immunotherapy and Immune Responses
  • Bone Metabolism and Diseases
  • Cancer Genomics and Diagnostics
  • Myeloproliferative Neoplasms: Diagnosis and Treatment
  • Immune Cell Function and Interaction
  • Lung Cancer Treatments and Mutations
  • Bone health and treatments
  • CRISPR and Genetic Engineering
  • Health, Environment, Cognitive Aging
  • Mesenchymal stem cell research

University of Pennsylvania
2021-2025

Children's Hospital of Philadelphia
2023-2025

M S Ramaiah University of Applied Sciences
2024

California University of Pennsylvania
2024

University of Virginia Children's Hospital
2024

St. Jude Children's Research Hospital
2024

SickKids Foundation
2024

Hospital for Sick Children
2024

Great Ormond Street Hospital
2024

University College London
2024

Cancer cells are known to execute reprogramed metabolism of glucose, amino acids and lipids. Here, we report a significant role cholesterol in cancer metastasis. By using label-free Raman spectromicroscopy, found an aberrant accumulation cholesteryl ester human pancreatic specimens cell lines, mediated by acyl-CoA acyltransferase-1 (ACAT-1) enzyme. Expression ACAT-1 showed correlation with poor patient survival. Abrogation esterification, either inhibitor or shRNA knockdown, significantly...

10.1038/onc.2016.168 article EN cc-by Oncogene 2016-05-02

The adoptive transfer of chimeric antigen receptor (CAR) T cells represents a breakthrough in clinical oncology, yet both between- and within-patient differences autologously derived are major contributor to therapy failure. To interrogate the molecular determinants CAR T-cell persistence, we extensively characterized premanufacture 71 patients with B-cell malignancies on trial receive anti-CD19 therapy. We performed RNA-sequencing analysis sorted subsets from all patients, followed by...

10.1158/2159-8290.cd-20-1677 article EN Cancer Discovery 2021-04-05

Non-hematopoietic cells are essential contributors to hematopoiesis. However, heterogeneity and spatial organization of these in human bone marrow remain largely uncharacterized. We used single-cell RNA sequencing (scRNA-seq) profile 29,325 non-hematopoietic discovered nine transcriptionally distinct subtypes. simultaneously profiled 53,417 hematopoietic predicted their interactions with subsets. employed co-detection by indexing (CODEX) spatially over 1.2 million cells. integrated scRNA-seq...

10.1016/j.cell.2024.04.013 article EN cc-by-nc-nd Cell 2024-05-06
Denis Schapiro Clarence Yapp Artem Sokolov Sheila M. Reynolds Chen Yuan and 95 more Damir Sudar Yubin Xie Jeremy Muhlich Raquel Arias-Camison Sarah Arena Adam Taylor Milen Nikolov Madison Tyler Jia‐Ren Lin Erik Burlingame Daniel L. Abravanel Samuel Achilefu Foluso O. Ademuyiwa Andrew Adey Rebecca Aft Khung Jun Ahn Fatemeh Alikarami‬ Shahar Alon Orr Ashenberg Ethan Baker Gregory J. Baker Shovik Bandyopadhyay Peter O. Bayguinov Jennifer Beane Winston R. Becker Kathrin M. Bernt Courtney B. Betts Julie Bletz Tim Blosser Adrienne Boire Genevieve M. Boland Edward S. Boyden Elmar Bucher Raphael Bueno Qiuyin Cai Francesco Cambuli Joshua D. Campbell Song Cao Wagma Caravan Ronan Chaligné Joseph M. Chan Sara E. Chasnoff Deyali Chatterjee Alyce A. Chen Changya Chen Chia‐Hui Chen Bob Chen Feng Chen Siqi Chen Milan G. Chheda Koei Chin Hyeyoung Cho Jaeyoung Chun Luis Cisneros Robert J. Coffey Ofir Cohen Graham A. Colditz Kristina A. Cole Natalie B. Collins Daniel J. Cotter Lisa M. Coussens Shannon Coy Allison Creason Yi Cui Daniel Cui Zhou Christina Curtis Sherri R. Davies Ino de Bruijn Toni Delorey Emek Demir David G. DeNardo Dinh Diep Li Ding John F. DiPersio Steven M. Dubinett Timothy J. Eberlein James A. Eddy Edward D. Esplin Rachel E. Factor Kayvon Fatahalian Heidi S. Feiler José M. Fernández Andrew J. Fields Ryan C. Fields James A. J. Fitzpatrick James M. Ford Jeff Franklin Bob Fulton Giorgio Gaglia Luciano Galdieri Karuna Ganesh Jianjiong Gao Benjamin L. Gaudio Gad Getz David L. Gibbs

10.1038/s41592-022-01415-4 article EN Nature Methods 2022-03-01

Colony-stimulating factor 1 (Csf1) is an essential growth for osteoclast progenitors and important regulator bone resorption. It remains elusive which mesenchymal cells synthesize Csf1 to stimulate osteoclastogenesis. We recently identified a novel cell population, marrow adipogenic lineage precursors (MALPs), in bone. Compared other subpopulations, MALPs expressed at much higher level this expression was further increased during aging. To investigate its role, we constructed MALP-deficient...

10.7554/elife.82112 article EN cc-by eLife 2023-02-13

Since the advent of tyrosine kinase inhibitors (TKIs) such as imatinib, nilotinib, and dasatinib, chronic myelogenous leukemia (CML) prognosis has improved greatly. However, ~30–40% patients develop resistance to imatinib therapy. Although most is caused by mutations in BCR-ABL domain, 50–85% these absence new mutations. In cases, targeting other pathways may be needed regain clinical response. Using label-free Raman spectromicroscopy, we evaluated a number cell lines discovered an aberrant...

10.1371/journal.pone.0179558 article EN cc-by PLoS ONE 2017-07-18

Abstract The bone marrow is the organ responsible for blood production. Diverse non-hematopoietic cells contribute essentially to hematopoiesis. However, these and their spatial organization remain largely uncharacterized as they have been technically challenging study in humans. Here, we used fresh femoral head samples performed single-cell RNA sequencing (scRNA-Seq) profile 29,325 enriched discover nine transcriptionally distinct subtypes. We next employed CO-detection by inDEXing (CODEX)...

10.1101/2024.03.14.585083 preprint EN cc-by-nc bioRxiv (Cold Spring Harbor Laboratory) 2024-03-16

Abstract Bone resorption by osteoclasts is a critical step in bone remodeling, process important for maintaining homeostasis and repairing injured bone. We previously identified marrow mesenchymal subpopulation, adipogenic lineage precursors (MALPs), showed that its production of RANKL stimulates young mice using Adipoq-Cre . To exclude developmental defects to investigate the role MALPs-derived adult bone, we generated inducible reporter ( Adipoq-CreER Tomato ) deficient RANKLflox/flox,...

10.1038/s41413-025-00405-4 article EN cc-by Bone Research 2025-03-19

Abstract High-risk neuroblastoma, a leading cause of pediatric cancer mortality, exhibits substantial intratumoral heterogeneity, contributing to therapeutic resistance. To understand tumor microenvironment evolution during therapy, we longitudinally profiled 22 patients with high-risk neuroblastoma before and after induction chemotherapy using single-nucleus RNA ATAC sequencing whole-genome sequencing. This revealed profound shifts in immune cell subpopulations therapy identified...

10.1038/s41588-025-02158-6 article EN cc-by Nature Genetics 2025-04-14

Summary Pediatric high-grade glioma (pHGG) is an incurable central nervous system malignancy that a leading cause of pediatric cancer death. While pHGG shares many similarities to adult glioma, it increasingly recognized as molecularly distinct, yet highly heterogeneous disease. In this study, we longitudinally profiled diverse cohort 16 patients before and after standard therapy through single-nucleus RNA ATAC sequencing, whole-genome CODEX spatial proteomics capture the evolution tumor...

10.1101/2024.03.06.583588 preprint EN cc-by-nc-nd bioRxiv (Cold Spring Harbor Laboratory) 2024-03-08

Refractoriness to initial chemotherapy and relapse after remission are the main obstacles curing T cell acute lymphoblastic leukemia (T-ALL). While tumor heterogeneity has been implicated in treatment failure, cellular genetic factors contributing resistance remain unknown. Here we linked subpopulations with clinical outcome, created an atlas of healthy pediatric hematopoiesis applied single-cell multiomic analysis a diverse cohort 40 T-ALL cases. We identified bone marrow progenitor...

10.1038/s43018-024-00863-5 article EN cc-by-nc-nd Nature Cancer 2024-11-25

Bilateral presentation of benign Struma ovarii is rare and has not been reported frequently in published literature. A 70-year-old postmenopausal female presented with progressive ascites, bilateral pleural effusion elevated CA-125 levels. The contrast-enhanced computed tomography (CECT) the abdomen pelvis revealed a heterogenous mass left adnexa. These findings were suspicious for an ovarian malignancy. After surgery diagnosis non functional, was made. specialized teratoma composed...

10.4103/0377-4929.44978 article EN cc-by-nc-sa Indian Journal of Pathology and Microbiology 2009-01-01

Muscle strips loaded with the Ca2+ indicator aequorin were studied in vitro to determine effects of inhibitory stimuli on force and cytosolic free Ca2+. In muscles contracted isometrically acetylcholine (ACh), 5-hydroxytryptamine (5-HT), carbachol, decreases muscle caused by isoproterenol (10(-5) M) or forskolin accompanied proportional luminescence. A similar relationship between luminescence was observed when relaxed stimulating Na+-K+-ATPase activity. These results suggest that...

10.1152/ajpcell.1989.257.2.c355 article EN AJP Cell Physiology 1989-08-01

Background Background: Mass cytometry (CyTOF) is a powerful tool for analyzing cellular networks at the single cell level. Due to high‐dimensional nature of this approach, analysis algorithms have been developed visualize and interpret mass data. In study, we applied these approaches cohort patients with secondary acute myeloid leukemia (sAML). Methods We utilized interrogate localization intensity thrombopoietin‐mediated intracellular signaling in sAML. Extracellular phenotypes were...

10.1002/cyto.b.21743 article EN Cytometry Part B Clinical Cytometry 2018-11-13

<title>Abstract</title> Refractoriness to initial chemotherapy and relapse after remission are the main obstacles cure in T-cell Acute Lymphoblastic Leukemia (T-ALL). Biomarker guided risk stratification targeted therapy have potential improve outcomes high-risk T-ALL; however, cellular genetic factors contributing treatment resistance remain unknown. Previous bulk genomic studies T-ALL implicated tumor heterogeneity as an unexplored mechanism for failure. To link subpopulations with...

10.21203/rs.3.rs-3487715/v1 preprint EN cc-by Research Square (Research Square) 2023-10-30
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