A5030292411- Colorectal Cancer Treatments and Studies
- Cancer Genomics and Diagnostics
- Single-cell and spatial transcriptomics
- RNA modifications and cancer
- Cancer Immunotherapy and Biomarkers
- Ferroptosis and cancer prognosis
- Pancreatic and Hepatic Oncology Research
- Genetic factors in colorectal cancer
- Cancer-related molecular mechanisms research
- Glioma Diagnosis and Treatment
- Gene expression and cancer classification
- Cancer Cells and Metastasis
- Cancer, Lipids, and Metabolism
- Esophageal Cancer Research and Treatment
- Cancer Research and Treatments
- Colorectal Cancer Surgical Treatments
- Immune Cell Function and Interaction
- Bioinformatics and Genomic Networks
- Cancer, Hypoxia, and Metabolism
Indiana University – Purdue University Indianapolis
2022-2025
Indiana University Bloomington
2025
Indiana University School of Medicine
2022-2024
Indiana University Health
2024
Indiana University
2023
University School
2023
Rush University Medical Center
2021
Tumkur University
2019
Saint Luke's Hospital
2018
University of Missouri
2018
Colorectal cancer (CRC) consensus molecular subtypes (CMS) have different immunological, stromal cell, and clinicopathological characteristics. Single-cell characterization of CMS subtype tumor microenvironments is required to elucidate mechanisms stroma cell contributions pathogenesis which may advance subtype-specific therapeutic development. We interrogate racially diverse human CRC samples analyze multiple independent external cohorts for a total 487,829 single cells enabling...
Abstract Numerous cell states are known to comprise the pancreatic ductal adenocarcinoma (PDAC) tumor microenvironment (TME). However, developmental stemness and co-occurrence of these remain poorly defined. Here, we performed single-cell RNA sequencing (scRNA-seq) on a cohort treatment-naive PDAC time-of-diagnosis endoscopic ultrasound-guided fine needle biopsy (EUS-FNB) samples ( n = 25). We then combined with surgical resection 6) publicly available increase statistical power 80)....
Pancreatic ductal adenocarcinoma (PDAC) has a minimal (<15%) 5-year existence, in part due to resistance chemoradiotherapy. Previous research reveals the impact of paricalcitol (P) and hydroxychloroquine (H) on altering lysosomal fusion, decreasing stromal burden, triggering PDAC chemotherapies. This investigation aims elucidate molecular properties H P combination their potential sensitizing gemcitabine (G). PH potentiates effects G vitro, orthotopic mouse models, patient-derived xenograft...
Abstract Epithelial mesenchymal transition (EMT) describes a process by which the epithelial cells acquire properties associated with increased migration, invasion, and resistance to therapy. Targeting intercellular communications molecular changes that enable EMT is rational therapeutic approach in PDAC. Our group has previously reported on KPC-Luc PDAC orthotopic mouse models treated 1. Sham, 2. paricalcitol plus hydroxychloroquine (PH), 3. gemcitabine (G), 4. GPH. Single cell RNA sequence...
ABSTRACT Colorectal cancer (CRC), a disease of high incidence and mortality, has had few treatment advances owing to large degree inter- intratumoral heterogeneity. Attempts classify subtypes colorectal develop strategies been attempted by Consensus Molecular Subtypes (CMS) classification. However, the cellular etiology CMS classification is incompletely understood controversial. Here, we generated analyzed single-cell transcriptome atlas 49,859 CRC cells from 16 patients, validated with an...
Abstract To understand the molecular differences between right-sided colon cancer (RCC), left-sided (LCC) and rectal cancer, we analyzed colorectal tumors at DNA, RNA, miRNA protein levels using previously sequenced data from The Cancer Genome Atlas Memorial Sloan Kettering Center. Clonal evolution analysis identified same tumor-initiating events involving APC, KRAS TP53 genes in RCC, LCC cancers. However, individual role-played by each event, their order tumor dynamics selection of...
Abstract Background This study is aimed to establish a Least Absolute Shrinking and Selection Operator (LASSO) model based on tumor heterogeneity predict the best features of LUSC in various cancer subtypes. Methods The RNASeq data 505 samples were downloaded from TCGA database. Subsequent identification differentially expressed genes (DEGs), divided into two subtypes consensus clustering method. estimated with abundance immune non-immune stromal cell populations which infiltrated tissue....
97 Background: The incidence and mortality of early-onset colorectal cancer (EO-CRC) is on the rise. Consequently, there an urgent unmet need to better understand their unique tumor biology expand therapeutic options improve clinical outcomes. Methods: Exploratory Targeted multiplex proteomics (TMP) targeted 648 gene panel was performed specimens from 35 patients with resected colon diagnosed at age < = 40 years. TMP consisted 72 proteins involved in differentiation, tumorigenesis,...
Abstract Numerous cell states are known to comprise the pancreatic ductal adenocarcinoma (PDAC) tumor microenvironment (TME). However, developmental stemness and co-occurrence of these remain poorly defined. Here, we performed single-cell RNA sequencing (scRNA-seq) on a cohort treatment-naive PDAC time-of-diagnosis endoscopic ultrasound-guided fine needle biopsy (EUS-FNB) samples (n=25) surgical resections (n=6), which were then combined with publicly available increase statistical power...
3592 Background: Right-sided (RCC) and left-sided colon cancers (LCC) have different clinical/biological characteristics. Comprehensive genomic analysis (Whole exome/genome, Copy number, RNA, MicroRNA) using The Cancer Genome Atlas (TCGA) was performed to identify underlying differences between RCRC, LCRC rectal (RC). Methods: 443 microsatellite stable RCC, LCC RC samples were analyzed. Transverse rectosigmoid tumors excluded. MutsigCV ConsensusDriver used for significantly mutated gene...
12123 Background: Squamous cell carcinomas (SCC) of the lung, esophagus and head neck (H&N) are indistinguishable by histology. Data from large-scale genomic studies have identified significant similarities in mutational profiles these tumors. Combined analysis will lead to discovery unique molecular dissimilarities Methods: We analyzed whole exome, RNA, miRNA methylation data 1221 patients with lung (39.6%), (26.3%), HPV-negative H&N SCC (34.1%) Cancer Genome Atlas (TCGA) International...
Abstract This study aims to create a tumor heterogeneity-based model for predicting the best features of lung adenocarcinoma (LUAD) in multiple cancer subtypes using Least Absolute Shrinking and Selection Operator (LASSO). The RNA-Seq raw count data 533 LUAD samples 59 normal were downloaded from TCGA portal. Based on consensus clustering method was divided into two subtypes, clusters validated silhouette width. Furthermore, we estimated abundance immune non-immune stromal cell populations...
This study is aimed to establish a Least Absolute Shrinkage and Selection Operator (LASSO) model based on tumor heterogeneity predict the best features of LUSC in various cancer subtypes. The RNASeq data 505 samples were downloaded from TCGA database. Subsequent identification differentially expressed genes (DEGs), divided into two subtypes consensus clustering method. estimated with abundance immune non-immune stromal cell populations which infiltrated tissue. LASSO was established each...
This study aims to create a tumor heterogeneity-based model for predicting the best features of lung adenocarcinoma (LUAD) in multiple cancer subtypes using Least Absolute Shrinkage and Selection Operator (LASSO). The RNASeq data 533 LUAD samples were downloaded from TCGA database. Subsequent identification differentially expressed genes (DEGs), divided into two based on consensus clustering method. estimated with abundance immune non-immune stromal cell populations which infiltrated tissue....