Project description:Total RNA were extracted from 5 primary melanoma and 5 nevus tissues, all of which were formalin-fixed and parrffin-embedded tissues.
Project description:Total RNA were extracted from 5 primary melanoma and 4 nevus tissues, all of which were formalin-fixed and parrffin-embedded tissues.
Project description:Approximately one-third of melanomas arise from benign nevi, yet the transcriptional and microenvironmental changes accompanying this transition remain incompletely understood. To study the nevus-to-melanoma transition, we employed genome-wide spatial transcriptomics combined with imaging mass cytometry on adjacent nevus-melanoma lesions.
Project description:A substantial part of cutaneous malignant melanomas develops from benign nevi. However, the precise molecular events driving the transformation from benign to malignant melanoma are not well understood. We used laser microdissection and mass spectrometry to analyze the proteomes of melanoma subtypes, including superficial spreading melanomas (SSM, n=17), nodular melanomas (NM, n=17), and acral melanomas (AM, n=15). Furthermore, we compared the proteomes of nevi cells and melanoma cells within the same specimens (nevus-associated melanoma (NAM, n=14)). In total, we quantified 7,935 proteins. Despite the genomic and clinical differences of the melanoma subtypes, our analysis revealed relatively similar proteomes, except for the upregulation of proteins involved in immune activation in NM vs AM. Examining NAM versus nevi, we found 1,725 differentially expressed proteins. Among these proteins were 140 that overlapped with cancer hallmarks, tumor suppressors, and regulators of metabolism and cell cycle. Pathway analysis indicated aberrant activation of the RAS/MAPK and PI3K-AKT-mTOR pathways, as well as the Hippo-YAP pathway. Using a classifier, we identified six proteins capable of distinguishing melanoma from nevi samples. Our study represents the first comprehensive comparative analysis of the proteome in melanoma subtypes and associated nevi, offering new insights into the biological behavior of these distinct entities.
Project description:Melanomas are considered highly heterogenous in transcriptional state. We used single cell RNA sequencing (scRNA-seq) to analyze the diversity of melanoma cells as compared to primary melanocytes and nevus melanocytes. Sample 1 contain KIT postitive melanocytes sequenced directly ex vivo from human nevi. Sample 2 contains different human melanoma cell lines and primary human melanocytes grown in vitro.
Project description:To explore the role of long non-coding RNAs (lncRNAs) in melanoma progression, we performed lncRNAs microarray to identify differentially expressed lncRNAs between primary melanoma and nevus.
Project description:To investigate the differences in miRNA profiles specially related to lymph node metastasis in cervical cancer, six primary cervical cancer tissues derived from stage І-ІІ patients with (n=3) or without (n=3) lymph node metastasis were collected. The differential expression of seven representative miRNAs (top seven miRNAs included: miR-135-5p, miR-221-3p, miR-25-3p, miR-96-5p, miR-182-5p, miR-183-5p, and miR-144-3p) was verified using qRT-PCR in the same tissues used for microarray analysis.