Comprehensive analysis of spatial architecture in primary liver cancer

R Wu, W Guo, X Qiu, S Wang, C Sui, Q Lian, J Wu… - Science …, 2021 - science.org
… In this study, genome-wide transcriptome heterogeneity of seven PLCs was analyzed
comparison from normal to leading-edge to tumor regions, we found that the tumor capsule …

Transcriptome analysis reveals tumor microenvironment changes in glioblastoma

Y Hoogstrate, K Draaisma, SA Ghisai, L van Hijfte… - Cancer Cell, 2023 - cell.com
Summary A better understanding of transcriptional evolution of IDH-wild-type glioblastoma
may be crucial for treatment optimization. Here, we perform RNA sequencing (RNA-seq) (n = …

Single-cell transcriptome analysis of tumor and stromal compartments of pancreatic ductal adenocarcinoma primary tumors and metastatic lesions

W Lin, P Noel, EH Borazanci, J Lee, A Amini, IW Han… - Genome medicine, 2020 - Springer
… to profile the transcriptomes of individual cells from dissociated primary tumors or metastatic
biopsies obtained from patients with PDAC. Unsupervised clustering analysis as well as a …

A comprehensive analysis of coding and non-coding transcriptomic changes in cutaneous squamous cell carcinoma

K Das Mahapatra, L Pasquali, JN Søndergaard… - Scientific reports, 2020 - nature.com
… as EGFR and MYC and tumor suppressors such as TP63 and NOTCH3 further contribute
to the disease progression 5,6 . Previous transcriptome analyses have revealed thousands of …

Single-cell transcriptomic analysis of the tumor ecosystems underlying initiation and progression of papillary thyroid carcinoma

W Pu, X Shi, P Yu, M Zhang, Z Liu, L Tan, P Han… - Nature …, 2021 - nature.com
transcriptomes of 158,577 cells from 11 patients’ paratumors, localized/advanced tumors, …
distant metastases, covering comprehensive clinical courses of PTC. Our data identifies a “…

Integrated single-cell transcriptome analysis reveals heterogeneity of esophageal squamous cell carcinoma microenvironment

HQ Dinh, F Pan, G Wang, QF Huang, CE Olingy… - Nature …, 2021 - nature.com
… Here, we perform scRNA-Seq to analyze the microenvironment from tumor and adjacent
nonmalignant esophageal tissues from 11 ESCC patients. We reveal profound cellular …

Integrated analysis of microbiome and host transcriptome reveals correlations between gut microbiota and clinical outcomes in HBV-related hepatocellular carcinoma

H Huang, Z Ren, X Gao, X Hu, Y Zhou, J Jiang, H Lu… - Genome medicine, 2020 - Springer
… predictive effect of gut microbiota on tumor progression and recurrence/metastasis. By the
simultaneous integrated analysis of the liver tumor transcriptome, gut microbiome, and clinical …

[HTML][HTML] Single-cell transcriptome analysis revealed a suppressive tumor immune microenvironment in EGFR mutant lung adenocarcinoma

L Yang, YT He, S Dong, XW Wei, ZH Chen… - … of cancer, 2022 - ncbi.nlm.nih.gov
… We used single-cell transcriptome sequencing and multiplex immunohistochemistry to
investigate the immune microenvironment of EGFR-mutant and EGFR wild-type LUADs and …

Aberrant splicing isoforms detected by full-length transcriptome sequencing as transcripts of potential neoantigens in non-small cell lung cancer

M Oka, L Xu, T Suzuki, T Yoshikawa, H Sakamoto… - Genome biology, 2021 - Springer
cancer specimens To examine whether aberrant splicing isoforms also exist in cancer cells
in vivo, we next analyzed clinical lung cancer … for the cell line analysis of clinical samples (…

A transcriptome-wide association study identifies novel candidate susceptibility genes for pancreatic cancer

J Zhong, A Jermusyk, L Wu, JW Hoskins… - … the National Cancer …, 2020 - academic.oup.com
cancer risk loci and possible causal genes, we performed a pancreatic cancer transcriptome-…
, MetaXcan, and Summary-MulTiXcan. We integrated genome-wide association studies …