Yooeun Kim

Abstract 2502: Biologically informed cell typing in the tumor microenvironment with lightweight LLMs

Yooeun Kim, Jiwon Kim, Hongyoon Choi

Background: The tumor microenvironment (TME) is a complex ecosystem of diverse cell types that interact dynamically, influencing tumor development and therapy response. Accurate cell type annotation in the TME is challenging due to partial overlap among marker genes, scarcity of representative reference …

Abstract 2443: High-resolution AI-based spatial biology tool for lung cancer trained by image-based spatial transcriptomics data to analyze tumor microenvironmnet

Haenara Shin, Dongjoo Lee, Yooeun Kim, Daeseung Lee et autres

Abstract Background: Spatial biology enables the analysis of tumor microenvironments by revealing cellular relationships within the heterogeneous tumor landscape, which are closely associated with tumor characteristics and immunology. In this study, we utilized high-resolution H&E images and image-based spatial transcriptomics (ST) data …

Abstract B038: A self-supervised AI model leveraging spatial omics for analyzing tumor microenvironment heterogeneity in breast cancer only with H&E

Haenara Shin, Dongjoo Lee, Yooeun Kim, Daeseung Lee et autres

Abstract Background: Digital high-resolution H&E images provide valuable insights into tumor heterogeneity within the tumor microenvironment (TME). However, the ability to perform detailed cell typing solely based on H&E images remains limited. Recent advances in high-resolution spatial transcriptomics (ST) enable precise characterization …

kr (code pays fourni par la source)

Contrastive Learning for Omics-guided Whole-slide Visual Embedding Representation

Suwan Yu, Yooeun Kim, Sangseon Lee, Kwangsoo Kim

Abstract While computational pathology has transformed cancer diagnosis and prognosis prediction, existing computational methods remain limited in their ability to decipher the complex molecular characteristics within tumors. We present CLOVER (Contrastive Learning for Omics-guided whole-slide Visual Embedding Representation), a novel deep learning …

kr, Éthiopie (code pays fourni par la source)

Discovery of high-expressing lncRNA-derived sORFs as potential tumor-associated antigens in hepatocellular carcinoma

Yooeun Kim, Hongseok Ha, Kwangsoo Kim

kr, pr (code pays fourni par la source)

Discovery of High-Expressing lncRNA-Derived sORFs as Potential Tumor-associated Antigens in Hepatocellular Carcinoma

Yooeun Kim, Hongseok Ha, Kwangsoo Kim

Abstract Background This study focuses on a comprehensive analysis of ribosome profiling (Ribo-seq) data to identify long non-coding RNAs (lncRNAs) with elevated expression of small open reading frames (sORFs) in Hepatocellular Carcinoma (HCC). The investigation explores the emerging role of sORFs as …

kr (code pays fourni par la source)

Prognostic value of the TP53 mutation in patients with pancreatic ductal adenocarcinoma receiving FOLFIRINOX

Min Gyu Kim, In Rae Cho, Yooeun Kim, Jin Ho Choi et autres

Background: KRAS, TP53, CDKN2A, and SMAD4 have been the main driver mutations in pancreatic ductal adenocarcinoma (PDAC). Studies on the clinical significance and treatment response to 5-fluorouracil, leucovorin, irinotecan, and oxaliplatin (FOLFIRINOX) regimen in terms of the presence of these mutations remain …

kr (code pays fourni par la source)

Subtyping of COVID-19 samples based on cell-cell interaction in single cell transcriptomes

Kyeonghun Jeong, Yooeun Kim, Jaemin Jeon, Kwangsoo Kim

In single-cell transcriptome analysis, numerous biomarkers related to COVID-19 severity, including cell subtypes, genes, and pathways, have been identified. Nevertheless, most studies have focused on severity groups based on clinical features, neglecting immunological heterogeneity within the same severity level. In this study, …

kr, Éthiopie (code pays fourni par la source)

Subtyping of COVID-19 samples based on Cell-Cell interaction in single cell transcriptomes

Kyeonghun Jeong, Yooeun Kim, Jaemin Jeon, Kwangsoo Kim

Abstract In single-cell transcriptome analysis, numerous biomarkers related to COVID-19 severity, including cell subtypes, genes, and pathways, have been identified. Nevertheless, most studies have focused on severity groups based on clinical features, neglecting immunological heterogeneity within the same severity level. In this …

kr (code pays fourni par la source)

An Integrated Analysis for Mutational Signatures and Gene Expression Data and Prioritizing Signature-specific Transcription Factors

You Jiwon, Yooeun Kim, Kwangsoo Kim, Kyuri Jo

DNA 염기서열의 체세포 돌연변이 연구는 암의 발병 원인을 밝히는 데에 중요한 역할을 수행하여 왔다. 특히, 대규모 인간 암 유전체 데이터를 활용한 돌연변이 시그니처(mutational signature)의 개념이 정의된 이후 관련 연구가 활발히 진행되고 있다. 본 연구에서는 비음수 행렬 분해 및 상관분석을 기반으로 돌연변이 시그니처 …

Erratum: Significant Associations between CCL5 Gene Polymorphisms and Post-Transplantational Diabetes Mellitus in Korean Renal Allograft Recipients

Kyung Hwan Jeong, Ju young Moon, Jin Hoon Chung, Yooeun Kim et autres

Background: Post-transplantational diabetes mellitus (PTDM) is a serious metabolic complication that may follow renal transplantation. The expression of chemokine (C-C motif) ligand 5 (CCL5) is inversely related to pancreatic β-cell function; thus, specific CCL5 gene polymorphisms are considered to be risk factors …

Matrix Metalloproteinase Gene Polymorphisms and New-Onset Diabetes After Kidney Transplantation in Korean Renal Transplant Subjects

Sungmoon Ong, Sang‐Wook Kang, Yooeun Kim, T.-H. Kim et autres

kr (code pays fourni par la source)