bluuebunny/crossref_metadata_2025_split huggingface dataset:
Abstract 5350: Decr2 regulates tumor cell ferroptosis and immunotherapy efficacy
Authors: Li Shuyin , Shapiro Jason , Shah Hardik , Higgs Emily F. , Xie Lishi , Zha Yuanyuan , Trujillo Jonathan , Cabanov Alexandra , Jones Tyler A. , Flood Blake , Hatogai Ken , Kline Justin , Gajewski Thomas F. 
Published: March 2024

Abstract
Checkpoint blockade therapies have transformed the landscape of cancer care. Durable clinical responses have been observed in a subset of patients. However, many patients do not respond, and understanding the mechanisms that determine tumor resistant to checkpoint blockade drugs could potentially benefit more patients. Ferroptosis is a relatively newly described form of regulated cell death distinct from apoptosis and necroptosis. Recently, T cell-promoted tumor ferroptosis was shown to be an anti-tumor mechanism and targeting this pathway could be a potential therapeutic approach. To identify genes critical to immunotherapy resistance, B16.SIY cells were transduced with a genome-scale gRNA lentivirus to generate loss of function mutants. In vitro-primed CD8+ T cells isolated from 2C/Rag2-/- TCR transgenic mice specific for the SIY antigen were co-cultured with transduced B16.SIY tumor cells. Resistant mutants were identified by deep sequencing of survival clones. The gene encoding Decr2, a peroxisomal 2,4-dienoyl-CoA reductase, was identified. Decr2 mutants were relatively resistant to CD8+ T cell killing in vitro. Consistent with this resistance to CD8+ T cell killing, Decr2 knock-down tumors showed minimal response to anti-PD-L1 therapy in vivo. Tumor microenvironment analysis in Decr2 knockdown B16.SIY tumors showed failed antigen specific CD8+ T cells’ expansion and less IFN-γ production after anti-PD-L1 treatment. Knock-down of Decr2 resulted in diminished ferroptosis, triggered either by pharmacologic inducers or antigen-specific CD8+ T cells. Mechanistic studies revealed that Decr2 knockdown resulted in diminished induction of polyunsaturated ether phospholipids (PUFA-ePLs), which is due to reduced polyunsaturated ether phospholipids synthesis rate . Analysis of melanoma tumors from human patients revealed that up-regulation of Decr2 was associated with anti-PD-1 efficacy. Our results proved Decr2 knock down suppressed tumor ferroptosis and confer tumors resistance to anti-PD-L1 therapy by reducing the polyunsaturated ether phospholipids (PUFA-ePLs) synthesis.
Citation Format: Shuyin Li, Jason Shapiro, Hardik Shah, Emily F. Higgs, Lishi Xie, Yuanyuan Zha, Jonathan Trujillo, Alexandra Cabanov, Tyler A. Jones, Blake Flood, Ken Hatogai, Justin Kline, Thomas F. Gajewski. Decr2 regulates tumor cell ferroptosis and immunotherapy efficacy [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2024; Part 1 (Regular Abstracts); 2024 Apr 5-10; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2024;84(6_Suppl):Abstract nr 5350.
Abstract 5387: Host-derived CCL2 drives prostate cancer bone metastasis via CCND2/STAT3 pathway
Authors: Meng Jie , Chang Ming , Qin Siyuan , Huang Xin , Liang Weiping , Tong Haibo , Zhang Jian 
Published: March 2024

Abstract
Overexpression of tumor-derived CCL2 has been shown to partially promote prostate cancer (PCa) bone metastasis, but the function of host-derived CCL2 is not fully understood. We first developed a mouse model using intracardiac injection and obtained highly metastatic PCa cell subclones through in vivo selection. The highly metastatic tumor cells were injected intracardially into CCL2 knockout (CCL2 KO) mice and wild-type (WT) controls, and the tumor cell growth and metastasis were monitored weekly by bioluminescence imaging. The osteolytic lesions were evaluated by radiography, micro-computed tomography (microCT) and immunohistochemistry (IHC) staining. The cells in the bone microenvironment were analyzed by flow cytometry. Also, RNA sequencing (RNA-seq) analysis was performed on the cells either from CCL2 KO mice or WT controls. We found that a loss of host-derived CCL2 significantly retarded tumor growth in bone and prolonged mouse survival. In addition, bone density analysis revealed a decrease in osteolytic lesion in CCL2 KO mice, compared to WT controls. Systemically, CCL2 deficiency reduced the proportion of granulocyte-myeloid-derived suppressor cell (G-MDSC) populations with immunosuppressive function and decreased the PCa conditioned medium (CM)-induced osteoclast formation. The enrichment analysis revealed that the dysregulated genes in bone metastatic cells from CCL2 KO mice were significantly enriched in several biological processes, including vitamin metabolism, monoatomic anion homeostasis, immune response, and bone growth. Additionally, we also confirmed that the CCND2/STAT3 pathway is apparently suppressed in the cells from CCL2 KO mice. This study demonstrated that targeting the host-derived CCL2 might be a novel potential anti-metastatic approach. Supported by the NSFC projects (81972766, 81972420, 82173336), as well as grants from the Science and Technology Project of Shenzhen (JCYJ20190809161811237, JCYJ20210324104214040).
Key words Host-derived CCL2; Prostate cancer; Bone metastasis; osteoclast; CCND2
Citation Format: Jie Meng, Ming Chang, Siyuan Qin, Xin Huang, Weiping Liang, Haibo Tong, Jian Zhang. Host-derived CCL2 drives prostate cancer bone metastasis via CCND2/STAT3 pathway [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2024; Part 1 (Regular Abstracts); 2024 Apr 5-10; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2024;84(6_Suppl):Abstract nr 5387.
Abstract 5397: Characteristics of cancer associated fibroblasts isolated from refractory colorectal cancer using RNA sequence
Authors: Kasashima Hiroaki , Fukui Yasuhiro , Yonemitsu Ken , Kitayama Kisyu , Miki Yuichiro , Yoshii Mami , Fukuoka Tatsunari , Tamura Tatsuro , Shibutani Masatsune , Toyokawa Takahiro , Ree Shigeru , Yashiro Masakazu , Maeda Kiyoshi 
Published: March 2024

Abstract
Primary tumor location of colorectal cancers (CRCs) is emerging as an important prognostic factor owing to distinct biological features. In fact, the patients with right-side CRCs (R-CRCs), in which primary tumors were resected in our department and followed by systemic chemotherapy, have a poorer prognosis in 2-year overall survival and progression-free survival than those with left-side CRCs (L-CRCs). Furthermore, cancer-associated fibroblasts (CAFs) promote tumor malignancy, but the precise transcriptional mechanisms regulating the acquisition of the CAF phenotype are not well understood. Here, we isolated the CAFs and normal counterparts from 10 CRCs which were performed radical resection, including 5 L-CRCs and 5 R-CRCs, and analyzed transcriptomic profile of CAFs by RNA-sequencing. Gene Set Enrichment Analysis (GSEA) was performed and inflammatory signatures, such as "HALLMARK IL2 STAT5 SIGNALING"(NOM p-value&lt;0.001, FDR q-value=0.146), "HALLMARK IL6 JAK STAT3 SIGNALING"(NOM p-value=0.014, FDR q-value=0.162), "HALLMARK INTERFERON GAMMA RESPONSE"(NOM p-value=0.032, FDR q-value=0.1726), were enriched in the CAFs isolated from R-CRCs (R-CAFs). In addition to sidedness of CRCs, based on gene expression profiles from bulk tumors, CRCs were classified into four consensus molecular subtypes (CMS1-4). Among them, The fibrotic CMS4 subtype portends poor relapse-free survival. We identified 4 CMS4-CRCs, which have the characteristics of stromal activation and the worst prognosis among other CRCs. GSEA showed that the signature of "HALLMARK TNFA_SIGNALING_VIA_NFKB" (NOM p-value=0.023 FDR q-value=0.207), "HALLMARK GLYCOLYSIS" (NOM p-value=0.036 FDR q-value=0.239) were upregulated in the CAFs isolated from CMS4-CRCs. These results indicated that CAFs isolated from refractory CRCs have unique phenotypes and the elucidation of these mechanisms might lead to a promising treatment for refractory CRCs.
Citation Format: Hiroaki Kasashima, Yasuhiro Fukui, Ken Yonemitsu, Kisyu Kitayama, Yuichiro Miki, Mami Yoshii, Tatsunari Fukuoka, Tatsuro Tamura, Masatsune Shibutani, Takahiro Toyokawa, Shigeru Ree, Masakazu Yashiro, Kiyoshi Maeda. Characteristics of cancer associated fibroblasts isolated from refractory colorectal cancer using RNA sequence [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2024; Part 1 (Regular Abstracts); 2024 Apr 5-10; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2024;84(6_Suppl):Abstract nr 5397.
Abstract 5412: In vitro plasticity profiling of metastatic cancer cells with an imaging-based pipeline
Authors: Sameri Saba , Das Durdam , Michaelis Stefanie , Wegener Joachim , Hosseini Hedayatollah , Hoffmann Martin 
Published: March 2024

Abstract
Different types of cancer cells exhibit varying levels of invasiveness, migration behavior and ability to resume growth at distant sites. In order to classify cell lines for these fundamentally important traits of metastasis, we sought to generate an image-based in vitro assay that quantifies morphological and functional features of cancer cell plasticity. We developed an Imaging-Based Pipeline as an R Package for in vitro cell monitoring using the breast cancer cell lines MDA-MB-231 and MCF-7 that represent high-metastatic and low-metastatic cells in vivo, respectively, to identify relevant feature variables. Live cell imaging via the zenCELL owl system captured images for labeling and segmentation. Pre-trained neural network models from Cellpose, combined with user-calibrations, accurately segmented cells for tracking. The tracking pipeline calculated similarity coefficients, Jaccard index, between consecutive frames for cell trajectory analysis. Geometric and morphological features, speed, and distance measurements were derived for assessing structural motility and proliferation-associated changes. The analysis of two cell line models revealed significant variations in morphological changes, with MDA-MB-231 showing more rapid changes between round and elongated shape compared to MCF-7 cells. Moreover, the analysis of cell motility, consistent with the morphological changes, revealed that TGF-beta1 induced migration in MDA-MB-231 cells much stronger than in MCF-7 cells. Likewise, differences in proliferation induction upon addition of growth factor was monitored, showing that MCF-7 cells are more responsive to the growth stimulation than MDA-MB-231 cells. Consequently, the morphological plasticity of cancer cells, closely linked to the epithelial-to-mesenchymal transition (EMT) state, emerges as a defining factor for the in vitro plasticity of these cells. Quantified proliferation rate and migration speed of the cells was then used to establish an in vitro "plasticity index" that captures a cell line’s ability to switch between migration and proliferation. This index will undergo validation using cell lines with well-established metastatic propensities.
In conclusion, we developed an Imaging-Based Pipeline that can effectively explore cancer cell plasticity in vitro and monitor the impact of genetic or pharmacologic perturbations on this critical characteristic of aggressive cancer cells.
Citation Format: Saba Sameri, Durdam Das, Stefanie Michaelis, Joachim Wegener, Hedayatollah Hosseini, Martin Hoffmann. In vitro plasticity profiling of metastatic cancer cells with an imaging-based pipeline [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2024; Part 1 (Regular Abstracts); 2024 Apr 5-10; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2024;84(6_Suppl):Abstract nr 5412.
Abstract 5422: Identification of ZEB1-regulated circular RNAs in lung cancer cells
Authors: Cho Seongran , Choi Jin-A , Ahn Young-Ho 
Published: March 2024

Abstract
ZEB1 is a master transcription factor playing a crucial role in promoting epithelial-mesenchymal transition (EMT), as well as the progression and metastasis of lung cancer. The progression of lung cancer is regulated by non-coding RNAs, including microRNAs, long non-coding RNAs, and circular RNAs (circRNAs). In this study, we aimed to identify circRNAs under the regulation of ZEB1 and elucidate their functions within lung cancer cells. Through RNA sequencing and subsequent CIRI-full analysis in ZEB1-overexpressing lung cancer cells, we identified 25 circRNAs displaying differential expression compared to control cells. Among these circRNAs, we targeted circDennd1b, which showed down-regulation in ZEB1-overexpressing cells. We used siRNAs to target the back-splicing junction of circDennd1b, resulting in its knockdown and consequently promoting the invasion of lung cancer cells. Now, we are studying how circDennd1b affects the progression and metastasis of lung cancer. In summary, the circRNAs modulated by ZEB1 are anticipated to play a key role in the invasion, progression, and metastasis of lung cancer.
Citation Format: Seongran Cho, Jin-A Choi, Young-Ho Ahn. Identification of ZEB1-regulated circular RNAs in lung cancer cells [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2024; Part 1 (Regular Abstracts); 2024 Apr 5-10; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2024;84(6_Suppl):Abstract nr 5422.
Abstract 5440: TM4SF1 maintains cancer stemness in cholangiocarcinoma
Authors: Zhu Xiao Bin , Golino Jihye , Wang Xin , Xie Changqing 
Published: March 2024

Abstract
Cholangiocarcinoma (CCA) is an aggressive liver malignancy with increased incidence globally but poor prognosis. Cancer stemness plays critical roles on tumor initiation, recurrence, and resistance to therapy. However, the mechanism of stemness maintenance in CCA has been less explored. Previously, we have reported TM4SF1 is associated with poor survival in CCA and high expression of TM4SF1 tends to promote tumorigenesis. In this study, we found that the expression of TM4SF1 gene is upregulated in tumor tissues compared to adjacent normal tissues in CCA based on bulk RNA sequencing dataset from The Cancer Genome Atlas (TGCA) CCA cohort. There is a positive correlation between the expression of TM4SF1 and stemness genes, ITGB3, SOX9, ALDH1A3, and ITGB1. Interestingly, knockdown of TM4SF1 with siRNA in CCA cell line HuCCT-1 cells demonstrated a decrease in expression of cancer stem cell surface markers, CD24 and Prom1. Furthermore, with a CRISPR-based lentivirus construct to knockdown TM4SF1 gene in HuCCT-1 cells in vitro, we found that spheroid formation in TM4SF1 knockdown was attenuated in comparison to TM4SF1 wild type. In addition, the results from flow cytometry and RT-PCR showed a corresponding decrease in CD24 and CD133 expression with TM4SF1 knockdown when comparing to TM4SF1 wild type. In conclusion, TM4SF1 is associated with the stemness of CCA and could be a therapeutic target for CCA therapy to overcome therapy resistance in future.
Citation Format: Xiao Bin Zhu, Jihye Golino, Xin Wang, Changqing Xie. TM4SF1 maintains cancer stemness in cholangiocarcinoma [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2024; Part 1 (Regular Abstracts); 2024 Apr 5-10; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2024;84(6_Suppl):Abstract nr 5440.
Abstract 5497: Towards a drag and drop spatial biology workflow: Introducing sample reinterrogation as a conduit for the progressive development and on-line analysis of high parameter spatial biology data
Authors: Ingalls Matthew H. , Meshik Xenia , Jackson Charles E. , Cashion Kayla E. , Christians Arne , Brix Anke , Boettcher Marcus , Schwarz J Spencer , Braubach Oliver 
Published: March 2024

Abstract
The potential for spatial biology in cancer research is understood and edified. With it we can understand the tumor microenvironment, unravel responsiveness to drug treatments and cell therapies, and ultimately stratify patients for targeted treatment and clinical trial enrollment. Yet, researchers exploring spatial biology may be discouraged by what can be a resource intensive exercise, and most importantly, a commitment of high value patient samples. Furthermore, the design of reagent panels used to study samples is not trivial, and a specimen’s unique biomarker expression profile may require adjustments. Here we present a novel solution that permits sample re-interrogation and in-flight adjustments of reagent panels in our spatial biology workflow.
The CellScape™ platform for Precise Spatial Multiplexing paired with VistaPlex™ Assay Kits provide a ready-to-use cyclic multiplex immunofluorescence (IF) solution to interrogate fresh frozen and FFPE tissue samples. Tissues are mounted in enclosed fluidic chambers, while staining and imaging are conducted on the CellScape instrument. The experiment requires no additional autostainer equipment and is divided into separate staining and imaging rounds. The end user may therefore pause between rounds and conduct inter-round analyses, which can then guide decisions of whether and how to continue the experiment. To illustrate the benefit of this approach, we present a use case in which we applied VistaPlex antibody panels to reveal the spatial distribution of major immune cell populations. Inter-round analysis and conclusions were then drawn from this preliminary phenotype map before successive rounds of rationally planned staining were conducted to further deepen the depth and breadth of spatial phenotyping.
The CellScape sample reinterrogation feature is a pragmatic spatial biology solution that optimizes the use of precious resources, whilst allowing researchers to generate informed decisions about antibody panel designs almost in real time. This enhanced utility may reduce the resistance to spatial biology among researchers working with samples that are limited or irreplaceable.
Citation Format: Matthew H. Ingalls, Xenia Meshik, Charles E. Jackson, Kayla E. Cashion, Arne Christians, Anke Brix, Marcus Boettcher, J Spencer Schwarz, Oliver Braubach. Towards a drag and drop spatial biology workflow: Introducing sample reinterrogation as a conduit for the progressive development and on-line analysis of high parameter spatial biology data [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2024; Part 1 (Regular Abstracts); 2024 Apr 5-10; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2024;84(6_Suppl):Abstract nr 5497.
Abstract 5498: Multi-modal examination of spatial heterogeneity in the astrocytoma microenvironment
Authors: Moffet Joel , Kriel Jurgen , Lu Tianyao , Freytag Lutz , Whittle James , Best Sarah , Freytag Saskia 
Published: March 2024

Abstract
Astrocytoma is a diffuse tumor that infiltrates the brain. Despite post-operative therapy including radiation and chemotherapy, 52% of patients’ tumors recur within five-years of surgery. These tumors are characterized by mutations in the IDH1 or IDH2 gene that confer metabolic alterations, most notably the production of the onco-metabolite 2-hydroxyglutarate. To reveal the metabolic alterations and their upstream regulation across the tumor microenvironment, we applied spatial metabolomics and spatial transcriptomics to sequential sections from resected tumor samples of patients with low grade astrocytoma. This necessitated extensive optimization of atmospheric-pressure MALDI-TOF, including the establishment of a custom automated computational pipeline with abilities to identify metabolic niches. Additionally, using sequential sections of the same tumor, we also compared all commercially available imaging-based spatial transcriptomic technologies (10x Genomics Xenium, Nanostring CosMx, Vizgen MERSCOPE) to evaluate their suitability with regards to building a multi-modal model of metabolic activity and regulation across the tumor microenvironment. We found that 10x Genomics Xenium was most suited for this task as image registration across sequential sections was comparatively straight-forward. Combining spatial transcriptomics generated with 10x Genomics Xenium and spatial metabolomics across 8 matched sequential slices of the same tumor, we identified metabolic niches associated with distinct cell type composition and transcriptional regulation.
Citation Format: Joel Moffet, Jurgen Kriel, Tianyao Lu, Lutz Freytag, James Whittle, Sarah Best, Saskia Freytag. Multi-modal examination of spatial heterogeneity in the astrocytoma microenvironment [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2024; Part 1 (Regular Abstracts); 2024 Apr 5-10; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2024;84(6_Suppl):Abstract nr 5498.
Abstract 5577: TRPM8 mediated Ca2+ signaling as a therapeutic target in prostate cancer
Authors: Asuthkar Swapna , Velpula Kiran , Griend Vander Don 
Published: March 2024

Abstract
Prostate cancer (PC) is a prevalent and deadly malignancy, necessitating the development of innovative therapeutic strategies. Transient receptor potential melastatin 8 (TRPM8), an ion channel highly expressed in prostate epithelium, has emerged as a potential target. Our preliminary studies demonstrate that TRPM8 plays a crucial role in PC progression. We observed an initial increase in TRPM8 mRNA expression during early-stage PC, followed by a decline in advanced and androgen-independent prostate cancer (AIPC) stages. Additionally, TRPM8 knockout mice exhibited elevated serum testosterone levels, heightened androgen receptor (AR) activity, and increased cell cycle, invasion, and adhesion-related effects. In xenograft models, TRPM8 demonstrated potent antitumor properties in both AR+ and AR- contexts. Our research suggests that TRPM8 activation on the plasma membrane promotes calcium influx and induces apoptosis in PC cells. Conversely, TRPM8 internalization correlates with PC pathogenesis. By exploring the effects of TRPM8 on PTEN-mediated cellular signaling, we aim to uncover novel insights into the molecular mechanisms underlying TRPM8's role in PC. This abstract underscores the potential of targeting TRPM8-mediated Ca2+ signaling as a promising therapeutic approach to combat PC progression, offering hope for improved patient outcomes.
Citation Format: Swapna Asuthkar, Kiran Velpula, Vander Don Griend. TRPM8 mediated Ca2+ signaling as a therapeutic target in prostate cancer [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2024; Part 1 (Regular Abstracts); 2024 Apr 5-10; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2024;84(6_Suppl):Abstract nr 5577.