bluuebunny/crossref_metadata_2025_split huggingface dataset:
Abstract 1072: Potential biomarkers correlated with poor survival rate of melanoma patients
Authors: Morais Alice S. , Monteiro Ana C. , Andrade Fernando , Goedert Lucas , Espreáfico Enilza , Schneider-Stock Regine , Fujiota André , Jasiulionis Miriam G. 
Published: August 2018

Abstract
Malignant melanoma is an extremely aggressive tumor, responsible for 90% of skin cancer mortality. Widespread metastasis is the main cause of death in melanoma patients. Therefore, the identification of molecules related to the degree of melanoma malignancy could be used as prognostic biomarkers. In the present study, using a murine model of melanoma progression, different genes, such as Snai1, Chd1, Gata4, Id4, Cbs, Vav1, and Itga4, were first identified as presenting aberrant DNA methylation in their promoters along melanoma progression by Methylight analysis. The gene expression pattern and epigenetic regulation were validated in these murine cell lines by RT-qPCR and 5AzaCdR treatment, respectively. The genes Angpt2 and Fgf1 were also identified as differentially expressed along tumor progression in this murine model. The expression profile of these genes was also evaluated in primary human melanocytes and RGP (radial growth phase), VGP (vertical growth phase) and metastatic melanoma cell lines. Clinical and gene expression data from 460 patients were obtained from TCGA (The Cancer Genome Atlas). Using an univariate test, patients presenting tumors with low levels of Chd1, Vav1, Id4 and Fgf1, and high levels of Snai1 and Angpt2 were shown to exhibit poor overall survival rate. Indeed, the multivariate analysis using Cox regression model identified high Snai1 (HR=1.217; 95% CI 1.075-1.377; p=0.002) and Angpt2 (HR=1.186; 95% CI 1.059-1.329; p=0.003) expression and low Chd1 (HR=0.757; 95% CI 0.575-0.996; p=0.047), Fgf1 (HR=0.858; 95% CI 0.780-0.944; p=0.002) and Vav1 (HR=0.859; 95% CI 0.764-0.967; p=0.011) expression as independent prognostic factors for the overall survival rate of patients with melanoma. Also using a multivariate analysis, the low levels of Id4 promoter methylation (HR=0.689; 95% CI 0.531-0.891; p=0.045) was shown to be an independent predictive factor for poor survival rate, although no correlation was found between Id4 expression and survival rate. In conclusion, the upregulation of Snai1 and Angpt2, and the downregulation of Chd1, Vav1 and Fgf1 are associated with unfavorable survival outcome, indicating they might be valuable prognostic biomarkers for melanoma. Supported by CNPq and FAPESP.
Citation Format: Alice S. Morais, Ana C. Monteiro, Fernando Andrade, Lucas Goedert, Enilza Espreáfico, Regine Schneider-Stock, André Fujiota, Miriam G. Jasiulionis. Potential biomarkers correlated with poor survival rate of melanoma patients [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2018; 2018 Apr 14-18; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2018;78(13 Suppl):Abstract nr 1072.
Abstract 1078: Identification of peptides binding to mesenchymal subtype breast cancer from phage display peptide library
Authors: Jones Kelvin M. , Samant Rajeev , Singh Shree , Bedi Deepa 
Published: August 2018

Abstract
Most available therapeutic drugs efficiently treat tumors; however, absence of specificity has deleterious effects on patients. Identifying a tumor ablation method that has specificity with minimal to no side effects is needed. Phage display allows for expression of peptide and protein libraries on the surface of phage with a diversity of 109 peptides of different permutations, which leads to the selection of peptides and proteins, with high affinity and specificity. Phage display can be used as a tool to identify specific targets using a pIII phage library for identification of cell surface markers. To do so, we performed an initial depletion assay to isolate specific phages that express an affinity to human cells. We isolated a phage diversity of 10-2 from 109. Subsets of this population were used to identify phage and breast cancer cell interaction in vitro using an ELISA assay. Briefly, phages were exposed to epithelial and mesenchymal breast cancer cells and fibroblast cells. We have identified a phage profile that selectively targets tumor cells based on their transition from epithelial to mesenchymal. Interestingly, PE-26, a phage subset, indicated a greater affinity for more mesenchymal-like tumor cells. Moreover, we identified a 5-fold increase in the binding affinity for MDA-MB-231 and MCF-7 (overexpressed with TGF-β) in comparison to the control fibroblast cells. Additionally, PE-21 demonstrates a 6-fold increased affinity for breast cancer cells when contrasted with our control fibroblast cells. Our data provide further support that the identified phage profiles exhibit a preferential affinity for more mesenchymal-like tumor cells, which are known to be aggressive. This suggests their potential chemotherapeutic capability. Our future endeavors include further validation of selected phages and development of peptides to be employed as imaging agents to study EMT in vivo and as diagnostics to detect circulating tumor cells.
Citation Format: Kelvin M. Jones, Rajeev Samant, Shree Singh, Deepa Bedi. Identification of peptides binding to mesenchymal subtype breast cancer from phage display peptide library [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2018; 2018 Apr 14-18; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2018;78(13 Suppl):Abstract nr 1078.
Abstract 1083A: An ex vivo 3D bone metastasis model for prostate cancer
Authors: Zilberberg Jenny , Choudhary Saba , Dziopa Eugenia , Mannion Cirian , Kissin Yair , Parasido Erika , Albanese Christopher , Lee Woo 
Published: August 2018

Abstract
Introduction: Bone is the preferred site for prostate cancer (PCa) metastases and there is virtually no cure once the tumor is established within this niche. The development of therapeutic strategies against metastatic PCa has been limited by the lack of an all-human preclinical model to: (1) study PCa-bone interactions under physiologically relevant three dimensional (3D) microenvironments, (2) understand how these interactions result in the development of drug resistance, and (3) explore paradigm-changing precision medicine concepts.
Methods: Conditionally reprogrammed primary PCa cells (CR-PCa, derived from a lymph node metastatic site) were integrated with our ex vivo human 3D bone tissue platform, as a transformative approach for modeling tumor behavior at the bone niche. The 3D bone tissue was engineered using primary osteoblastic (OSB) cells from human bone samples. These cells were biomimetically assembly with biphasic calcium phosphate microbeads (BCPm) in perfusion microfluidic culture devices. BCPm were used to replicate the 3D cellular network of OSTs in human bone. This 3D tissue model was successfully used to support the osteocytic differentiation of primary human OSB cells within the BCPm structure, while maintaining a single cell layer of osteoblasts on the surface of the 3D tissue resembling the bone endosteum.
Results: Integration of the 3D bone tissue with CR-PCa cells resulted in a compromised endosteal layer after only 4 days of coculture, with more apoptotic OSTs in the tissues with CR-PCa vs. no PCa cells controls (P&lt;0.01). For functional analysis, we stained 5 μm sections of the 3D tissues for alkaline phosphatase (ALP, an OSB marker) and sclerostin, an osteocytic marker and major signaling molecule released by embedded OSTs that suppresses osteoblastogenesis. Quantification of immunofluorescence staining revealed that ALP was significantly increased (P&lt;0.05), whereas sclerostin significantly decreased (P&lt;0.01) with the introduction of CR-PCa cells. This OSB phenotype, induced by PCa-bone interactions ex vivo, is entirely consistent with the OSB prostate cancer-bone metastasis niche seen in patients with advanced disease.
Conclusions: Our model recapitulates: (1) an OSB monolayer closely resembling the endosteum at the bone/ bone marrow interface, (2) the complex microphysiological features and functions of 3D-networked OSTs, and (3) the interactions of primary PCa cells with osteoblasts and OSTs.
Citation Format: Jenny Zilberberg, Saba Choudhary, Eugenia Dziopa, Cirian Mannion, Yair Kissin, Erika Parasido, Christopher Albanese, Woo Lee. An ex vivo 3D bone metastasis model for prostate cancer [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2018; 2018 Apr 14-18; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2018;78(13 Suppl):Abstract nr 1083A.
Abstract 1086: Phosphoproteomic analysis of signaling pathways driving bone metastasis in prostate cancer
Authors: Abbott Benjamin , Pierce Andrew , Whetton Anthony D. , Townsend Paul A. 
Published: August 2018

Abstract
Osteoblasts play a fundamental role in prostate cancer bone metastasis, whereby dysregulated bone remodelling results in bone pain, fractures and increased mortality. Although it remains unclear how early on in the disease pathway prostate cancer cells populate the endosteal niche, osteoblasts almost certainly play a role in the homing of tumor cells to this microenvironment. In support of this, prostate cancer cells have been shown to home to osteoblast-rich areas in animal models of bone metastasis and human prostate cancer bone metastases are typically osteoblastic on radiography. We have shown that conditioned medium from mature, mineralising human hFOB1.19 osteoblasts (hFOB-CM) is rich in pro-inflammatory cytokines including IL-6, IL-8 and various chemokine ligands. hFOB-CM promotes a strong migratory and invasive phenotype in a panel of prostate cancer cell lines (including androgen-sensitive and -insensitive lines), with invading cells displaying increased actomyosin contractility and amoeboid-like traits, namely a rounded cell morphology, cytoskeletal reorganization and phosphorylation of myosin light chain. We now aim to comprehensively interrogate the intracellular signaling pathways driving endosteal homing in prostate cancer cells by systems-wide ITRAQ mass spectrometry-based phosphoproteomic analysis of prostate cancer cells treated with hFOB-CM. This approach will identify individual signaling pathways or combinations of pathways to target with existing kinase inhibitors to inhibit osteoblast-driven invasion and endosteal homing during prostate cancer metastasis. Ultimately, targeting tumor cell responses to stromal signals may prove critical in the search for better therapies to treat this frequently lethal disease.
Citation Format: Benjamin Abbott, Andrew Pierce, Anthony D. Whetton, Paul A. Townsend. Phosphoproteomic analysis of signaling pathways driving bone metastasis in prostate cancer [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2018; 2018 Apr 14-18; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2018;78(13 Suppl):Abstract nr 1086.
Abstract 1099: Molecular drivers of neutrophil recruitment to primary non-small cell lung cancer
Authors: Wang Claire , Rayes Roni , Mouhanna Jack , Giannias Betty , Chandrasekaran Arvind , Mot Rachel , Moraes Christopher , Huang Sidong , Cools-Lartigue Jonathan , Bertos Nicholas , Ferri Lorenzo , Spicer Jonathan 
Published: August 2018

Abstract
Neutrophils are associated with developing cancer lesions and are the main immune component of primary non-small cell lung cancer (NSCLC). Multiple studies support the notion that tumor associated neutrophils (TANs) can promote tumor progression. We hypothesize that there is a hierarchy of molecular cues produced by developing lung cancers that guide circulating neutrophils to infiltrate the tumor microenvironment and become TANs. Identifying these cues may permit modulation of neutrophil infiltration within developing lung cancers and may thereby act as an immunotherapeutic tool to suppress cancer progression and improve response to existing therapeutics. To this end, we profiled 5 established NSCLC cell lines representing the common NSCLC subtypes using a qRT-PCR 84 gene panel (A549; KRAS mutant, PC9; EGFR mutant, H1993; MET amplification, H3122; EML4-ALK translocation, HCC78; ROS1 translocation). We focused on 4 of the most commonly upregulated genes in all cell lines, which were osteopontin (Spp1), vascular endothelial growth factor A (VEGF-A), macrophage inhibitory factor (MIF), and C-X-C motif ligand 1 (CXCL1). After confirming protein expression of these targets by western blot, we performed shRNA knock down (KD) of these genes and tested the migration of neutrophils towards treated and control cell lines in a novel microfluidic device that allows increased throughput studies of neutrophil attractants. Findings from KD experiments were confirmed via antibody-mediated inhibition. We observed a 3-fold increase of neutrophil migration to the A549 cancer cell line compared to the serum free control (p=0.0265). Furthermore, this increase was inhibited in Spp1 (64% decrease), MIF (84%), VEGF (82%) KDs and their corresponding neutralizing antibodies. We have therefore identified 4 proteins that play a key role in neutrophil recruitment to NSCLC cell lines in vitro and have demonstrated the application of a simple microfluidic device to test neutrophil migration patterns. This data provides the basis for in vivo investigations to elucidate the key molecular cues for neutrophil infiltration within developing lung cancers.
Citation Format: Claire Wang, Roni Rayes, Jack Mouhanna, Betty Giannias, Arvind Chandrasekaran, Rachel Mot, Christopher Moraes, Sidong Huang, Jonathan Cools-Lartigue, Nicholas Bertos, Lorenzo Ferri, Jonathan Spicer. Molecular drivers of neutrophil recruitment to primary non-small cell lung cancer [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2018; 2018 Apr 14-18; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2018;78(13 Suppl):Abstract nr 1099.
Abstract 1100: Screening the chemical library against granulocytic MDSCs: Critical player in breast cancer metastasis
Authors: Korkaya Hasan , Lee Eunmi , Piranioglu Raziye , Albers Thomas , Ouzounova Maria , Weeks Charlie , Rodier Riley , Korkaya Ahmet K. , Hassan Khaled A. 
Published: August 2018

Abstract
We recently demonstrated that infiltration of granulocytic MDSCs in distant organs is a critical step in metastatic process. The mouse transcriptome analysis of in vitro co-cultures and samples from syngeneic mouse model revealed that granulocytic subset of myeloid-derived suppressor cells (gMDSCs) from metastatic 4T1 tumor bearing mice are regulated a distinct set of genes. Two genes, S100A8 and S100A9 were highly upregulated in gMDSCs isolated from mice with metastatic 4T1 tumors compared to mice with non-invasive tumors. Using the recombinant single S100A8, S100A9 proteins or the S100A8/S100A9 heterotetramer (calprotectin), we demonstrated that calprotectin is a critical player in gMDSC induction and infiltration in distant organs particularly in lungs. Furthermore, injection of recombinant calprotectin but not single S100A8 or S100A9 proteins via tail vein enhanced the metastatic ability of nan-invasive EMT6 tumors in mice. We therefore performed computational screen of NCI compounds against the crystal structure of calprotectin and identified over 100 lead compounds. In vitro gMDSC differentiation assay identified 3 compounds with strong gMDSC inhibitory activity. We therefore designed a pilot experiment to test these compounds in preclinical mouse models. We also compared the activity of these compounds against tasquinimod, a small molecule targeting S100A9 only. However, tasquinimod treatment of 4T1 tumor-bearing mice had a moderate anti-tumor activity which may be due to a limited activity on granulocytic MDSC accumulation. In addition, we determined that there was a significant upregulation of S100A8 in MDSCs from tasquinimod treated mice. This data suggested that inhibiting only S100A9 leads to activation of S100A8 and thus may be ineffective targeting of MDSCs. In line with these data, one of the compounds (#10) showed a potent activity against gMDSCs in 4T1 tumor-bearing mice and significantly inhibited pulmonary metastasis. Moreover, this compound eliminated the cytotoxicity caused by cyclophosphamide and animals were free of cancer. In summary, we have identified a molecular target which regulates gMDSC induction and play critical role in metastatic process and our findings from in vitro screens and preclinical testing provide a strong rationale for targeting MDSCs.
Citation Format: Hasan Korkaya, Eunmi Lee, Raziye Piranioglu, Thomas Albers, Maria Ouzounova, Charlie Weeks, Riley Rodier, Ahmet K. Korkaya, Khaled A. Hassan. Screening the chemical library against granulocytic MDSCs: Critical player in breast cancer metastasis [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2018; 2018 Apr 14-18; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2018;78(13 Suppl):Abstract nr 1100.
Abstract 1115: A CRISPR/Cas9 kinome screen identifies GRK5 as a novel regulator of rhabdomyosarcoma (RMS) self-renewal
Authors: Pham Thao Q. , Vleeshouwer-Neumann Terra , Chen Eleanor 
Published: August 2018

Abstract
Rhabdomyosarcoma (RMS) is a devastating pediatric soft tissue sarcoma. Clinical outcome for patients with relapsed or metastatic disease remains poor. However, current treatment options remain relatively unchanged over the last two decades, so there remains an urgent need for more effective treatment options for disease relapse. Cancer stem cells (CSCs), also known as tumor-propagating cells (TPCs), have the capacity for self-renewal and have been proposed to be responsible for tumor relapse and metastasis. RMS has been shown to follow the CSC model of tumor progression. We have previously performed an siRNA library screen against the human kinome (714) and a secondary CRISPR/Cas9 screen of top candidates to narrow down to 11 novel kinase candidates that are potentially essential for self-renewal of human RMS cells. GRK5, a G-protein coupled receptor kinase, was among the top candidate genes. Preliminary data from in vitro cell-based assays and in vivo limiting-dilution experiments in xenografts showed that CRISPR/Cas9-mediated targeted disruption of GRK5 resulted in significant reduction in the self-renewal capacity of RMS cells. GRK5-deficient RMS cells also displayed significant reduction in growth secondary to cell cycle arrest at the G2/M checkpoint. The functional effects on tumor growth and self-renewal appeared unique to GRK5 among the GRK kinase subfamily, as targeted disruption of closely-related GRK4 and GRK6 did not significantly affect RMS tumor cell growth and self-renewal. We propose that targeted disruption of GRK5 by CRISPR/Cas9 results in elevated p53 protein stability and activity, leading to inhibition of proteins required for cell cycle progression. We are also characterizing the loss-of-function effects of GRK5 in a RMS TPC reporter cell line created using a CRISPR/Cas9 knockin approach that will allow for direct assessment of GRK5 and other candidate gene function within the TPC population. By characterizing the biologic role of TPC as well as the function of GRK5 in RMS, we hope to provide new biologic insights into cancer stem cell biology and GRK5 as a novel therapeutic target for the treatment of advanced RMS.
Citation Format: Thao Q. Pham, Terra Vleeshouwer-Neumann, Eleanor Chen. A CRISPR/Cas9 kinome screen identifies GRK5 as a novel regulator of rhabdomyosarcoma (RMS) self-renewal [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2018; 2018 Apr 14-18; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2018;78(13 Suppl):Abstract nr 1115.
Abstract 1119: Quaking (Qki) loss enhances stemness of glioma stem cells through regulating intracellular vesicle trafficking system
Authors: Hu Jian , Shingu Takashi 
Published: August 2018

Abstract
Glioma stem cells (GSCs) have higher self-renewal capacity than neural stem cells (NSCs), yet the underlying molecular mechanism is less clear. Here we report the generation of a novel conditional KO allele of Quaking (Qki), a tumor suppressor in glioblastoma with RNA binding activity. When Qki was deleted in Nestin-CreERT2;QkiL/L mice, the NSC population, which is characterized by long-term BrdU retention and GFAP+/Nestin+ double positive staining, was greatly increased, indicating that Qki deletion enhances NSC self-renewal. To determine whether Qki deletion promotes gliomagenesis, we generated a Nestin-CreERT2;QkiL/L;PtenL/L;p53L/L cohort, in which 92% of the mice developed glioblastoma with a median survival of 105 days. However, the Nestin-CreERT2;PtenL/L;p53L/L cohort did not develop any glioma up to a year; therefore Qki deletion greatly promotes gliomagenesis. Transcriptomic and proteomic profiling coupled with PAR-CLIP (Photoactivatable-Ribonucleoside-Enhanced Crosslinking and Immunoprecipitation) analyses revealed that genes involved in intracellular vesicle trafficking were greatly enriched by Qki deletion. Specifically, 34% of the genes up-regulated by Qki deletion are involved in receptor delivery, and 39% of the genes down-regulated by Qki deletion are subunits of receptor degradation machineries such as endosomes and lysosomes. High level of receptor delivery and low level of receptor degradation concomitantly enrich receptors on the membrane and enhance the activity of the receptors that are involved in maintaining stemness, including RTK, Notch1 and Frizzled. Lower lysosomal activity induced by Qki deletion also leads to defective mitophagy, which consequently leads to accumulation of damaged mitochondria, high level of ROS, and genomic instability in Qki-deficient NSCs. We identified that genomic instability induced by Qki deletion led to accumulation of classical glioblastoma-associated mutations such as copy number gains of PDGFRa, Cyclin D1 and Cyclin D3. Taken together, our data suggest that Qki loss-induced endolysosomal defects promotes gliomagenesis through both reducing receptor degradation and inducing genomic instability.
Citation Format: Jian Hu, Takashi Shingu. Quaking (Qki) loss enhances stemness of glioma stem cells through regulating intracellular vesicle trafficking system [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2018; 2018 Apr 14-18; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2018;78(13 Suppl):Abstract nr 1119.