tbuckley/cabot-search huggingface dataset:
Efficacy of probe-based confocal laser endomicroscopy for surveillance in ulcerative colitis endomicroscopy for ulcerative colitis surveillance
Authors: T. Watanabe
Journal: Endoscopy (2011)

We read with interest the study by van den Broek and colleagues published in the recent issue of Endoscopy [1]. The authors examined whether the use of probe-based confocal laser endomicroscopy (pCLE) may increase the efficiency of surveillance of patients with ulcerative colitis. In the study, 48 visible lesions and 87 random areas in 22 patients with ulcerative colitis were evaluated by real-time narrow-band imaging (NBI) and high-definition endoscopy (HDE). Fluorescein-enhanced pCLE was performed prior to biopsy. The outcome measures were the feasibility and the diagnostic accuracy of pCLE. They showed that the sensitivity, specificity, and accuracy of pCLE were 65 %, 82 %, and 81 %, whereas these figures were 100 %, 89%, and 92 % for real-time endoscopic diagnosis with NBI and HDE. From these results, the authors concluded that pCLE for ulcerative colitis surveillance is feasible and has reasonable diagnostic accuracy.
Detection of Circulating Tumor Cells and Early Recurrence in Patients Undergoing Radical Resection for Non-Small-Cell Lung Cancer
Authors: C.I. Bayarri-Lara, M.J. Serrano, C.F. Giraldo, F.G. Ortega, F.J. Ruiz-Zafra, A. Sánchez-Palencia, J.L. García-Puche, M. Delgado-Rodriguez, J.A. Navajas, A. Cueto
Journal: Annals of Oncology (2015)
Endoscopic radiofrequency ablation for Barrett’s esophagus: 5-year outcomes from a prospective multicenter trial
Authors: D. Fleischer, B. Overholt, V. Sharma, A. Reymunde, M. Kimmey, R. Chuttani, K. Chang, R. Muthasamy, C. Lightdale, N. Santiago, D. Pleskow, P. Dean, K. Wang
Journal: Endoscopy (2010)

Background and study aims: The AIM-II Trial included patients with nondysplastic Barrett's esophagus (NDBE) treated with radiofrequency ablation (RFA). Complete eradication of NDBE (complete response-intestinal metaplasia [CR-IM]) was achieved in 98.4 % of patients at 2.5 years. We report the proportion of patients demonstrating CR-IM at 5-year follow-up.
Abstract 1795: Impact of ischemia time on mRNA and microRNA expression in surgical liver tissue.
Authors: Claudia Schuster, Wolfgang E. Thasler, Thomas Kirchner, Falk Hlubek
Journal: Cancer Research (2013)

Abstract Human frozen tissues are one of the best sources for molecular analyses such as microarrays, qPCR or Next-Generation-Sequencing. In addition, frozen tissues are particularly valuable for biomarker identification. Several biobanks comprising non-fixed frozen tissues have been established alongside with corresponding clinical data repositories to facilitate biomarker studies relevant for clinical diagnostics. Apart from proteomic approaches, mRNA- and microRNA-expression profiles have shown to be highly valuable for biomarker studies. Since RNA is generally a fragile molecule, RNA integrity in tissue specimens has tremendous impact on gene expression analyses, requiring a rigorous quality assessment of biobank tissue samples. To address this issue, we established a tissue quality test system based on RNA integrity and differential gene expression. We used normal liver tissue, that was snap frozen after various periods of ischemia time. The RNA was isolated and the quality was assessed in four steps: First, the RNA was quantitated by spectrophotometry (NanoDrop) and total RNA quality was determined by on-chip electrophoresis (Experion). Second, the degree of RNA degradation and the maximum length of RNA molecules available for downstream applications was determined by amplicon length analysis using PCR amplification. Third, the RNA expression levels of selected genes were determined and correlated to the time and condition of ischemia. The genes analysed comprised highly regulated genes, signaling pathway genes and genes induced by hypoxia or apoptosis. Fourth, the expression of selected miRNAs involved in signaling pathway regulation was determined by quantitative PCR. Taken together we analysed mRNA and miRNA stability in correlation to the time of warm and cold ischemia and its impact on signaling pathway regulation in liver tissue samples. The results enabled us to establish a RNA-based quality assessment procedure of tissue specimen for frozen tissue biobanks. This study may facilitate and optimise the logistics of biobanking processes. Citation Format: Claudia Schuster, Wolfgang E. Thasler, Thomas Kirchner, Falk Hlubek. Impact of ischemia time on mRNA and microRNA expression in surgical liver tissue. [abstract]. In: Proceedings of the 104th Annual Meeting of the American Association for Cancer Research; 2013 Apr 6-10; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2013;73(8 Suppl):Abstract nr 1795. doi:10.1158/1538-7445.AM2013-1795
Abstract 140: microRNA regulation of cell viability and drug response in cancer
Authors: Liqin Du, Christopher DeSevo, Robert Borkowski, Michael Baker, Ignacio Wistuba, John Minna, Alexander Pertsemlidis
Journal: Cancer Research (2012)

Abstract Lung cancer is the leading cause of cancer-related deaths, with the majority of deaths due to failed therapy from tumor drug resistance. Third-generation chemotherapeutic agents represent the standard first-line treatment for advanced small cell (SCLC) and non-small cell (NSCLC) lung cancer patients. Response rates are poor (20-40%) with a median survival of 8-10 months. In an unbiased and comprehensive approach, we have combined a high-throughput screening platform with a library of chemically synthesized microRNA mimics and inhibitors. We have used this platform to identify mimics and inhibitors that reduce cell viability in general, and those that specifically sensitize cells to taxanes. We have identified several miRNAs for which over-expression or inhibition has a dramatic and selective effect on cell viability or drug response. We have demonstrated that miR-337-3p mimic sensitizes NSCLC cells to taxanes. By combining in vitro and in silico approaches, we identified STAT3 and RAP1A as direct targets that mediate the effect of miR-337-3p by enhancing taxane-induced arrest in the G2 phase of the cell cycle. We have identified an inhibitor of miR-139-5p as a potent and selective regulator of SCLC cell viability. Inhibiting miR-139-5p decreases SCLC cell viability by over 80%, but has a minimal cytotoxic effect on that of NSCLCs or immortalized human bronchial epithelial cells. We are currently investigating the targets of miR-139-5p that mediate its effect on SCLC cell viability. We also identified miR-10a inhibitor as increasing cell viability, with the converse observed for miR-10a mimic, suggesting that miR-10a acts as a tumor suppressor gene by directly decreasing expression of gene(s) that promote cell survival and growth. Manipulation of miR-10a levels also resulted in significant changes in both mRNA and protein levels of its predicted target, the catalytic subunit of phosphatidylinositol 3-kinase (PI3K), which has been shown to play a major role in proliferation and survival in a number of human cancers and is a significant therapeutic target. We have identified miR-337-3p as a regulator of taxane sensitivity, and miR-10a and miR-139-5p as modulators of cell viability. Increasing levels of miR-337-3p and inhibiting miR-10a and miR-139-5p may therefore provide novel therapeutic tools for the treatment of NSCLC and SCLC. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 103rd Annual Meeting of the American Association for Cancer Research; 2012 Mar 31-Apr 4; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2012;72(8 Suppl):Abstract nr 140. doi:1538-7445.AM2012-140
Abstract LB-410: A single nucleotide polymorphism in human PIGK gene associates with low PIGK expression in colorectal cancer patients
Authors: Santanu Dasgupta, Yumei Fu, Aviram Nissan, David Halle, David Sidransky, Barry Trink
Journal: Cancer Research (2010)

Abstract Colorectal cancer (CRC) has one of the highest incidences of cancers worldwide and is the fourth most common cancer among men and women in the United States. In Israel, approximately 3000 new CRC cases are being diagnosed annually, representing 13% of all new cases. CRC ranks second in the total number of cancer cases both in the Jewish male and female population. It is uncommon in the non-Jewish (Arab) population. Phosphatidylinositol glycan, class K (PIGK) is an integral member of the Glycosylphosphatidylinositol transamidase (GPIT) protein complex that attaches a diverse group of macromolecules to the plasma membrane of eukaryotes. It is well established that PIGK catalyzes the endoproteolysis and amidation steps involved in transfer of a GPI-anchor to proteins. However, the role of PIGK in tumorigenesis remains largely unknown. Recently, we found a markedly low expression of PIGK protein in some colorectal cancer (CRC) patients. In order to understand the mechanism behind, we examined all the 10 exons of the PIGK gene by DNA sequencing and genotyping in 20 CRC patients from Israel (16 Jews and 4 Arabs). Corresponding expression of the PIGK protein was also determined by immunohistochemistry in all the above CRC patients. We found a single nucleotide polymorphism (C/C C/G or G/G; rs1048575) in the 3′UTR of the PIGK gene in 65% (13/20) of the CRC patients. Most of the patients with the altered genotype were Jews (12 vs. 1). Three out of four Arab patients (75%) exhibited the ancestral C/C genotype. We also observed a significantly low (P&amp;lt;0.002) expression of PIGK protein in all the patients with the altered allele (C/G or G/G) compared to the ancestral alleles (C/C). Similar observation was made on PIGK expression in a couple of transformed human colon cell lines with the ancestral (C/C) and altered (/C/G) genotype. Our results demonstrate for the first time a link between the SNP-1048575 and low PIGK expression in CRC patients and also suggest a possible association between altered PIGK expression and CRC susceptibility. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 101st Annual Meeting of the American Association for Cancer Research; 2010 Apr 17-21; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2010;70(8 Suppl):Abstract nr LB-410.
European Medical Oncologists Debate Benefit of Intensive Chemotherapy Regimens
Authors: Cori Vanchieri
Journal: JNCI Journal of the National Cancer Institute (1992)

Journal Article European Medical Oncologists Debate Benefit of Intensive Chemotherapy Regimens Get access Cori Vanchieri Cori Vanchieri Search for other works by this author on: Oxford Academic PubMed Google Scholar JNCI: Journal of the National Cancer Institute, Volume 84, Issue 24, 16 December 1992, Pages 1858–1859, https://doi.org/10.1093/jnci/84.24.1858 Published: 16 December 1992
Abstract 4432: MMP9 reinforces radiation-induced delayed invasion and metastasis of neuroblastoma through second-signaling positive feedback with NFκB via both ERK and IKK activation.
Authors: Ryan Major, Sheeja Aravindan, Mohan Natarajan, Terence S. Herman, Natarajan Aravindan
Journal: Cancer Research (2013)

Abstract Tumor recurrences continue to remain high in neuroblastoma (NB), and a substantial fraction of those develop metastatic disease with only 10% survival in systemic recurrences. Efficient and improved therapeutic strategy can be developed through targeted drug delivery approach and by intervening molecular pathways operating in response to tumor recurrence. Herein, we investigated the onset and maintenance of metastatic signal transduction in neuroblastoma (SH-SY-5Y, MC-IXC, SK-PN-DW and IMR-32) cells that survive after radiotherapy. Gelatin zymography revealed that exposure to radiation induces significant and consistent increase in MMP2 and MMP9 activity. Further, muting radiation induced NFκB with dominant negative mutant IkB and/or forced expression of NFκB (p50/p65 sub-units) in these cells affirmed the influence of radiation-induced NFκB in MMP9 transactivation (QPCR), translation (immunoblotting) and activity (sequence specific substrate based high sensitive fluorogenic assay). Interestingly, blocking radiation-induced MMP9 with GM-6001 profoundly inhibited p65 transactivation and nuclear localization. More importantly, blocking radiation-induced MMP9 greatly introverted radiation-induced phosphorylation of IKK in these cells. Furthermore, radiation increased both transactivation and activity of ERK-1 (active ERK/phosphor-transferase immunoprecipitation) in neuroblastoma cells. This pathway was further defined (MMP9 blocking and activation, PMA studies) to show that radiation-induced functional MMP9 is necessary for activation of ERK- and NFκB-dependent onset of metastasis (tumor invasion and metastasis transcriptome profiling) in surviving NB cells. Selective MMP9-dependent ERK regulation was confirmed with futile inhibition of ERK activity in aprotinin treated cells. Together, these data strongly suggest that radiation induced NFκB-dependent MMP9 reinforces radiation-induced delayed invasion and metastasis. Further, these results imply that the MMP9 dependent reinforcement may involve dual signaling feedback activation of NFκB though ERK and IKK phosphorylation. Citation Format: Ryan Major, Sheeja Aravindan, Mohan Natarajan, Terence S. Herman, Natarajan Aravindan. MMP9 reinforces radiation-induced delayed invasion and metastasis of neuroblastoma through second-signaling positive feedback with NFκB via both ERK and IKK activation. [abstract]. In: Proceedings of the 104th Annual Meeting of the American Association for Cancer Research; 2013 Apr 6-10; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2013;73(8 Suppl):Abstract nr 4432. doi:10.1158/1538-7445.AM2013-4432
Analysis of factors associated with increased psychological distress in new outpatients at the breast clinic.
Authors: N Ando, Y Iwamitsu, M Kuranami, S Okazaki, M Wada, K Yamamoto, M Watanabe, H Miyaoka
Journal: Cancer Research (2009)

Abstract Abstract #3110 Objective: To determine how psychological characteristics, subjective symptoms, and a family history of breast cancer affect the mood states of outpatients with mammary gland complains at the first hospital visit.&amp;#x2028; Participants and methods: Written consent to participate in the study was provided by 242 outpatients with mammary gland complains at Kitasato University hospital from November 2004 to January 2007. Participants either visited our hospital directly, or were referred here from another clinic. Participants were asked to complete questionnaires determining scales of the following: trait anxiety (State-Trait Anxiety Inventry-Trait; STAI-Trait), negative emotion suppression (Courtauld Emotional Control Scale; CECS), life stress events (Life Experiences Survey; LES), and mood states (Profile of Mood States; POMS) and return them either by mail or at the time of the next clinical examination. In addition, we examined subjective symptoms (lump, pain, abnormal nipple discharge, or deformed nipple) and family history of breast cancer based on answers to the interview sheet filled out by patients on their first visit to the hospital. We excluded 45 patients who submitted incomplete answers, 38 who did not reply, and 5 who were considered to be ineligible for other reasons. The analysis covered a total of 154 patients (age (years); mean=49.94, SD=12.22). Approval for this study was granted by the Institutional Review Board of Kitasato University School of Medicine and Hospital.&amp;#x2028; Results and conclusion: We performed multiple regression analysis (forced entry method) to assess how mood states (POMS score) are affected by the following factors: age at the time of first visit, trait anxiety (STAI-Trait score), emotional suppression (CECS score), number of life stress events (LES total score), number of negative evaluations of life stress events (LES balance score), subjective symptoms, and a family history of breast cancer. We obtained a significant model (adjusted R2=0.558, p&amp;lt;0.01) in which trait anxiety, emotional suppression, number of life stress events, and the standard partial regression coefficient of subjective symptoms were found to be statistically significant (beta=0.618, 0.111, 0.181, 0.118; p&amp;lt;0.05, respectively). This suggests that mood states at the first visit are less positive when patients have high trait anxiety, emotional suppression, many life stress events, and subjective symptoms. In particular, trait anxiety had a particularly large impact on mood states, indicating the importance of psychological assistance. Citation Information: Cancer Res 2009;69(2 Suppl):Abstract nr 3110.
FRI0329 Adalimumab therapy in 40 patients with refractory juvenile idiopathic arthritis-associated uveitis. A multicenter study
Authors: J. Loricera, V. Calvo-Río, M. Díaz-Llopis, D. Salom, C. García-Vicuña, M. Cordero-Coma, N. Ortego, M. Suárez-Figueroa, J.C. Fernández-Cid, A. Fonollosa, A.M. Garcia-Aparicio, J.M. Benitez-del-Castillo, J.L. Olea, J. Rueda-Gotor, M.A. González-Gay, R. Blanco
Journal: Annals of the Rheumatic Diseases (2013)

<h3>Background</h3> Ocular involvement is a well known serious complication of Juvenile Idiopathic Arthritis (JIA), sometimes refractory to conventional treatment. <h3>Objectives</h3> To assess the efficacy and safety of treatment with adalimumab therapy in patients with refractory Juvenile Idiopathic Arthritis (JIA) associated uveitis. <h3>Methods</h3> Multicenter study on 40 patients diagnosed as having JIA-associated uveitis refractory to treatment with corticosteroids therapy and at least another systemic immunosuppressive drug. Standard adalimumab therapy was started (40 mg subcutaneously every-other-week, for children aged between 4 and 12 years, the recommended dose was 24 mg/m<sup>2</sup> body surface area up to a maximum single dose of 40 mg s.c. every other week. The associated immunosuppressive therapy and the prednisone dose were reduced if there was no evidence of inflammation. The degree of anterior and posterior chamber inflammation (SUN criteria), corticosteroid dose, and macular thickness (optical coherence tomography) were assessed. Definite outcomes were assessed at six months in all patients. All comparisons were performed between baseline and 6 months after the onset of adalimumab therapy (Wilcoxon test). <h3>Results</h3> Forty patients (11 males, 29 females), mean age of 11.4±7.9years (range: 4 to 44 years), with active intraocular inflammation at baseline were studied. Thirty-six of the 40 patients had inflammation in the anterior camera, and treatment with adalimumab achieved a significant improvement in the mean tyndall from 1.8±1.1 to 0.41±0.6; p=0.000001. Also, 17 patients (42.5%) had inflammation in the posterior camera with foveal Optic Coherence Tomography (OCT) &gt;250 microns. These cases had a significant improvement in OCT from 370.8±133.9 to 249.3±28 microns; p=0.0007. In addition, 9 patients with Cystoid Macular Edema (CME) (OCT&gt;300) also had a significant improvement in OCT (463.1±123.8 to 254.4±30.2, p=0.007). Following adalimumab, corticosteroid dose was decreased from 0.26±0.4 to 0.004±0.02mg/day (p=0.00061). Adalimumab was usually well tolerated, and only local minor side-effects at the injection site were observed. Twelve patients (30%) had a mild relapse during the 6 months of therapy whereas only 2 patients (5%) had a moderate-severe relapse. <h3>Conclusions</h3> Adalimumab seems to be an effective and safe drug for the treatment of refractory JIA-associated uveitis. In addition, adalimumab may help to reduce corticosteroid requirement. Further controlled studies are warranted. <h3>Disclosure of Interest</h3> None Declared
Emergency Room Triage of Patients with Acute Chest Pain by Means of Rapid Testing for Cardiac Troponin T or Troponin I
Authors: Christian W. Hamm, Britta U. Goldmann, Christopher Heeschen, Georg Kreymann, Jürgen Berger, Thomas Meinertz
Journal: New England Journal of Medicine (1997)

Evaluation of patients with acute chest pain in emergency rooms is time-consuming and expensive, and it often results in uncertain diagnoses. We prospectively investigated the usefulness of bedside tests for the detection of cardiac troponin T and troponin I in the evaluation of patients with acute chest pain.
Identity and Cytotoxic Capacity of Cells Infiltrating Renal Allografts
Authors: Terry B. Strom, Nicholas L. Tilney, Charles B. Carpenter, George J. Busch
Journal: New England Journal of Medicine (1975)

To determine the identity and cytotoxic capacity of lymphoid cells involved in allograft rejection, we studied viable, monodispersed cells recovered from 10 rejected human renal allografts. A heterogeneous population of cells including macrophages and both bone-marrow (B) and thymus-derived (T) lymphocytes accumulate in rejected grafts. Infiltrating lymphocytes exerted a specific cytolytic effect on 51Cr-labeled peripheral blood lymphocytes bearing donor antigens, ranging from 7 to 44 per cent specific lysis in nine of 10 cases. Cytolysis was closely correlated (r = 0.91, p < 0.05) with the histologic grade of cellular rejection but not with humoral rejection, suggesting that cytotoxic lymphocytes are an important element in cellular rejection. Limited fractionation studies showed that both T cells (in early rejection) and non-T cells (in late rejection) may produce cytotoxicity. Since as many as 50 per cent of cells recovered bore Fc receptors, the rejection process may also involve antibody-dependent target-cell lysis. (N Engl J Med 292:1257–1263, 1975)
Abstract 1430: Characterization of the medulloblastoma splice-ome reveals subgroup-specific changes in alternative splicing and isoform expression patterns
Authors: Adrian M. Dubuc, Sorana Morrissy, Nanne Kloosterhof, Paul Northcott, Emily Yu, John Peacock, Pim French, Michael Taylor
Journal: Cancer Research (2012)

Abstract Medulloblastoma candidate gene approaches have previously identified alternative splicing and isoform expression changes affecting genes critical for cerebellar development and medulloblastoma pathogenesis. Here we present a bioinformatic characterization of the medulloblastoma splice-ome in 103 primary tumors and 14 normal cerebella samples. Medulloblastomas display a statistically significant increase in alternative splicing relative to normal fetal cerebella (2.3-times; P&amp;lt;6.47E-8), with splicing patterns that are specific to each molecular subgroup. Unsupervised hierarchical clustering of alternatively spliced genes accurately assigns medulloblastomas to their correct subgroup. One-third of all medulloblastomas (n=26) display a ‘hyper-spliced’ phenotype, with median splicing levels four-times greater than non-hyperspliced tumors. Hyperspliced medulloblastomas show a relatively worse overall survival (P&amp;lt;3.08E-2), and are seen across all molecular subgroups. Our analysis identifies previously reported splicing events targeting ERBB4 (mixed MB), GLI1 (SHH) and PTCH1 (SHH), supporting our approach. Subgroup-specific pathway analysis of alternatively spliced genes reveals extensive deregulation of neuronal pathways in non-WNT medulloblastomas, with the specific targeting of genes important for axonal guidance, synaptic transmission and neuronal differentiation. Finally, we present evidence for putative regulation of alternative splicing by antisense transcription. These data further demonstrate the differences between medulloblastoma subgroups, and highlight alternative splicing and isoform expression as a mechanism contributing to the transcriptional heterogeneity between subgroups, and perhaps to subgroup specific pathogenic mechanisms. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 103rd Annual Meeting of the American Association for Cancer Research; 2012 Mar 31-Apr 4; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2012;72(8 Suppl):Abstract nr 1430. doi:1538-7445.AM2012-1430