tbuckley/cabot-search huggingface dataset:
Abstract 131: Hypomethylation of Alu repeat sequences permits activation of microRNAs in human colorectal cancer metastasis
Authors: Keun Hur, Clement Richard Boland, Ajay Goel
Journal: Cancer Research (2012)

Abstract Background: Global hypomethylation of cytosines within CpG dinucleotides has been reported in various human cancers. Repetitive elements dispersed throughout the human genome, including Alu and LINE1 sequences, have been used as global surrogate markers for estimating global DNA methylation levels. Recent evidence indicates that certain human miRNAs are located downstream of Alu sequences, and these non-coding RNAs can be transcribed by the recruitment of RNA polymerase III to the promoter region of Alu repeats. Primary colorectal cancers (CRC) demonstrate frequent global Alu hypomethylation; however, it is not clear whether hypomethylation of these repeat elements may be associated with a metastatic phenotype. Aim: This study aimed to determine the role of Alu hypomethylation in the development of CRC metastasis. Materials and Methods: We analyzed a panel of CRC cells, as well as matched pairs of primary CRCs (PC) and corresponding liver metastasis (LM) tissues from 59 CRC patients. Alu methylation levels were measured by quantitative bisulfite pyrosequencing. In addition, we determined the expression status of miR-520c and miR-373, which are located immediately downstream of Alu repeats. Results: All CRC cell lines demonstrated Alu hypomethylation, which was further exacerbated by treatment with the DNA demethylating agent, 5-azacytidine. In the clinical specimens, the levels of Alu methylation were significantly lower in LM compared to the matched PC (mean methylation value; PC = 83% vs. LM = 80%; P &amp;lt; 0.001). Moreover, methylation analysis of surrounding normal liver tissues revealed higher levels of Alu methylation (mean methylation value; 85%) compared to both PC and LM. The expression of both miR-520c and miR-373, showed significantly different expression between PC and LM, which was mediated by the hypomethylation of Alu-associated promoter region. Conclusion: Our results provide novel evidence for increased Alu hypomethylation in liver metastasis tissues from patients with CRC. We speculate that hypomethylation of Alu repeat elements permits activation of metastasis-related miRNAs, which in turn may facilitate a more aggressive malignant phenotype in these advanced stage cancers. 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 131. doi:1538-7445.AM2012-131
Abstract LB-394: Marijuana use and testicular germ cell tumors
Authors: Britton Trabert, Alice J. Sigurdson, Anne M. Sweeney, Sara S. Strom, Katherine A. McGlynn
Journal: Cancer Research (2010)

Abstract Introduction: Since the early 1970's the incidence of testicular germ cell tumors (TGCT) in the U.S. has been increasing, however, environmental exposures accounting for this rise have not been identified. Trends in marijuana use have also increased during this period. Chronic marijuana use has been shown to produce adverse effects on the human endocrine and reproductive systems. A prior study of marijuana use and TGCT reported a significant association among frequent and long-term current users. We aimed to evaluate the relationship of marijuana use and TGCT in an existing hospital-based case-control study conducted at the University of Texas M. D. Anderson Cancer Center. Methods: TGCT cases diagnosed between January 1990 and October 1996 (n=187) and male friend controls (n=148) matched on age, race and state of residence were enrolled in the study. Associations of marijuana use and TGCT were estimated using unconditional logistic regression adjusting for age, race, prior cryptorchidism, cigarette smoking and alcohol intake. Associations stratified on histology (seminoma, nonseminoma) were also examined. Results: Overall, TGCT cases were more likely to be frequent marijuana users (daily or &amp;gt;1 day per week) than were controls [OR: 2.2, 95% CI: 1.0, 5.2]. In the analysis limited to nonseminomas, cases were significantly more likely than controls to be frequent users [OR: 3.3, 95% CI: 1.3, 8.6] and to be long-term users (10+ years) [OR: 2.3, 95% CI: 1.0, 5.8]. As the use of friend controls can bias the results of retrospective studies, we evaluated the extent to which reporting of marijuana use among the controls was consistent with data from the 1996 population-based National Survey on Drug Use and Health (NSDUH). We compared the observed number of controls who reported ever using marijuana with the expected number based on age- and race-specific proportions in the NSDUH and found no significant difference [O/E ratio: 0.96; 95% CI: 0.74, 1.22], suggesting selection or reporting bias was not an explanation for the observed associations. Discussion: Our finding of an association between frequent marijuana use and TGCT, particularly among men with nonseminoma is consistent with the findings of a previous report. Marijuana use may be related to nonseminoma due to activation of the cannabinoid receptors during a critical time period in pubertal development; however it is also plausible that biologically active components of marijuana may function through pathways other than the endocannabinoid system. Additional studies of marijuana use and TGCT are warranted, especially studies evaluating the role of endocannabinoid signaling and cannabinoid receptors in TGCT. 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-394.
242 LIPOXIN A4 PROTECTS AGAINST HEPATOCYTE APOPTOSIS AND HEPATIC INJURY FROM LPS/D-GALN IN MICE BY MODULATING TOLL-LIKE RECEPTOR 4 EXPRESSION AND CYTOKINES PRODUCTIONS OF KUPFFER CELLS
Authors: J. Wan, R. Jiang, L. Zhang, H. Li, C. Wang, X. Gong
Journal: Journal of Hepatology (2012)
Frequently Cited Oncology Journals Listed
Authors: K. Nagy
Journal: JNCI Journal of the National Cancer Institute (1993)

Journal Article Frequently Cited Oncology Journals Listed Get access Kate Nagy Kate Nagy Search for other works by this author on: Oxford Academic PubMed Google Scholar JNCI: Journal of the National Cancer Institute, Volume 85, Issue 4, 17 February 1993, Page 265, https://doi.org/10.1093/jnci/85.4.265 Published: 17 February 1993
Credibility and incredibility: the psychiatric examination of the complaining witness
Authors: R L Goldstein
Journal: American Journal of Psychiatry (1980)

Psychiatrists are called on to evaluate the credibility (and incredibility) of complaining witnesses in criminal proceedings despite a longstanding controversy about their ability to accurately make such determinations. The author discusses the history of such psychiatric activity from Freud through the Alger Hiss prejury trial, its current status in terms of benefits to the criminal justice system, the legal and social questions it raises (e.g., the competing issue of the complainant's right to privacy), andthe court's restrictions on the psychiatrists. He presents two illustrative case histories.
Evaluation d'une enceinte de stockage d'endoscopes thermosensibles dans les conditions réelles d'utilisation
Authors: P Grandval, M Richard, G Hautefeuille, B Marchetti, L Pineau, R Laugier
Journal: Endoscopy (2011)

Introduction: La circulaire N°591 du 17/12/2003 mentionne que „les endoscopes doivent être stockés dans un endroit propre et s à l'abri de toute source de contamination microbienne dans une enceinte adaptée„ et précise également que lorsque l'endoscope a été stocké pendant plus de 12H, une désinfection s'impose avant le 1er acte endoscopique en raison du risque de prolifération bactérienne. Des enceintes de stockage des endoscopes thermosensibles (ESET) ont fait leur apparition sur le marché avec pour objectif le maintien de la qualité microbiologique des endoscopes, pendant une durée définie par le fabricant de l'ESET (norme NF S98–030: 2008). Si les ESET maintenaient la qualité microbiologique des endoscopes sur 72 heures, la période de stockage maximale autorisée avant re-désinfection pourrait être étendue.
Rescue therapy with anti-programmed cell death protein 1 inhibitors of advanced cutaneous squamous cell carcinoma and basosquamous carcinoma: preliminary experience in five cases
Authors: L. Borradori, B. Sutton, P. Shayesteh, G.A. Daniels
Journal: British Journal of Dermatology (2016)

Linked Comment:Soura et al.Br J Dermatol 2016; 175:1150–1151.
UNDERSTANDING SEX DIFFERENCES IN PATIENT CHARACTERISTICS AND SYMPTOM PRESENTATION IN PATIENTS ADMITTED WITH HEART FAILURE COMPLICATED BY ATRIAL FIBRILLATION: A GET WITH THE GUIDELINES - HEART FAILURE (GWTG-HF) STUDY
Authors: Mitra Daneshvar, Nayan Desai, Matthew Ortman, John Andriulli, Andrea Russo
Journal: Journal of the American College of Cardiology (2015)
NT-08 * A NOVEL HIGH-THROUGHPUT MICROFLUIDIC DEVICE DESIGNED TO ACCELERATE THE DISCOVERY OF GLIOBLASTOMA-TARGETING LIGANDS FROM OBOC LIBRARIES
Authors: C.-F. Cho, M. Viapiano, E. A. Chiocca, S. Lawler
Journal: Neuro-Oncology (2014)

Molecular targeting using ligands specific to glioblastoma (GBM) markers has shown great promise for the early detection of the pathology and directed therapy of the disease. Although conventional screening strategies of combinatorial libraries have demonstrated great potential for the discovery of novel targeting ligands, it is usually challenging and immensely costly. High-throughput screening approaches that exploit the tendency of magnetic "prey" beads (2-microns) coated with the target protein to specifically associate with the larger peptide-coated "bait" library beads (90-microns) are inexpensive, and have significantly accelerated the identification of targeting probes from one-bead-one-compound (OBOC) libraries. Using this approach, our objective is to utilize magnetic beads coated with a GBM-specific target protein to screen and capture novel GBM-binding peptides from an OBOC library. To facilitate high-throughput separation of positive hit beads from the rest of the library, we implemented a microfluidic magnetic flow system of our own design. Here, we describe a miniature microfluidic device designed to divert library beads coated with magnetic beads from one laminar flow path to another using an external magnetic force. Microfluidic channels connected to two inlets and two outlets are built using soft lithography, with dimensions of 2cm x 0.6mm x 0.2mm (L x W x H). A negative mold is created using SU-8 photoresist, and poly(dimethylsiloxane) (PDMS) is poured onto the mold to fabricate the channels. A strong neodymium magnet is placed adjacent to the channel to pull positive magnetic beads from the source flow path into the collection flow stream, allowing these beads to exit through the collection outlet. This novel on-chip technology can facilitate screening of large OBOC libraries (> 1 million beads) with great accuracy in a matter of hours, paving the way for rapid and efficient identification of targeting ligands specific to pathological targets in brain cancer and other diseases.
Polypes festonnés chez les patients porteurs de maladie inflammatoire chronique de l'intestin (MICI): charactéristiques endoscopiques différentes des lésions festonnées chez des patients non-MICI
Authors: D Moussata, G Boschetti, M Chauvenet, K Stroeymeyt, S Boyer, A Aubourg, L Picon, S Nancey, F Berger, T Lecomte, B Flourie
Journal: Endoscopy (2015)

Les polypes festonnés (PF) incluent les polypes hyperplasiques (HP), les adénomes festonnés sessiles (AFS) et les adénomes festonnés traditionnels (AFT). Les caractéristiques endoscopiques de ces lésions sont maintenant bien connues dans la population générale mais pas chez les patients MICI.
Radionuclide Imaging in Thoracic Splenosis and a Review of the Literature
Authors: JOSEPH N. YAMMINE, AHMAD YATIM, ANTOINE BARBARI
Journal: Clinical Nuclear Medicine (2003)

Splenosis is defined as the autotransplantation of splenic tissue to abnormal locations after splenic injury. Although abdominal splenosis is the most common form and is usually discovered at laparotomy, thoracic splenosis is less common and occurs as an asymptomatic peripheral pulmonary nodule, incidentally discovered on a routine chest radiograph. Given the long interval between the initial trauma and its discovery, thoracic splenosis is rarely considered in the differential diagnosis of left-sided, pleural-based pulmonary nodules or masses. The diagnosis is often a result of surgery. The authors report an additional case of thoracic splenosis, review the literature, and discuss nonsurgical diagnostic methods.
Abstract 3688: Leptin contributes to prostate cancer progression.
Authors: Marco A. De Velasco, Yutaka Yamamoto, Yuji Hatanaka, Yurie Kura, Naomi Ando, Emiko Fukushima, Masahiro Nozawa, Nobutaka Shimizu, Kazuhiro Yoshimura, Kazuhiro Yoshikawa, Kazuto Nishio, Hirotsugu Uemura
Journal: Cancer Research (2013)

Abstract Obesity is a complex chronic disorder that can result in a number of metabolic and endocrine disturbances and may thus account for the disparity seen in epidemiologic studies investigating the association between obesity and prostate cancer. Although the association between dietary factors and the occurrence of prostate cancer has been studied extensively, there is yet to be a published study on the relationship between diet and disease progression among prostate cancer patients. Circulating levels of most adipokines are positively correlated with obesity and exert a variety of biologic effects on prostate cancer cells modulating a variety of cellular processes. This would suggest that the presence of obesity may promote the progression of established prostate cancer rather than being a risk factor for the development of prostate cancer; however, a direct link has yet to be established. Recognizing adipose tissue as a metabolically active endocrine organ and identifying tumor promoting adipokines would support such an association. To better understand the effects of increased dietary fat in prostate cancer, we used the prostate-specific PTEN conditional knockout mouse model to show that consumption of a high-fat diet (HFD) promoted prostate-specific cancer progression and decreased survival. Molecular analysis identified elevated levels of leptin as a likely molecule involved in driving tumor progression. In this study we provide data from in vitro experiments show that leptin promoted invasiveness, motility and adhesion of PC3, human prostate cancer cells. Together, our findings show that increased levels of leptin, induced by dietary fat, contributes to promote prostate cancer progression by upregulating STAT3 signal cascades. Citation Format: Marco A. De Velasco, Yutaka Yamamoto, Yuji Hatanaka, Yurie Kura, Naomi Ando, Emiko Fukushima, Masahiro Nozawa, Nobutaka Shimizu, Kazuhiro Yoshimura, Kazuhiro Yoshikawa, Kazuto Nishio, Hirotsugu Uemura. Leptin contributes to prostate cancer progression. [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 3688. doi:10.1158/1538-7445.AM2013-3688
Endoscopic incision of a rectal anastomotic fistula wall following pancolectomy with ileorectal anastomosis
Authors: Z. Liu, C. Li, J. Wang, Y. Liu
Journal: Endoscopy (2012)

A 47-year-old woman was found to have a rectal anastomotic fistula 3 months after undergoing pancolectomy with ileorectal anastomosis and a procedure for prolapse and hemorrhoids (PPH), for slow transit constipation and rectal prolapse. The fistula ([Fig. 1 a – c]) had two openings, both in the rectum. The proximal opening of the fistula was at the ileorectal anastomosis, 15 cm above the anus ([Fig. 1 a]). The distal fistula opening was at the PPH anastomosis staple line, 3 cm above the anus ([Fig. 1 b]). Pelvic magnetic resonance imaging (MRI) showed the fistula behind the rectum at a distance of 2.2 cm ([Fig. 1 d]), with no intervening large vessels or important muscle or other organs.
Prognostic and Predictive Value of IHC4 and ERB1 in the Intergroup Exemestane Study (IES) - On Behalf of the Pathies Investigators
Authors: G. Viale, V. Speirs, J.M. Bartlett, K. Mousa, E. Kalaitzaki, C. Palmieri, S. Reed, J. Bliss, R.C. Coombes
Journal: Annals of Oncology (2013)
Exchange of self-expandable metal stent in endoscopic ultrasound-guided hepaticogastrostomy
Authors: K. Kawakubo, H. Isayama, H. Kogure, N. Takahara, K. Miyabayashi, S. Mizuno, D. Mohri, T. Sasaki, N. Yamamoto, Y. Nakai, K. Hirano, N. Sasahira, M. Tada, K. Koike
Journal: Endoscopy (2012)

Endoscopic ultrasound-guided hepaticogastrostomy (EUS-HGS) using a self-expandable metal stent (SEMS) has been reported to be feasible for failed biliary drainage [1] [2]. However, how to exchange a SEMS after EUS-HGS remains to be established.
958 EXTRAHEPATIC MALIGNANCIES AFTER LIVER TRANSPLANTATION FOR PRIMARY SCLEROSING CHOLANGITIS – A LONG-TERM FOLLOW-UP OBSERVATIONAL STUDY OF A LARGE, MULTICENTER COHORT
Authors: T. Horn, N. Pannicke, A. Dechene, D. Gotthardt, G. Kirchner, K. Herzer, H. Lenzen, H. Barg-Hock, M. Sterneck, U. Spengler, M.P. Manns, C.P. Strassburg, C. Schramm, T.J. Weismüller
Journal: Journal of Hepatology (2013)
Continuing Use of Prophylactic Percutaneous Coronary Intervention in Patients With Stable Coronary Artery Disease Despite Evidence of No Benefit
Authors: David L. Brown, Rita F. Redberg
Journal: JAMA Internal Medicine (2016)

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Abstract 1982: Analyzing TCGA data: A novel, systems-oriented method for diagnosing batch effects and adjusting for them
Authors: Nianxiang Zhang, Rehan Akbani, Li Zhang, Bradley Broom, Keith A. Baggerly, Gordon B. Mills, W.K. Alfred Yung, John N. Weinstein
Journal: Cancer Research (2010)

Abstract The Cancer Genome Atlas (TCGA) project aims at multi-faceted molecular characterization of up to 25 different types of clinical cancers over the next 5 years. Included are profiles of single-nucleotide mutations, indels, loss of heterozygosity, DNA copy number, DNA methylation, mRNA expression, and microRNA expression. For each type of measurement, an absolutely critical initial question is whether the batches of tumors obtained from different sources and/or processed at different times show batch effects that might confound our ability to draw valid conclusions about the biology or about clinical outcomes. As PIs and members of a newly designated TCGA Genome Data Analysis Center B, we have developed and applied a novel, systems-oriented approach to the problem of batch differences. The method is based on a scalar quantity that we call the “correlation of correlations” (CR). CR reflects the difference between batches, not in terms of characteristics of the individual genes but in a more systems-oriented way based on the pattern of relationships among the various genes in the data set. If two batches of samples are identical, CR = 1; if they are randomly related to each other in their properties, CR = 0. To assess the statistical robustness (i.e., p-value) of any apparent difference between two batches, we apply a permutation test, keeping the batch sizes constant. That analysis is complemented by principal component analysis and hierarchical clustering. In addition to diagnosing batch effects, we have tested five different algorithms (empirical Bayes with parametric and non-parametric prior, median polish, batch-wise median polish, ANOVA, and ANOVA with variance shrinkage) to correct in part for any batch effects that do exist. We first applied the new approach to TCGA Affymetrix U133A mRNA expression data on 237 high-grade serous ovarian cancers. One batch (designated # 9) out of 6 stood out as different from the others, particularly from batch #14 (permutation test two-tail p &amp;lt;0.001). Of the 5 adjustment methods, batch-wise median polish produced the greatest uniformity of the final data set and the greatest decrease in hierarchical clustering batch effects (Fisher's exact p &amp;lt;0.0001). Similar analysis of 327 TCGA glioblastoma samples showed batch #4 to be the most statistically significant outlier out of 10 batches, with batch #3 also significantly different. We are using the same methods to assess global similarities and differences among disparate classes of data, for example mRNA and microRNA expression. 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 1982.
Breast Cancer Prevention Trial Under Scrutiny (Again)
Authors: K. Smigel
Journal: JNCI Journal of the National Cancer Institute (1992)

Journal Article Breast Cancer Prevention Trial Under Scrutiny (Again) Get access Kara Smigel Kara Smigel Search for other works by this author on: Oxford Academic PubMed Google Scholar JNCI: Journal of the National Cancer Institute, Volume 84, Issue 22, 18 November 1992, Pages 1692–1694, https://doi.org/10.1093/jnci/84.22.1692 Published: 18 November 1992