tbuckley/cabot-search huggingface dataset:
Profiling of differentially expressed genes in right and left side mCRC patients using nCounter customized gene expression assay.
Authors: Wu Zhang, Chirstina Curtis, Sebastian Stintzing, Volker Heinemann, Anish Parekh, Dongyun Yang, Shu Cao, Yan Ning, Yu Sunakawa, Stefan Stremitzer, Satoshi Matsusaka, Satoshi Okazaki, Rita Elie El-Khoueiry, Angela Mendez, Afsaneh Barzi, Anthony B. El-Khoueiry, Heinz-Josef Lenz
Journal: Journal of Clinical Oncology (2015)

e14586 Background: Recent data suggest there are significant genetic differences between left-sided(L) and right sided(R) colon cancers particular CIN, MSI and activated pathways. There is also a gender effect in colon cancer development and outcome. We utilized TCGA mRNA data from colon cancer patient to identify gene expression signatures in women and men in L and R sided colon cancers. Our data demonstrated that in females, over 2000 genes were differently expressed in R vs L sided colon cancer while in men 143 genes were different, representing different pathways activated in R vs L, in women vs man. We tested whether these differences would be predictive in women and men with mCRC enrolled in the FIRE-3 study using Nanostring nCounter customized 33-gene expression assay representing the differences in the activated pathways(WNT, EGFR, Angiogenesis, ER) seen in the TCGA analysis. Methods: mRNA was extracted from randomly selected forty-eight mCRC patients enroll in FIRE-3 trials. 26 from FOLFIRI/BEV arm, 22 from FOLFIRI/Cet arm. 24 from R sided colon cancer, 24 from L sided colon cancer. 26 are female, 22 are male. Median age 62 yrs, median follow up 42.9 months, median PFS and OS 9.5 and 22.6 months, respectively. NanoString nCounter gene expression profiling on 48 FFPE archival tissues using standard protocol. Gene expression levels were analyzed on nSolver Analysis Software 2.5. Results: WNT pathway WIF1 gene expression level is significantly higher in L sided colon cancer (p = 0.016, Wilcoxon test). In male patients, ATG13 and EGFR expression are significantly higher in L-sided colon cancer than R-sided colon cancer (P = 0.034 and p = 0.05, Wilcoxon test). In female patients, gene expression levels of ESR1, NKD1 and WIF1 showed trend significantly higher in L-sided colon cancer than R-sided colon cancer (P = 0.06, p = 0.07 and p = 0.07, Wilcoxon test). Recursive partitioning analysis showed gene expression levels of AREG predict tumor response. NKD1 predict PFS and CCL2 predict OS. Conclusions: this is the first study to demonstrate that in women and men, left and right colon cancer have differentially activated pathway.
Nonexposure endolaparoscopic full-thickness resection with simple suturing technique
Authors: Chan Kim, Hong Yoon, Jong Lee, Soo-Jeong Cho, Myeong-Cherl Kook, Bang Eom, Keun Ryu, Young-Woo Kim, Il Choi
Journal: Endoscopy (2015)

<b>Background and aim:</b> Current endoscopic full-thickness resection (EFTR) methods are limited by their transmural communication and exposure of tumor to the peritoneum. The aim of this study was to test the feasibility of a new resection technique that does not expose the mucosa to the peritoneum, although it involves an easy and secure suture method, which could be applied in the clinical setting. <b>Methods:</b> The nonexposure endolaparoscopic full-thickness resection with simple suturing technique was performed in four pigs. This new technique includes the steps of laparoscopic seromuscular suturing, which results in inversion of the stomach wall; EFTR of the inverted stomach wall from inside the stomach; and finally, endoscopic mucosal suturing with endoloops and clips. <b>Results:</b> En bloc and complete resections were achieved without adverse events in all pigs. The mean (± standard deviation) operation time was 137.0 ± 28.2 minutes. All pigs survived with no clinical evidence of illness until euthanasia. Gross and microscopic examination of the resection site showed healing without evidence of leakage or infection. <b>Conclusion:</b> The nonexposure endolaparoscopic full-thickness resection with simple suturing technique was feasible in an animal model.
Abstract P5-04-19: JAK2 copy number and targeted JAK2 inhibition of TNBC cell lines
Authors: M Chen, M Andreozzi, L Gonzalez-Malerva, S Eaton, B Pockaj, MT Barrett, KS Anderson
Journal: Cancer Research (2016)

Abstract Background A subset of triple negative breast cancers (TNBC) has somatic amplification of chromosome 9p24.1, encoding PD-L1, PD-L2, and JAK2 (the "PDJ" amplicon). The JAK/STAT pathway promotes malignant transformation and proliferation, and the JAK1/JAK2 inhibitor ruxolitinib is being evaluated in early phase clinical trials in breast cancer. This study was designed to measure the frequency of PDJ copy number gain in existing TNBC cell lines, and determine the impact of targeted JAK2 inhibition on cellular proliferation. Methods: Copy number alterations were measured in nine TNBC cell lines (MDA-MB-453, MDA-MB-436, BT549, MDA-MB231, MFM-223, MDA-MB-468, H5578T, MDA-MB-157, HCC1937) by array comparative genomic hybridization (aCGH). JAK2 and pSTAT3 expression was measured by immunoblot in four of the TNBC lines (HCC1937, MDA-MB-468, MDA-MB-231, MDA-MB-436) and compared with MCF10A, SK-BR3, and T47D. To selectively inhibit JAK2, lentiviral vectors encoding five different shRNA targeting JAK2 were generated. Ruxolitinib treatment was performed at 25 uM for 48 hrs and 72 hrs. Cell proliferation was measured by CellTiter-Glo. Results: All TNBC cell lines had an elevated level of baseline protein expression of JAK2 and pSTAT3 compared to SK-BR3, T47D, and MCF10A. Of the nine TNBC cell lines, only MDA-MB-436 and BT549 had copy number gain of 9p24.1 (log2ratio&amp;lt;1). Four independent shRNA efficiently silenced over 90% of JAK2 expression in MDA-MB-231. The inhibition of JAK2 in MDA-MB-231 was associated with a decrease in both JAK2 and pSTAT3 protein expression and reduction in cell proliferation compared to control shRNA after 96 hrs (p&amp;lt;0.0001). Inhibition of proliferation was also observed for both MDA-MB-231 and MDA-MB-436 after ruxolitinib treatment. Conclusion These results demonstrate that existing TNBC cell lines have varying copy number alterations of chromosome 9p24.1 encoding JAK2, and targeted JAK2 inhibition in TNBC inhibits cell proliferation. Citation Format: Chen M, Andreozzi M, Gonzalez-Malerva L, Eaton S, Pockaj B, Barrett MT, Anderson KS. JAK2 copy number and targeted JAK2 inhibition of TNBC cell lines. [abstract]. In: Proceedings of the Thirty-Eighth Annual CTRC-AACR San Antonio Breast Cancer Symposium: 2015 Dec 8-12; San Antonio, TX. Philadelphia (PA): AACR; Cancer Res 2016;76(4 Suppl):Abstract nr P5-04-19.
Combination intraperitoneal chemotherapy.
Authors: J E Byfield
Journal: Journal of Clinical Oncology (1985)

Article Tools Article Tools OPTIONS & TOOLS Export Citation Track Citation Add To Favorites Rights & Permissions COMPANION ARTICLES No companion articles ARTICLE CITATION DOI: 10.1200/JCO.1985.3.8.1155 Journal of Clinical Oncology - published online before print September 22, 2016 PMID: 4020414 Combination intraperitoneal chemotherapy. J E ByfieldxJ E ByfieldSearch for articles by this author https://doi.org/10.1200/JCO.1985.3.8.1155 First Page PDF © 1985 by American Society of Clinical Oncology
High Risk Human Papillomavirus Testing: Guidelines for Use in Screening, Triage, and Follow-up for the Prevention and Early Detection of Cervical Cancer
Authors: Kathleen N. Moore, Joan L. Walker
Journal: Journal of the National Comprehensive Cancer Network (2004)

The changes in cervical cytology characterization agreed on by the Bethesda committee meeting in 2001 created a category of atypical findings that has caused some management confusion. By description, the characterization of cervical cytology as only atypical implies a less worrisome prognosis. However, more than 40% of high-grade (CIN II or III or cancer) will be discovered within this category. The development and Food and Drug Administration approval of the Hybrid Capture 2 (HC-2; Digene Corporation, Gaithersburg, MD) for detecting high-risk human papillomavirus (HR-HPV) subtypes and the subsequent level I evidence supporting use of this test in the triage of women with atypical cytology has revolutionized the management of this cytology. With this success has come numerous additional uses for HR-HPV testing in the treatment and follow-up of women with a variety of cytologic abnormalities. This article reviews the literature on uses of HR-HPV testing in this population, with reference to currently accepted guidelines.
Massachusetts Medical Society
Authors: John Figgis Jewett
Journal: New England Journal of Medicine (1972)

COMMITTEE ON MATERNAL WELFARE AORTIC STENOSIS WITH SUDDEN DEATHA 31-year-old gravida 2, para 1, with 11 years between pregnancies, died six weeks post partum.Allegedly well in her first pregnancy, this patient suffered her last of several bouts of active rheumatic fever shortly before the present pregnancy began. Subacute bacterial endocarditis had been suspected but excluded by blood cultures. At 15 weeks she first applied for care and was admitted to the hospital because of congestive heart failure after very slight exertion, presenting Grade 4 systolic and Grade 3 diastolic aortic murmurs loud enough to obscure any other sounds. . . .
Trends in psychiatric practice, 1965-1980
Authors: W S Fenton, P J Leaf, N L Moran, G L Tischler
Journal: American Journal of Psychiatry (1984)

The authors compare the results of a study of the practice activities of psychiatrists conducted in 1979-1980 with one conducted in 1965. Although office-based practice has remained the core activity of the profession, psychiatrists in 1979 had a greater tendency to divide their time among multiple practice sites and activities during the work week. As a consequence, the percentage of practitioners working part-time in a variety of organized care settings has increased substantially. These findings support a view of psychiatry as a profession that is far more diversified than it was 15 years ago. The authors discuss major factors affecting trends in psychiatric practice.
Intended vs Reported Scope of Practice—Reply
Authors: Anastasia J. Coutinho, Robert L. Phillips, Lars E. Peterson
Journal: JAMA (2016)

Our website uses cookies to enhance your experience. By continuing to use our site, or clicking "Continue," you are agreeing to our Cookie Policy | Continue JAMA HomeNew OnlineCurrent IssueFor Authors Podcasts Clinical Reviews Editors' Summary Medical News Author Interviews More Publications JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry (1919-1959) JN Learning / CMESubscribeJobsInstitutions / LibrariansReprints & Permissions Terms of Use | Privacy Policy | Accessibility Statement 2023 American Medical Association. All Rights Reserved Search All JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Forum Archive JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry Input Search Term Sign In Individual Sign In Sign inCreate an Account Access through your institution Sign In Purchase Options: Buy this article Rent this article Subscribe to the JAMA journal
Diet and Coronary Disease
Authors: Z. A. Leitner
Journal: BMJ (1955)

Diet and Coronary DiseaseCoronary artery disease presents us with a problem of alarming proportions.It is already the major cause of death in most affluent communities, and its incidence, particularly among young and middle-aged men, appears to be in- creasing.Unfortunately despite the immense amount of money which has been spent on research in this field we still do not know the cause of the condition or how to prevent it.Many people with raised levels of plasma cholesterol or triglyceride or both are particularly at risk for the de- velopment of coronary artery disease.'Though the epidemiological evidence for the association is convincing, there is no proof that the reduction of serum lipids leads to a cor- responding reduction in risk of myocardial ischaemia.Even
The dexamethasone suppression test in prepubertal depressed children
Authors: E O Poznanski, B J Carroll, M C Banegas, S C Cook, J A Grossman
Journal: American Journal of Psychiatry (1982)

The authors evaluated 18 dysphoric children aged 6--12 years by structured clinical assessments and an overnight dexamethasone suppression test (DST) administered on an outpatient basis. Nine children met diagnostic criteria for major depressive disorder, and 8 of the 9 also met the Research Diagnostic Criteria for endogenous depression. Of the 9 depressed children, 5 had abnormal DST results; 8 of the 9 nondepressed children had normal test results. The results suggest that endogenous depression in childhood is not a rare condition and that it is clinically and neuroendocrinologically similar to the adult disorder. The DST may be useful as a diagnostic aid with depressed children.
Unexpected myocardial uptake on bone scintigraphy in an infant with Kawasaki disease.
Authors: WILLIAM G. MACDONALD, RUSSELL TROEDSON
Journal: Clinical Nuclear Medicine (2001)

G. MACDONALD, WILLIAM B. M.B. B.S., M.P.H., F.R.A.C.P.; TROEDSON, RUSSELL G. M.B. B.S., F.R.A.C.P. Author Information
Detection of mcr-1 encoding plasmid-mediated colistin-resistant Escherichia coli isolates from human bloodstream infection and imported chicken meat, Denmark 2015
Authors: Henrik Hasman, Anette M. Hammerum, Frank Hansen, Rene S. Hendriksen, Bente Olesen, Yvonne Agersø, Ea Zankari, Pimlapas Leekitcharoenphon, Marc Stegger, Rolf S. Kaas, Lina M. Cavaco, Dennis S. Hansen, Frank M. Aarestrup, Robert L. Skov
Journal: Eurosurveillance (2015)

The plasmid-mediated colistin resistance gene, mcr-1 , was detected in an Escherichia coli isolate from a Danish patient with bloodstream infection and in five E. coli isolates from imported chicken meat. One isolate from chicken meat belonged to the epidemic spreading sequence type ST131. In addition to IncI2*, an incX4 replicon was found to be linked to mcr-1 . This report follows a recent detection of mcr-1 in E. coli from animals, food and humans in China.
RADIUM TREATMENT IN IRELAND
Authors: W. C. Stevenson
Journal: BMJ (1919)

such a contact.This, added to a similar experience from other sanatoriums and consumption hospitals, like the Brompton, makes out a strong case of negative evidence so as to throw doubt on the contagion theory.(f) There is no evidence, at least in the majority of cases, that living with tuberculous husbands brings about a greater incidence and mortality among their wives, or vice versa.In fact, we have to face this anomaly, that while there is a high death-rate from consumption among Sheffield grinders and tin-miners of Cornwall, there is a correspondingly low death-rate from the same cause among their wives and their children.(Causes of Tuberculosis, Cobbett.)(g) Coming to some positive facts and observations, recent advances made in biology, physiological, and pathological chemistry, epidemiology, climatology, social economics, &c., have thrown considerable light on tuberculous problems, so as to shift the angle of vision from bacteriology to bio- chemistry, from [microbe to metabolism, from the seed to the soil conditions in man.(h) It is well known that tuberculosis is mostly found among those living in terrible social conditions, such as poverty, bad housing, slums, overcrowding, physical and mental strain, &c.This same fact was emphasised by the late war, where increased tuberculosis mortality went hand in hand with famine, want of proper food and rest, fear and anxiety, &c.
IRON DEFICIENCY IN INFANTS
Authors: T U Saarinen
Journal: JAMA (1966)

Our website uses cookies to enhance your experience. By continuing to use our site, or clicking "Continue," you are agreeing to our Cookie Policy | Continue JAMA HomeNew OnlineCurrent IssueFor Authors Publications JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry (1919-1959) Podcasts Clinical Reviews Editors' Summary Medical News Author Interviews More JN Learning / CMESubscribeJobsInstitutions / LibrariansReprints & Permissions Terms of Use | Privacy Policy | Accessibility Statement 2023 American Medical Association. All Rights Reserved Search All JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Forum Archive JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry Input Search Term Sign In Individual Sign In Sign inCreate an Account Access through your institution Sign In Purchase Options: Buy this article Rent this article Subscribe to the JAMA journal
Auscultatory percussion of the head.
Authors: J R Guarino
Journal: BMJ (1982)

Eighty-nine consecutive patients with suspected intracranial masses were examined by auscultatory percussion in a blind study to assess the sensitivity of the procedure. Each patient underwent computed tomography (CT) of the brain as part of his medical care, and the results were compared with those of auscultatory percussion. Fifty-one of the patients had abnormal CT scans, of whom 44 (86%) had abnormal (positive) findings on auscultatory percussion; seven (13%) yielded false-negative results. Each of the patients with subdural haematomas had distinctly positive findings by auscultatory percussion. Of the 38 patients with normal CT scans, 11 had strokes with hemiparesis, and each had positive findings in the contralateral hemisphere by auscultatory percussion. The remaining 27 patients with normal CT scans were healthy; 25 had normal findings on auscultatory percussion, two (7%) gave false-positive results. Twenty subjects were studied with phonoscopy. Auscultatory percussion is easy to perform and is clinically useful.
AIDS antibody tests on inpatient psychiatric units
Authors: R L Binder
Journal: American Journal of Psychiatry (1987)

An antibody test for the causative virus of the acquired immune deficiency syndrome (AIDS) became commercially available in 1985. The author discusses the use of the AIDS antibody test on inpatient psychiatric units. She reviews the controversial legal and ethical questions related to its use, addressing such questions as Who should be tested for the AIDS antibody? When and to whom should the results of the test be disclosed? and How should the doctrine of "right to privacy" be balanced with the "duty to warn"?
The predictive value of tumor-cell kinetic parameters in radiotherapy: considerations regarding data production and analysis.
Authors: N H Terry, L J Peters
Journal: Journal of Clinical Oncology (1995)

Article Tools Article Tools OPTIONS & TOOLS Export Citation Track Citation Add To Favorites Rights & Permissions COMPANION ARTICLES No companion articles ARTICLE CITATION DOI: 10.1200/JCO.1995.13.8.1833 Journal of Clinical Oncology - published online before print September 21, 2016 PMID: 7636524 The predictive value of tumor-cell kinetic parameters in radiotherapy: considerations regarding data production and analysis. N H TerryxN H TerrySearch for articles by this author , L J PetersxL J PetersSearch for articles by this author https://doi.org/10.1200/JCO.1995.13.8.1833 First Page PDF © 1995 by American Society of Clinical Oncology
Head and Neck Cancer
Authors: Everett E. Vokes, Ralph R. Weichselbaum, Scott M. Lippman, Waun Ki Hong
Journal: New England Journal of Medicine (1993)

Head and neck cancer was last reviewed in the Journal in 19831. At that time, there was promising new information on a possible role for chemotherapy1,2. During the past decade, chemotherapy has undergone further investigation and important clinical advances have been made in chemoprevention, organ preservation, and the simultaneous use of chemotherapy and radiation. In this review, we shall discuss the diagnosis of and standard therapy for head and neck cancer, as well as the status of recent basic and clinical investigations.EpidemiologyHead and neck cancer, as defined here, includes the common squamous-cell carcinomas of the . . .
<i>BRCA1</i> and <i>BRCA2</i> Next Generation Sequencingwith methodological improvements in HBOC Uruguayan families.
Authors: Juan Martin Marques, Leticia Repetto, Lucia Guggeri, Enrique Garcia, Alejandra Torres, Florencia Cecilia Cardoso, Marta Sapone, Patricia Esperon, Adriana Della Valle, Carlos Acevedo, Carlos Azambuja, Florencia Neffa, Angela Rosaria Solano
Journal: Journal of Clinical Oncology (2015)

e12531 Background: Among the hereditary causes of breast cancer, hereditary breast and ovarian cancer (HBOC) syndrome, caused by mutations in the BRCA1 or BRCA2 genes, has been considered the most prevalent. We selected patients from our country, analyzed their full sequence, and reported all the variants detected in BRCA1/2, as well as the large rearrangements in both genes. Methods: Patients were recruited from the Uruguayan Collaborative Group of Inherited Cancer (UCG) and Genia Laboratory´s genetic service. A total of 38 patients diagnosed with HBOC, with a positive family history according to NCCN high risk criteria, and ≥ 10% mutation probability by BRCAPro software were selected. DNA samples were amplified using the BRCA1/2 Ampliseq Community Panel by multiplex PCR with modifications of standard pools to achieve better equilibrium between amplicons. After clonal amplification, libraries were sequenced on an Ion Torrent PGM. Standard Bioinformatics pipeline was modified with a different alignment argument to allow more accurate detection of small deletions next to the amplicons ends. Rearrangements were first analyzed by normalizing the coverage per amplicon and by comparing among samples of the same NGS run. We performed MLPA to all NGS negative samples. Results: We detected 8 mutated samples: 2 SNV clinically deleterious, 5 frameshift deletions, and one sample with a deletion of exon 14 of BRCA1. The change in alignment arguments shows effectiveness in detecting heterozygous and homozygous polymorphic 4 bp deletion in intron 11 of BRCA2 present at the end of an amplicon. NGS allows us to determine large rearrangements but has limitations to detect short deletions, while MLPA is able to robustly detect one short exon deletion. Conclusions: Improvements had been made regarding a more comprehensive protocol to diagnose germline mutations. We had characterized 8 pathogenic mutations and interesting VUS, but the number of families waiting for molecular diagnose is still high. It is necessary to include these non mutated samples in a panel we are developing with 22 cancer related genes to try to resolve more cases.
An Analysis Of Mechanisms Of Central Nervous System Infiltration In Acute Lymphoblastic Leukaemia Using Primary Cells Xenografted Into Immunodeficient Mice
Authors: Yasar Yousafzai, Mark Williams, K Rehe, Michelle Le Brocq, Simon Bomken, Paul Sinclair, Katie Dormon, Dino Masic, Leanne Archer, Jennifer Watt, Tracey Perry, Victoria Weston, Pamela Kearns, Helen Blair, Lisa Russel, Olaf Heidenreich, Julie Irving, Josef Vormoor, Brenda Gibson, Gerard Graham, Christina Halsey
Journal: Blood (2013)