Miracle-dz/UniFAR-FTUs huggingface dataset:
Dermatofibrosarcoma protuberans‐derived fibrosarcoma: Clinical history, biological profile and sensitivity to imatinib

Dermatofibrosarcoma Protuberans (DFSP) carries a translocation resulting in the COL1A1/PDGFB fusion‐gene, responsible for platelet derived growth factor beta receptor (PDGFRB) activation. Fibrosarcomatous (FS) transformation in DFSP rarely occur. The fusion‐gene and PDGFRB expression/activation pattern and imatinib role in DFSP‐derived FS is less defined. We reviewed all consecutive patients operated for localized DFSP at our institution from 1994 to 2009, selecting cases with FS component. We also reviewed patients treated with imatinib for advanced FS‐DFSP over the same period. When cryopreserved material was available, biochemical/molecular analyses were performed. Of 275 DFSPs, 13 (4.7%) showed a FS component. Fifteen percent of these patients developed metastases, one to the brain. Four patients with DFSP‐derived FS received imatinib, with a Response Evaluation Criteria in Solid Tumor Partial Response. Response was followed by early secondary progression in two. One died for brain metastases. Three patients underwent surgery after imatinib. The fusion‐gene was detected in all cases in both the classical and FS component, before and after imatinib. PDGFRB expression/activation was confirmed in all cases. mTOR was switched‐off, despite the phosphorylation of its effectors. However, a strong phosphorylation of S6 and 4EBP1 was restricted to the FS component. In conclusion, DFSP‐derived FS maintains the fusion‐gene, being sensitive to imatinib. However, responses are short‐lasting. Secondary resistance to imatinib is not related to PDGFRB.
Does a Standardized Preoperative Algorithm of Clinical Data Improve Outcomes in Patients With Ovarian Cancer? A Quality Improvement Project

Objective To evaluate the potential impact of a standardized preoperative algorithm on outcomes of patients with suspected ovarian cancer. Methods From January 1 to December 31, 2013, patients with suspected ovarian cancer were triaged to primary debulking surgery or neoadjuvant chemotherapy/interval debulking surgery (NACT/IDS) based on a comprehensive review of preoperative clinical data as part of a quality improvement project. Demographics, surgical, and postoperative data were collected. Results A total of 110 patients with newly diagnosed ovarian cancer were identified: 68 (62%) underwent PDS with an 85% optimal debulking rate. The 30-day readmission rate was 14.7% with a 2.9% 60-day mortality rate. Forty-two patients (38%) underwent NACT. Two patients (4.8%) died before receiving NACT. Thirty-five patients have undergone IDS with an 89% optimal debulking rate. The 30-day readmission rate was 8.5% with a 5.7% 60-day mortality rate after IDS. Conclusions Although it is difficult to predict which patients will undergo optimal debulking at the time of PDS, surgical morbidity and mortality can be decreased by using NACT in select patients. The initiation of a quality improvement project has contributed to an improvement in patient outcomes at our institution.
MMP25 (MT6-MMP) Is Highly Expressed in Human Colon Cancer, Promotes Tumor Growth, and Exhibits Unique Biochemical Properties*

MMP25 (MT6-MMP) is one of the two glycosylphosphatidylinositol-anchored matrix metalloproteinases (MMPs) that have been suggested to play a role in pericellular proteolysis. However, its role in cancer is unknown, and its biochemical properties are not well established. Here we found a marked increase in MT6-MMP expression within in situ dysplasia and invasive cancer in 61 samples of human colon cancer. Expression of MT6-MMP in HCT-116 human colon cancer cells promoted tumori-genesis in nude mice. Histologically, the MT6-MMP-expressing tumors demonstrated an infiltrative leading edge in contrast to a rounded leading edge in vector control tumors. Biochemical and biosynthesis analyses revealed that MT6-MMP displayed on the cell surface exists as a major form of 120 kDa that likely represents enzyme homodimers linked by disulfide bonds. Upon reduction, a single 57-kDa active MT6-MMP was detected. Interestingly, neither membrane-anchored nor phosphatidylinositol-specific phospholipase C-released MT6-MMPs were found to be associated with tissue inhibitor of metalloproteinases (TIMPs) and did not activate pro-gelatinases (pro-MMP-2 and pro-MMP-9) even in the presence of exogenous TIMP-2 or TIMP-1. A catalytic domain of MT6-MMP was inhibited preferentially by TIMP-1 (Ki = 0.2 nm) over TIMP-2 (Ki = 2.0 nm), because of a slower association rate. These results show that MT6-MMP may play a role in colon cancer and exhibit unique biochemical and structural properties that may regulate proteolytic function at the cell surface.
Cavocaval adult liver transplantation and retransplantation without venovenous bypass and without portocaval shunting: a prospective feasibility study in adult liver transplantation

Background. The original method of liver transplantation (LT) included recipient inferior vena cava (IVC) resection and the use of extracorporeal venovenous bypass (VVB). Refinements in technique permit transplantation to be done with IVC preservation and without VVB use. Material and Methods. Between November 1993 and November 2000, 202 consecutive grafts were performed in 188 adults (≥16 years of age). Twelve patients (6.4%) received two and three retransplants (re-LT). Split grafting was performed 19 times (19 of 202 grafts, 9.4%). Risk factors included United Network of Organ Sharing status I (n=30, 16%), previous right upper abdominal surgery (n=32, 17.1%), caudate lobe encirclement of IVC (n=65, 32.2%), IVC (n=24, 11.9%), and splanchnic venous modification (n=58, 30.9%), transjugular intrahepatic portosystemic stent shunt (n=34, 16.8%), giant (>5 kg) liver tumor (n=6, 3%), septic necrosis of the caudate lobe (n=1, 0.5%), and previous cavocaval (n=13, 6.4%) or classical LT (n=5, 2.5%). Results. IVC preservation, avoidance of IVC cross clamping and of VVB use were possible in 98.9%, 93%, and 99.5% of 183 primary LT and in 89.5%, 84.2%, and 89.5% of 19 re-LT. Temporary portocaval shunting was never applied. Perioperative mortality was 1.2%. There was no allotransfusion in 73 (36%) grafts and 45 (22%) patients were immediately extubated. Permanent hepatic vein and caval problems were encountered in three (1.5%) grafts. One patient needed stent placement to treat IVC stenosis. Actual 3- and 12-month patient survival for whole, re-LT, and right-lobe split LT groups were 94.7%, 94.1%, 94.7%, 88.2%, 94.1%, and 89%. Three-month graft survival rates for these groups were 92.6%, 94.7%, and 84.2%. Conclusions. LT with IVC preservation and without VVB use and portocaval shunting is possible in nearly all primary transplants and in the majority of re-LT.
Engineering Security Requirements

Most requirements engineers are poorly trained to elicit, analyze, and specify security requirements, often confusing them with the architectural security mechanisms that are traditionally used to fulfill them. They thus end up specifying architecture and design constraints rather than true security requirements. This article defines the different types of security requirements and provides associated examples and guildlines with the intent of enabling requirements engineers to adequately specify security requirements without unnecessarily constraining the security and architecture teams from using the most appropriate security mechanisms for the job.
Comparison of Etest and a tablet diffusion test with the NCCLS broth microdilution method for fluconazole and amphotericin B susceptibility testing of Candida isolates.

Three methods were compared for the susceptibility testing of yeast isolates to fluconazole and amphotericin B: two fagar diffusion methods (Etest and a tablet diffusion test) and the National Committee for Clinical Laboratory Standards (NCCLS) broth microdilution method. Given as MIC(50)s (range), fluconazole endpoints were: for the 24 h broth microdilution test, 0.25 mg/L (0.06-32 mg/L); for the Etest, 0.38 mg/L (0.064-24 mg/L); and for the NCCLS broth microdilution test, 2 mg/L (0.06->or=64 mg/L). With breakpoints of <3 mg/L for susceptible and >16 mg/L for resistant, the Etest and the 24 h microdilution test classified the isolates in agreement with the classification obtained by the NCCLS method. Results obtained by Etest were in closer NCCLS method than those obtained with the tablet test. Amphotericin B endpoints were lower for the 24 h microdilution and Etests than MICs obtained by the NCCLS broth microdilution method. Reproducibility was high for all tests; however, disadvantages of both diffusion tests were microcolonies in the inhibition zone and dependence on stringent standardization of inoculum.
OXYGEN TENSION WITHIN THE RABBIT FALLOPIAN TUBE.

Summary. A system was devised for measuring the oxygen tension within the lumen of the fallopian tube in the unanaesthetized rabbit. After preliminary readings which revealed a mean intraluminal pO2 of 60 mm Hg, ovulation was induced with i.v. HCG. The oxygen tension remained essentially unchanged at the estimated time of ovulation and in the first 3 days after ovulation.
e-Analysis of High-Rise Buildings Subjected to Wind Loads

The NatHaz Aerodynamic Loads Database NALDhttp://aerodata.ce. nd.edu introduced in 2000 has served an important first step in establishing an on-line experimental archive of high-frequency base balance HFBB data for use in the preliminary design of high-rise buildings subjected to wind loads. As a result, NALD was recently introduced in the Commentary of ASCE 7-05 C6.5. 8 as an alternative means of assessing the dynamic wind load effects on high-rise buildings. This paper presents NALD version 2.0 v. 2.0, integrating the latest advances in data management and mining for interactive queries of aerodynamic load data and an integrated on-line analysis framework for determining the resulting base moments, displacements, and equivalent static wind loads for survivability and accelerations for serviceability habitability. The key feature of NALD v. 2.0 is the flexibility its analysis module offers: Users may select not only the data from the on-line NatHaz aerodynamic loads database, but also may input desired power spectral density PSD expression or wind tunnel-derived PSD data set obtained from a HFBB experiment for the evaluation of wind load effects on high-rise buildings. Thus, it serves as a stand-alone analysis engine. Examples illustrate the capabilities of NALD v. 2.0 and provide comparisons of response estimates to demonstrate the flexibility of the analysis engine to provide a platform that can be readily expanded and supplemented to yield a comprehensive, simplified, and efficient avenue for e-analysis of high-rise buildings.
Owners’ portfolio diversification and firm investment: Evidence from private and public firms

We demonstrate theoretically and empirically that firms’ capital investment depends on portfolio diversification of their controlling owners. The effect of owners’ portfolio diversification on firms’ investment levels depends crucially on firms financial constraints: the investmentdiversification relation is positive for relatively unconstrained firms and is negative for relatively constrained ones. Owner fixed-effects, a quasi-natural experiment, and instrumental variable analysis suggest that this result is not driven by potential endogeneity of owners’ diversification. A matched-sample analysis, selection model, and an alternative measure of financial constraints show that our findings are also not driven by the endogeneity of our proxy for financial constraints. ∗We thank Daniel Andrei, Kevin Aretz, Ilona Babenko, Kerry Back, Guillermo Baquero, Nittai Bergman, Gennaro Bernile, Arnoud Boot, Alex Butler, Melanie Cao, Thomas Chemmanur, David De Angelis, Mara Faccio, Viktar Fedaseyeu, Vito Gala, Joachim Gassen, Edith Ginglinger, Amit Goyal, Yaniv Grinstein, Gustavo Grullon, Yael Hochberg, Ambrus Kecskés, Nisan Langberg, Jens Martin, Sebastien Michenaud, Erwan Morellec, Jillian Popadak, Buhui Qiu, Otto Randl, Jörg Rocholl, Giorgo Sertsios, Tao Shen, Norman Shuerhoff, Dimopoulos Theodosios, David Thesmar, Yuri Tserlukevich, Mathijs van Dijk, Patrick Vermijmeren, Vladimir Vladimirov, Vadym Volosovych, James Weston, and Toni Whited for helpful comments and suggestions. We also thank seminar participants at 2014 London Business School Corporate Finance Conference, 2014 Jerusalem Finance Conference, 2014 China International Conference in Finance, 2014 European Finance Association Meetings, 2015 Financial Intermediation Research Society Meeting, 2015 BEROC Conference, 2015 Financial Management Association Europe Meeting, 2015 Indian School of Business Conference, Boston University, Erasmus University, European School of Management and Technology, Goethe University Frankfurt, Interdisciplinary Center Herzliya, Rice University, Universidad de los Andes, University of Amsterdam, University of Lausanne, and York University. †School of Management, Boston University and IDC, lyandres@bu.edu. ‡Manchester Business School, University of Manchester, maria.marchica@mbs.ac. uk. §Johnson Graduate School of Management, Cornell University and IDC, rm34@cornell.edu. ¶Manchester Business School, University of Manchester, roberto.mura@mbs.ac. uk.
Fiber Line Optimization in Single Ply for 3D Printed Composites

In conventional manufacturing processes of composites, Carbon Fibre Reinforced Plastic (CFRP) laminates have been made by stacking unidirectional or woven prepreg sheets. Recently, as a manufacturing process of CFRP, 3D printing of CFRP composites has been developed. The 3D printing process of CFRP composites enables us to fabricate CFRP laminates with arbitrary curvilinear fibre plies. This indicates that the optimization of the in-plane curved carbon fibre placement in a planar ply is strongly required to realize superior 3D printed composites. In the present paper, in-plane curved carbon fibre alignment of a ply with an open hole is optimized in terms of maximization of the fracture strength. For the optimization process, a genetic algorithm is adopted. To describe curved carbon fibre alignments in a planar ply, stream lines of perfect flow is employed. By using the stream lines of the perfect flow, number of optimization parameters is significantly reduced. After the optimization, the fracture strength of CFRP laminate is compared with the results of unidirectional CFRP ply. The curved fibre placement in a planar ply shows superior fracture improvement.
Prevents Apoptosis and Liver Dysfunction during Liver Regeneration

Although NF k B binding activity is induced during liver regeneration after partial hepatectomy, the physiological consequence of this induction is unknown. We have assessed the role of NF k B during liver regeneration by delivering to the liver a superrepressor of NF k B activity using an adenoviral vector expressing a mutated form of I k B a . This adenovirus (Ad5I k B) was almost exclusively expressed in the liver and inhibited NF k B DNA binding activity and transcriptional activity in cultured cells as well as in the liver in vivo. After partial hepatectomy, infection with Ad5I k B, but not a control adenovirus (Ad5LacZ), resulted in the induction of massive apoptosis and hepatocytes as demonstrated by histological staining and TUNEL analysis. In addition, infection with Ad5I k B but not Ad5LacZ decreased the mitotic index after partial hepatectomy. These two phenomena, increased apoptosis and failure to progress through the cell cycle, were associated with liver dysfunction in animals infected with the Ad5I k B but not Ad5LacZ, as demonstrated by elevated serum bilirubin and ammonia levels. Thus, the induction of NF k B during liver regeneration after partial hepatectomy appears to be a required event to prevent apoptosis and to allow for normal cell cycle progression. ( J. Clin. Invest. 1998. 101:802–811.)
Analysis and assessment of comparative modeling predictions in CASP4

We describe here the results of our analysis of the comparative modeling predictions submitted to the fourth round of Critical Assessment of Structure Prediction (CASP4). On the basis of a numerical evaluation of the models, we assessed their ability to predict the overall fold correctly, the relative orientation of domains in multidomain proteins, the conformation of the side chains, the loop regions, and the biologically important residues of the targets. We also discuss the performance of automatic prediction servers and compare the results of CASP4 with those obtained in CASP3. Proteins 2001;Suppl 5:22–38. © 2002 Wiley‐Liss, Inc.
Tyrosine phosphorylation of caveolin-1 in the endothelium.

Caveolin-1, a scaffolding protein of caveolae, is known to be tyrosine-phosphorylated by Src kinases. Recently we generated a specific antibody to caveolin-1 phosphorylated at tyrosine-14 (PY14) (R. Nomura and T. Fujimoto, 1999, Mol. Biol. Cell 10, 975-986). In the present study, by applying PY14 to sections of normal rat tissues, we found that tyrosine phosphorylation of caveolin-1 occurred in limited locations, including the endothelium of the continuous capillaries and small venules. Cultured endothelial cells were not labeled by PY14 under a standard culture condition, but became positively labeled when exposed to oxidative stresses and/or tyrosine phosphatase inhibitors. The reaction was prohibited by pretreating the cells with herbimycin A or genistein. Vasoactive reagents or physical stimuli did not cause the phosphorylation. Concomitant with the tyrosine phosphorylation, the number of invaginated caveolae decreased drastically, and vesicles labeled intensely for caveolin-1 appeared in the cytoplasm; the average diameter of the vesicles was larger than that of caveolae. The result implies that tyrosine phosphorylation of caveolin-1 occurs at tyrosine-14 in the normal rat endothelium in vivo and may induce caveolar vesiculation and/or fusion.
A Study of Sentinel Lymph Node Biopsy in Early Breast Cancer using Methylene Blue in a Tertiary Care Hospital in South India

Background: Sentinel lymph node biopsy in early breast cancer performed by intraparenchymal or intradermal injection of blue dye and/or radioactive colloid remains a highly acceptable method of identifying sentinel nodes largely because of its success rate. Aim: 1. To assess the efficacy of sentinel lymph node biopsy in detecting axillary metastases in cases of node negative early breast cancer. Material and Method: The study material consisted of 109 women with early breast cancer in stage T1/T2N0M0 who underwent modified radical mastectomy along with sentinel lymph node biopsy after subareolar injection of methylene blue dye at Dept. of General Surgery, SVRR Govt. General Hospital, Tirupati (AP).
The Arabidopsis Trehalose-6P Synthase AtTPS 1 Gene Is a Regulator of Glucose , Abscisic Acid , and Stress Signaling 1

Instituto de Biotecnologı́a, Universidad Nacional Autónoma de México, Col. Chamilpa, Cuernavaca 62210, Mexico (N.A); Centro de Investigación en Biotecnologı́a, Universidad Autónoma del Estado de Morelos, Col. Chamilpa, Cuernavaca 62210, Mexico (G.I.); and Laboratorium voor Moleculaire Celbiologie, Katholieke Universiteit Leuven and Vlaams Interuniversitair Instituut voor Biotechnologie (VIB), B–3001 Leuven-Heverlee, Flanders, Belgium (B.L., P.V.D., J.M.T.)
Maintenance treatment is not necessary after Helicobacter pylori eradication and healing of bleeding peptic ulcer: a 5-year prospective, randomized, controlled study.

BACKGROUND It is well accepted that in patients with uncomplicated peptic ulcers, Helicobacter pylori eradication therapy does not need to be followed by further antisecretory treatment. However, it is uncertain whether patients with bleeding peptic ulcers should receive maintenance antiulcer therapy after successful H pylori eradication and ulcer healing. The aim of this 5-year, prospective, randomized, controlled study was to investigate the role of long-term maintenance therapy after successful H pylori eradication and healing of bleeding ulcers. METHODS A total of 82 consecutive patients with H pylori-associated bleeding peptic ulcers were enrolled in the study. After successful H pylori eradication with the 1-week proton pump inhibitor-based triple therapy and an additional 3-week treatment with 20 mg of omeprazole daily for ulcer healing, the patients were assigned to one of four 16-week maintenance treatment groups as follows: group A received 15 mL of an antacid suspension 4 times daily; group B received 300 mg of colloidal bismuth subcitrate 4 times daily; group C received 20 mg of famotidine twice daily; and group D, the control group, received placebo twice daily. Follow-up included an urea breath test labeled with carbon 13, biopsy-based tests, and repeated endoscopic examination. RESULTS An analysis of variance revealed no difference in mean age and mean follow-up time among the groups. During a mean follow-up of 56 months, there was no peptic ulcer recurrence among the 3 treatment groups, and all of the patients remained free of H pylori infection during the study period. CONCLUSIONS In patients with bleeding peptic ulcers, antiulcer maintenance treatment was not necessary to prevent ulcer recurrence after successful H pylori eradication and ulcer healing. In addition, the 1-week proton pump inhibitor-based triple therapy had the efficacy to ensure long-term eradication of H pylori in a region of high prevalence.
Methodological, biological and clinical aspects of circulating free DNA in metastatic colorectal cancer

Abstract Background: Circulating DNA can be used to measure the total cell-free DNA (cfDNA) and for detection and quantification of tumor-specific genetic alterations in the peripheral blood, and the broad clinical potential of circulating DNA has attracted increasing focus over the past decade. Concentrations of circulating DNA are high in metastatic colorectal cancer (CRC), and the total levels of cfDNA have been reported to hold strong prognostic value. Colorectal tumors are characterized by a high frequency of well known, clinically relevant genetic alteration, which is readily detected in the cfDNA and holds potential for tailoring of palliative therapy and for monitoring during treatment. This review aims to present the current literature which has specifically reported data on the potential utility of cfDNA and on tumor-specific mutations in metastatic colorectal cancer (mCRC). Method: Methodological, biological and clinical aspects are discussed based on the most recent development in this specific setting, and eligible studies were identified by systematic literature searched from Pubmed and EMBASE in addition to conference papers and communications. Results: The literature regarding cfDNA in CRC is broad and heterogeneous concerning aims, nomenclature, methods, cohorts and clinical endpoints and consequently difficult to include in a single systematic search. However, the available data underline a strong clinical value of measuring both total cfDNA levels and tumor-specific mutations in the plasma of patients with mCRC, pre- and during systemic therapy. Conclusion: This paper had gathered the most recent literature on several aspects of cfDNA in mCRC, including methodological, biological and clinical aspects, and discussed the large clinical potential in this specific setting, which needs to be validated in carefully designed prospective studies in statistically relevant cohorts.