Miracle-dz/UniFAR-FTUs huggingface dataset:
Long-Term Follow-Up of Patients with Birdshot Retinochoroidopathy Treated with Systemic Immunosuppression

Purpose: Birdshot retinochoroidopathy (BRC) is a rare uveitis syndrome of presumed autoimmune etiology. Therapy with systemic and periocular corticosteroids is of inconsistent efficacy, attendant with numerous potential long-term side effects. Corticosteroid-sparing strategies with agents such as cyclosporine A or azathioprine have been suggested for this disease. Methods: We retrospectively reviewed the medical charts of patients with BRC who were evaluated consecutively at a tertiary-care, referral-based North American uveitis clinic over a 15-year period. Results: Eleven Caucasian patients (22 eyes) were diagnosed with BRC, representing approximately 1% of all cases seen at the uveitis clinic. HLA-A29 was positive in all 11 patients. We elected to treat five patients with azathioprine, methotrexate, cyclosporine A, mycophenolate mofetil, and/or IvIg, as well as systemic or periocular corticosteroid injections. The median period of follow-up for the five treated patients was six years (range: 8 months–13 years). Inflammation was reduced or stabilized in five of five patients. Conclusion: Although the definitive strategy for the management of BRC is unknown, control of intraocular inflammation and preservation of vision is possible with corticosteroid-sparing immunosuppressive agents.
Reconstructing strings from random traces

We are given a collection of m random subsequences (traces) of a string t of length n where each trace is obtained by deleting each bit in the string with probability q. Our goal is to exactly reconstruct the string t from these observed traces. We initiate here a study of deletion rates for which we can successfully reconstruct the original string using a small number of samples. We investigate a simple reconstruction algorithm called Bitwise Majority Alignment that uses majority voting (with suitable shifts) to determine each bit of the original string. We show that for random strings t, we can reconstruct the original string (w.h.p.) for q = O(1/ log n) using only O(log n) samples. For arbitrary strings t, we show that a simple modification of Bitwise Majority Alignment reconstructs a string that has identical structure to the original string (w.h.p.) for q = O(1/n1/2+ε) using O(1) samples. In this case, using O(n log n) samples, we can reconstruct the original string exactly. Our setting can be viewed as the study of an idealized biological evolutionary process where the only possible mutations are random deletions. Our goal is to understand at what mutation rates, a small number of observed samples can be correctly aligned to reconstruct the parent string.In the process of establishing these results, we show that Bitwise Majority Alignment has an interesting self-correcting property whereby local distortions in the traces do not generate errors in the reconstruction and eventually get corrected.
Association between dietary fibre intake and fruit, vegetable or whole-grain consumption and the risk of CVD: results from the PREvención con DIeta MEDiterránea (PREDIMED) trial

Abstract Prospective studies assessing the association between fibre intake or fibre-rich food consumption and the risk of CVD have often been limited by baseline assessment of diet. Thus far, no study has used yearly repeated measurements of dietary changes during follow-up. Moreover, previous studies included healthy and selected participants who did not represent subjects at high cardiovascular risk. We used yearly repeated measurements of diet to investigate the association between fibre intake and CVD in a Mediterranean cohort of elderly adults at high cardiovascular risk. We followed-up 7216 men (55–80 years) and women (60–80 years) initially free of CVD for up to 7 years in the PREvención con DIeta MEDiterránea study (registered as ISRCTN35739639). A 137-item validated FFQ was repeated yearly to assess diet. The primary end point, confirmed by a blinded ad hoc Event Adjudication Committee, was a composite of cardiovascular death, myocardial infarction and stroke. Time-dependent Cox’s regression models were used to estimate the risk of CVD according to baseline dietary exposures and to their yearly updated changes. We found a significant inverse association for fibre (P for trend=0·020) and fruits (P for trend=0·024) in age-sex adjusted models, but the statistical significance was lost in fully adjusted models. However, we found a significant inverse association with CVD incidence for the sum of fruit and vegetable consumption. Participants who consumed in total nine or more servings/d of fruits plus vegetables had a hazard ratio 0·60 (95 % CI 0·40, 0·96) of CVD in comparison with those consuming <5 servings/d.
Explorer Optimizing Spectral Learning for Parsing

We describe a search algorithm for optimizing the number of latent states when estimating latent-variable PCFGs with spectral methods. Our results show that contrary to the common belief that the number of latent states for each nonterminal in an L-PCFG can be decided in isolation with spectral methods, parsing results significantly improve if the number of latent states for each nonterminal is globally optimized, while taking into account interactions between the different nonterminals. In addition, we contribute an empirical analysis of spectral algorithms on eight morphologically rich languages: Basque, French, German, Hebrew, Hungarian, Korean, Polish and Swedish. Our results show that our estimation consistently performs better or close to coarse-to-fine expectation-maximization techniques for these languages.
Expansion of T helper type 17 lymphocytes in patients with chronic granulomatous disease

Hyper‐immunoglobulin (Ig)E syndrome (HIES) is a primary immunodeficiency associated with mutations in STAT3 resulting in impaired development of T helper type 17 (Th17) lymphocytes. HIES patients with a reduced frequency of Th17 cells present with infections caused by Staphylococcus aureus and/or Candida strains. The same spectrum of pathogens is present in patients with chronic granulomatous disease (CGD). We analysed the characteristics of the Th17 compartment in HIES and CGD. HIES patients showed very low numbers of Th17 cells. By contrast, the frequency of Th17 cells and production of Th17‐derived cytokines was significantly higher among CGD patients when compared to both control samples and HIES. Naive CD4+ cells in CGD patients had a normal capacity to differentiate into IL‐17‐producing cells and the numbers of Th17 cells in the CGD patients normalized following successful bone marrow transplantation. Our findings complement recent data on the importance of Th17 cells for elimination of infections with C. albicans and S. aureus.
Clinical teratology.

Of particular importance in teratogenesis is the time of exposure to the offending environmental agent, route of exposure, and genotype of the embryo and the mother. The major teratogens include irradiation, maternal infections, other illnesses in pregnancy (diabetes, thyroid disease, maternal phenylketonuria, virilizing diseases), a host of pharmacologic agents and environmental contaminants. Teratogen exposure carries the potential for cancer in later life. Several sources of information on teratogens are now available.
Polynomial integrality gaps for strong SDP relaxations of Densest k-subgraph

The Densest k-subgraph problem (i.e. find a size k subgraph with maximum number of edges), is one of the notorious problems in approximation algorithms. There is a significant gap between known upper and lower bounds for Densest k-subgraph: the current best algorithm gives an a O(n1/4) approximation, while even showing a small constant factor hardness requires significantly stronger assumptions than P ≠ NP. In addition to interest in designing better algorithms, a number of recent results have exploited the conjectured hardness of Densest k-subgraph and its variants. Thus, understanding the approximability of Densest k-subgraph is an important challenge. In this work, we give evidence for the hardness of approximating Densest k-subgraph within polynomial factors. Specifically, we expose the limitations of strong semidefinite programs from SDP hierarchies in solving Densest k-subgraph. Our results include: • A lower bound of Ω(n1/4/log3 n) on the integrality gap for Ω(log n/log log n) rounds of the Sherali-Adams relaxation for Densest k-subgraph. This also holds for the relaxation obtained from Sherali-Adams with an added SDP constraint. Our gap instances are in fact Erdos-Renyi random graphs. • For every e > 0, a lower bound of n2/53−e on the integrality gap of nΩ(e) rounds of the Lasserre SDP relaxation for Densest k-subgraph, and an nΩe(1) gap for n1−e rounds. Our construction proceeds via a reduction from random instances of a certain Max-CSP over large domains. In the absence of inapproximability results for Densest k-subgraph, our results show that beating a factor of nΩ(1) is a barrier for even the most powerful SDPs, and in fact even beating the best known n1/4 factor is a barrier for current techniques. Our results indicate that approximating Densest k-subgraph within a polynomial factor might be a harder problem than Unique Games or Small Set Expansion, since these problems were recently shown to be solvable using neΩ(1) rounds of the Lasserre hierarchy, where e is the completeness parameter in Unique Games and Small Set Expansion.
Selenium substitution has no direct effect on thyroid hormone metabolism in critically ill patients.

BACKGROUND In severe illness, plasma selenium levels are decreased; a decreased activity of the selenoenzyme 5'-deiodinase has been hypothesized to contribute to low tri-iodothyronine (T3) levels in non-thyroidal illness (NTI) syndrome in these patients. OBJECTIVE To analyse the influence of selenium substitution on thyroid hormone metabolism in patients with severe sepsis. DESIGN A prospective, randomized, controlled study at the medical internal intensive care unit of the University of Munich. Results are for 41 consecutive patients with severe sepsis with an APACHE II score >15. Patients received either sodium selenite (500 microg/day for the first 3 days, reducing to 250 and then 125 microg/day every 3 days) or a placebo. RESULTS At study entry, APACHE II score and demographics were identical in both groups. The mean levels of TSH, free tri-iodithyronine and total T3, as well as plasma selenium and selenium-dependent peroxidase (GSH-Px) activity, were decreased. Plasma selenium and GSH-Px activity were normalized on days 3, 7 and 14 in patients receiving selenium (n=21), but remained below normal in the control patients. Patients receiving selenium had a better clinical outcome and thyroid hormone levels normalized earlier. Thyroid hormone levels increased in patients who showed clinical improvement, independent of selenium levels or selenium substitution. CONCLUSIONS Selenium substitution in patients with NTI improves morbidity, but has no direct effect on the free and total thyroid hormones. In severely ill patients, decreased deiodinase activity due to low plasma selenium levels seems unlikely. After clinical revival, TSH and then the thyroidal hormones normalize independently of selenium substitution.
On prioritized coding for real-time streaming under packet erasures

We consider a real-time streaming system where high and low priority messages arrive at the source according to a periodic pattern, are transmitted over a packet erasure channel, and need to be decoded at the sink within a fixed delay. For a window-based erasure model, we show an upper bound on message sizes that can be asymptotically achieved with a proportional time-invariant intra-session code. For i.i. d. random erasures, we provide an upper bound on message sizes given probabilities of decoding the high and low priority messages respectively, and compare with the performance of our proportional coding scheme.
The Epoch-Greedy algorithm for contextual multi-armed bandits

We present Epoch-Greedy, an algorithm for contextual multi-armed bandits (also known as bandits with side information). Epoch-Greedy has the following properties: 1. No knowledge of a time horizon T is necessary. 2. The regret incurred by Epoch-Greedy is controlled by a sample complexity bound for a hypothesis class. 3. The regret scales as O(T2/3S1/3) or better (sometimes, much better). Here S is the complexity term in a sample complexity bound for standard supervised learning.
Quantum gravity as a dissipative deterministic system

It is argued that the so-called holographic principle will obstruct attempts to produce physically realistic models for the unification of general relativity with quantum mechanics, unless determinism in the latter is restored. The notion of time in GR is so different from the usual one in elementary particle physics that we believe that certain versions of hidden variable theories can -- and must -- be revived. A completely natural procedure is proposed, in which the dissipation of information plays an essential role. Unlike earlier attempts, it allows us to use strictly continuous and differentiable classical field theories as a starting point (although discrete variables, leading to fermionic degrees of freedom, are also welcome), and we show how an effective Hilbert space of quantum states naturally emerges when one attempts to describe the solutions statistically. Our theory removes some of the mysteries of the holographic principle; apparently non-local features are to be expected when the quantum degrees of freedom of the world are projected onto a lower-dimensional black hole horizon. Various examples and models illustrate the points we wish to make, notably a model showing that massless, non interacting neutrinos are deterministic.
Utilization of non-US educated nurses in US hospitals: implications for hospital mortality.

OBJECTIVE To determine whether, and under what circumstance, US hospital employment of non-US-educated nurses is associated with patient outcomes. DESIGN Observational study of primary data from 2006 to 2007 surveys of hospital nurses in four states (California, Florida, New Jersey and Pennsylvania). The direct and interacting effects of hospital nurse staffing and the percentage of non-US-educated nurses on 30-day surgical patient mortality and failure-to-rescue were estimated before and after controlling for patient and hospital characteristics. PARTICIPANTS Data from registered nurse respondents practicing in 665 hospitals were pooled with patient discharge data from state agencies. MAIN OUTCOMES MEASURE(S) Thirty-day surgical patient mortality and failure-to-rescue. RESULTS The effect of non-US-educated nurses on both mortality and failure-to-rescue is nil in hospitals with lower than average patient to nurse ratios, but pronounced in hospitals with average and poor nurse to patient ratios. In hospitals in which patient-to-nurse ratios are 5:1 or higher, mortality is higher when 25% or more nurses are educated outside of the USA than when <25% of nurses are non-US-educated. Moreover, the effect of having >25% non-US-educated nurses becomes increasingly deleterious as patient-to-nurse ratios increase beyond 5:1. CONCLUSIONS Employing non-US-educated nurses has a negative impact on patient mortality except where patient-to-nurse ratios are lower than average. Thus, US hospitals should give priority to achieving adequate nurse staffing levels, and be wary of hiring large percentages of non-US-educated nurses unless patient-to-nurse ratios are low.
Preclinical evaluation of a urokinase plasminogen activator receptor-targeted nanoprobe in rhesus monkeys

Purpose To translate a recombinant peptide containing the amino-terminal fragment (ATF) of urokinase plasminogen activator receptor-targeted magnetic iron oxide (IO) nanoparticles (uPAR-targeted human ATF-IONPs) into clinical applications, we conducted a pilot study to evaluate the toxicity and pharmacokinetics of this nanoparticle in normal rhesus monkeys. Methods We assessed the changes in the following: magnetic resonance imaging (MRI) signals from pretreatment stage to 14 days posttreatment, serum iron concentrations from 5 minutes posttreatment to 12 weeks posttreatment, routine blood examination and serum chemistry analysis results from pretreatment stage to 12 weeks after administration, and results of staining of the liver with Perls’ Prussian Blue and hematoxylin–eosin at 24 hours and 3 months posttreatment in two rhesus monkeys following an intravenous administration of the targeted nanoparticles either with a polyethylene glycol (ATF-PEG-IONP) or without a PEG (ATF-IONP) coating. Results The levels of alkaline phosphatase, alanine transaminase, and direct bilirubin in the two monkeys increased immediately after the administration of the IONPs but returned to normal within 20 days and stayed within the normal reference range 3 months after the injection. The creatinine levels of the two monkeys stayed within the normal range during the study. In addition, red blood cells, white blood cells, hemoglobin level, and platelets remained normal during the 3 months of the study. Conclusion All of the results suggest that a transient injury in terms of normal organ functions, but no microscopic necrotic lesions, was observed at a systemic delivery dose of 5 mg/kg of iron equivalent concentration in the acute phase, and that no chronic toxicity was found 3 months after the injection. Therefore, we conclude that uPAR-targeted IONPs have the potential to be used as receptor-targeted MRI contrasts as well as theranostic agents for the detection and treatment of human cancers in future studies.
EVALUATION OF FOUR DIFFERENT DNA EXTRACTION METHODS IN COAGULASE-NEGATIVE STAPHYLOCOCCI CLINICAL ISOLATES

Currently there are several methods to extract bacterial DNA based on different principles. However, the amount and the quality of the DNA obtained by each one of those methods is highly variable and microorganism dependent, as illustrated by coagulase-negative staphylococci (CoNS) which have a thick cell wall that is difficult to lyse. This study was designed to compare the quality and the amount of CoNS DNA, extracted by four different techniques: two in-house protocols and two commercial kits. DNA amount and quality determination was performed through spectrophotometry. The extracted DNA was also analyzed using agarose gel electrophoresis and by PCR. 267 isolates of CoNS were used in this study. The column method and thermal lyses showed better results with regard to DNA quality (mean ratio of A260/280 = 1.95) and average concentration of DNA (), respectively. All four methods tested provided appropriate DNA for PCR amplification, but with different yields. DNA quality is important since it allows the application of a large number of molecular biology techniques, and also it's storage for a longer period of time. In this sense the extraction method based on an extraction column presented the best results for CoNS.
Total body-surface area as a new prognostic variable in mycosis fungoides and Sézary syndrome

Abstract Mycosis fungoides and Sézary syndrome (MF/SS) are the most common forms of primary cutaneous T cell lymphomas. We analyzed the applicability of the cutaneous lymphoma international prognostic index (CLIPi) in MF/SS. We introduced the total body-surface area affected (TBSA) and the type of skin lesions at diagnosis as prognostic variables. The overall survival (OS) at median time of follow up (96 months) was 75.6% (CI 95%, 62.0–98.5%). In the univariate analysis, age >60 years, advanced disease, type of skin lesions and TBSA >50 showed poorer OS (p < 0.05). In the multivariate analysis there was a significant increased relative risk of death in those patients >60 years, with advanced disease and TBSA >50% (p < 0.05). TBSA identified a group of poor prognosis patients with advanced MF/SS that may benefit from novel systemic therapies.
Sensitivity- and Effort-Gain Analysis: Multilead ECG Electrode Array Selection for Activation Time Imaging

Methods for noninvasive imaging of electric function of the heart might become clinical standard procedure the next years. Thus, the overall procedure has to meet clinical requirements as an easy and fast application. In this paper, we propose a new electrode array which improves the resolution of methods for activation time imaging considering clinical constraints such as easy to apply and compatibility with routine leads. For identifying the body-surface regions where the body surface potential (BSP) is most sensitive to changes in transmembrane potential (TMP), a virtual array method was used to compute local linear dependency (LLD) maps. The virtual array method computes a measure for the LLD in every point on the body surface. The most suitable number and position of the electrodes within the sensitive body surface regions was selected by constructing effort gain (EG) plots. Such a plot depicts the relative attainable rank of the leadfield matrix in relation to the increase in number of electrodes required to build the electrode array. The attainable rank itself was computed by a detector criterion. Such a criterion estimates the maximum number of source space eigenvectors not covered by noise when being mapped to the electrode space by the leadfield matrix and recorded by a detector. From the sensitivity maps, we found that the BSP is most sensitive to changes in TMP on the upper left frontal and dorsal body surface. These sensitive regions are covered best by an electrode array consisting of two L-shaped parts of ~30 cmtimes30 cm and ~20 cmtimes20 cm. The EG analysis revealed that the array meeting clinical requirements best and improving the resolution of activation time imaging consists of 125 electrodes with a regular horizontal and vertical spacing of 2-3 cm
Predictors of low response to mild ovarian stimulation initiated on cycle day 5 for IVF.

BACKGROUND Milder stimulation protocols are being developed to minimize adverse effects of ovarian stimulation in in vitro fertilization (IVF) programs. A drawback is the possibility of an increased rate of insufficient ovarian response. This study aimed to develop a prognostic model for the prediction of cycle cancellation due to insufficient response to mild stimulation. METHODS A total of 174 IVF patients aged<38 years and with a body mass index (BMI)<28 Kg/m2 were treated with mild ovarian stimulation using a fixed daily dose (150 IU) of recombinant follicle-stimulating hormone (rFSH) from cycle day 5 and GnRH antagonist from the late follicular phase. In women with mono- or bifollicular growth (17%), the cycle was cancelled and the treatment was adjusted in a second treatment cycle by starting rFSH on cycle day 2. RESULTS In a multivariable logistic regression analysis, duration of infertility, menstrual cycle length, secondary infertility and BMI were included in the prediction model. The area under the receiver-operating characteristics curve of the model was 0.69. A probability cut-off for cancellation of 0.3 yielded an expected sensitivity of 33% and specificity of 92%. Analysis of ovarian response in the subsequent treatment cycle showed an improved ovarian response and a significant reduction in the cancellation rate. CONCLUSIONS With the presented model, it is possible to identify patients at risk for cycle cancellation, during mild ovarian stimulation, due to insufficient response. The contributing factors of the model suggest that ovarian aging and BMI are related to insufficient response to mild stimulation.
Corporate Strategy and Analyst Incentives: Do Capital Markets Encourage or Discourage Uniqueness?

A fabric softening composition which comprises a water insoluble cationic fabric softening agent of formula (I) (I) in which R1 R2 and R3 are selected from C1-C4 alkyl, or hydroxyalkyl groups or C2-4 alkenyl groups, R4 and R5 are independently selected from C7-27 alkyl or alkenyl groups; and n is an integer from 0-5 and X is methyl sulphate. The claimed fabric softening composition exhibits good stability on storage.