nils-herrmann/clean_scirepeval huggingface dataset:
Assessing the 5S ribosomal RNA heterogeneity in Arabidopsis thaliana using short RNA next generation sequencing data.
Venue: Acta biochimica Polonica

In eukaryotes, ribosomal 5S rRNAs are products of multigene families organized within clusters of tandemly repeated units. Accumulation of genomic data obtained from a variety of organisms demonstrated that the potential 5S rRNA coding sequences show a large number of variants, often incompatible with folding into a correct secondary structure. Here, we present results of an analysis of a large set of short RNA sequences generated by the next generation sequencing techniques, to address the problem of heterogeneity of the 5S rRNA transcripts in Arabidopsis and identification of potentially functional rRNA derived fragments.
Genomic evaluation, breed identification, and population structure of Guernsey cattle in North America, Great Britain, and the Isle of Guernsey.
Venue: Journal of dairy science

As of December 2015, 2,376 Guernsey bulls and cows had genotypes from collaboration between the United States, Canada, the United Kingdom, and the Isle of Guernsey. Of those, 439 bulls and 504 cows had traditional US evaluations, which provided sufficient data to justify investigation of the possible benefits of genomic evaluation for the Guernsey breed. Evaluation accuracy was assessed using a traditional 4 yr cutoff study. Twenty two traits were analyzed (5 yield traits, 3 functional traits, and 14 conformation traits) Mean reliability gain over that for parent average was 16.8 percentage points across traits, which compares with 8.2, 18.5, 20.0, and 32.6 percentage points reported for Ayrshires, Brown Swiss, Jerseys, and Holsteins, respectively. Highest Guernsey reliability gains were for rump width (44.5 percentage points) and dairy form (40.5 percentage points) lowest gains were for teat length (1.9 percentage points) and rear legs (side view) (2.3 percentage points) Slight reliability losses (1.5 to 4.5 percentage points) were found for udder cleft, final score, and udder depth as well as a larger loss (13.6 percentage points) for fore udder attachment. Twenty one single nucleotide polymorphisms were identified for Guernsey breed determination and can be used in routine genotype quality control to confirm breed and identify crossbreds. No haplotypes that affect fertility were identified from the current data set. Principal component analysis showed some divergence of US and Isle of Guernsey subpopulations. However, the overlap of US, Canadian, UK, and Isle of Guernsey subpopulations indicated the presence of gene flow, and the similarities in the subpopulations supports a common genomic evaluation system across the regions.
Depth data fusion for simultaneous localization and mapping RGB DD SLAM
Venue: 2016 IEEE International Conference on Multisensor Fusion and Integration for Intelligent Systems (MFI)

This paper presents an approach to data fusion from multiple depth sensors with different principles of range measurements. This concept is motivated by the observation that depth sensors exploiting different range measurement techniques have also distinct characteristics of the uncertainty and artifacts in the obtained depth images. Thus, fusing the information from two or more measurement channels allows us to mutually compensate for some of the unwanted effects. The target application for our combined sensor is Simultaneous Localization and Mapping (SLAM) We demonstrated that fusing depth data from two sources in the convex optimization framework yields better results in feature based 3 D SLAM, than the use of individual sensors for this task. The experimental part is based on data registered with a calibrated rig comprising ASUS Xtion Pro Live and MESA SwissRanger SR 4000 sensors, and ground truth trajectories obtained from a motion capture system. The results of sensor trajectory estimation are demonstrated in terms of the ATE and RPE metrics, widely adopted by the SLAM community.
On User Centric Modular QoE Prediction for VoIP Based on Machine Learning Algorithms
Venue: IEEE Transactions on Mobile Computing

The impact of the network performance on the quality of experience (QoE) for various services is not well understood. Assessing the impact of different network and channel conditions on the user experience is important for improving the telecommunication services. The QoE for various wireless services including VoIP, video streaming, and web browsing, has been in the epicenter of recent networking activities. The majority of such efforts aim to characterize the user experience, analyzing various types of measurements often in an aggregate manner. This paper proposes the MLQoE, a modular algorithm for user centric QoE prediction. The MLQoE employs multiple machine learning (ML) algorithms, namely, Artificial Neural Networks, Support Vector Regression machines, Decision Trees, and Gaussian Naive Bayes classifiers, and tunes their hyper parameters. It uses the Nested Cross Validation (nested CV) protocol for selecting the best classifier and the corresponding best hyper parameter values and estimates the performance of the final model. The MLQoE is conservative in the performance estimation despite multiple induction of models. The MLQoE is modular, in that, it can be easily extended to include other ML algorithms. The MLQoE selects the ML algorithm that exhibits the best performance and its parameters automatically given the dataset used as input. It uses empirical measurements based on network metrics (e.g. packet loss, delay, and packet interarrival) and subjective opinion scores reported by actual users. This paper extensively evaluates the MLQoE using three unidirectional datasets containing VoIP calls over wireless networks under various network conditions and feedback from subjects (collected in field studies) Moreover, it performs a preliminary analysis to assess the generality of our methodology using bidirectional VoIP and video traces. The MLQoE outperforms several state of the art algorithms, resulting in fairly accurate predictions.
Fiery Cinema: The Emergence of an Affective Medium in China, 1915 1945

Weihong Bao's Fiery Cinema: The Emergence of an Affective Medium in China 1915 1945 innovatively combines a rigorously researched history of cinema in early 20th century China with audacious theorizations on reception and spectatorship, affect theory, and media genealogy. Bao's ambitious study aims to integrate elusive dynamics and intangible materials into a historical reconstruction of Chinese cinema's numerous permutations from the silent era to World War II. While performing close readings of contemporary media theory, Chinese film reviews and journals, and key sequences of surviving films, posters and photographs, Bao also teases out the impact of discourses and practices infrequently seen as cinematic. Her case studies, in fact, cover an eclectic range of objects and contexts including irretrievably lost films, affective and somatic structures of experience, hypnotism, peep shows, glass architecture, and performative displays of destruction. Consequently, while this study is firmly entrenched within contemporary academic discourses on modern China, Bao's innovative and exacting rethinking of key categories of analysis in the humanities such as medium, affect, intermediality and spectatorship should resonate across a vast range of scholarly disciplines.
An eccentric companion at the edge of the brown dwarf desert orbiting the 2.4 M giant star HIP 67537

We report the discovery of a substellar companion around the giant star HIP 67537. Based on precision radial velocity measurements from CHIRON and FEROS high resolution spectroscopic data, we derived the following orbital elements for HIP 67537 b: mb sin i 11.1+0.4 1.1Mjup, a =4.9+0.14 0.13 AU and e 0.59+0.05 0.02 Considering random inclination angles, this object has 65% probability to be above the theoretical deuterium burning limit, thus it is one of the few known objects in the planet to brown dwarf (BD) transition region. In addition, we analyzed the Hipparcos astrometric data of this star, from which we derived a minimum inclination angle for the companion of ~2 deg. This value corresponds to an upper mass limit of ~0.3 M, therefore the probability that HIP 67537 b is stellar in nature is 7% The large mass of the host star and the high orbital eccentricity makes HIP 67537 b a very interesting and rare substellar object. This is the second candidate companion in the brown dwarf desert detected in the sample of intermediate mass stars targeted by the EXoPlanets aRound Evolved StarS (EXPRESS) radial velocity program, which corresponds to a detection fraction of f +2.0 0.5 This value is larger than the fraction observed in solar type stars, providing new observational evidence of an enhanced formation efficiency of massive substellar companions in massive disks. Finally, we speculate about different formation channels for this object.
09 Implementation of Complex Gas Sensor Systems: Ideas for a Structural Model

Assessing gas mixtures is a task of tremendous complexity, especially when using cost efficient chemical sensors. Current research topics tend to concentrate on materials, processing, data analysis and simulations of promising target applications. However, successful commercialization of gas sensing solutions needs to cover the complete scope of the corresponding problem. Blind spots will cause false interpretation of results, overestimation of performance and inevitably result in overall failure. As a step towards a universal scheme for gas sensing devices and systems, a structural model for these is proposed inspired by the ISO OSI model for communication networks. It is intended to support development for a specific task as well as laying out the general idea of complex commercial or research projects. Main benefits are instant overview over the technology, indication of completeness and interface definition between sub systems and project groups. In order to cover general considerations on the meaningfulness of the target application, additional logical layers that go beyond the technological scope are included organically. Examples are given to demonstrate applicability to current implementations of devices and systems. Further work will include refining layer and interface definitions as well as evaluating quantification methods for system performance; application notes shall be developed in collaboration with the sensor community.
Rational design of coaxial cable MoSe2/C: Towards high performance electrode materials for lithium ion and sodium ion batteries

A novel coaxial cable MoSe2/hollow carbon nanofiber composites (denoted as coaxial cable MoSe2/C composites) is fabricated employing selenium/carbon core shell composite as the template, carbon and selenium resource. Hollow carbon nanofibers are uniformly decorated with few layered and ultrasmall MoSe2 nanosheets by the observation of TEM. When calculated on the basis of the whole composite, coaxial cable MoSe2/C composites not only show high lithium specific capacity (658 mAh g 1) and excellent cycling performance (almost 100% capacity retention even after 100 cycles at a current density of 0.5 A g 1) but also exhibit a high rate capability of 524 mAh g 1 at the rate of 3 A g 1. When evaluated as an anode for sodium storage, a specific capacity of 423 mAh g 1and 395 mAh g 1 is achieved at 0.5 A g 1 and 1 A g 1 after 100 cycles, respectively. Excellent cycling stability and rate performance of the coaxial cable MoSe2/C composites can be ascribed to the synergic effects of few layered and ultrasmall MoSe2 nanosheets as well as hollow carbon nanofibers. Our study not only provides a facile synthetic method for both lithium ion and sodium ion batteries, but also exploits a novel way to the combination of Se based compounds and carbon matrix.
A novel approach for extraction and representation of main data from web pages to Android application
Venue: 2016 IEEE International Conference on Recent Trends in Electronics, Information Communication Technology (RTEICT)

World Wide Web is the largest and richest information repository available today. The enormous growth of web makes large scale analysis difficult. An automated method is needed for analyzing and extracting knowledge from the web, along with samples of the knowledge that can be extracted, without user intervention. Data mining techniques are applied to extract knowledge from web data. Web data is text, image, records, hyperlinks, tags et. Rich Site Summary (RSS) is a way to get briefed items on a website as the web site gets updated, and these are called feeds. A feed is often a series of headlines and brief summaries of all the articles published on a web page. Instead of having to visit numerous web sites to get weather, sports, latest gossip, or latest political debates etc, just go to the mobile application and see it combined and aggregated into a single window with a good user interface. An application is developed for the popular mobile platform Android.
Simple PPDB: A Paraphrase Database for Simplification
Venue: ACL

We release the Simple Paraphrase Database, a subset of of the Paraphrase Database (PPDB) adapted for the task of text simplification. We train a supervised model to associate simplification scores with each phrase pair, producing rankings competitive with state of theart lexical simplification models. Our new simplification database contains 4.5 million paraphrase rules, making it the largest available resource for lexical simplification.
CRISPR/Cas9 Based Genome Editing of Penicillium chrysogenum.
Venue: ACS synthetic biology

CRISPR/Cas9 based systems have emerged as versatile platforms for precision genome editing in a wide range of organisms. Here we have developed powerful CRISPR/Cas9 tools for marker based and marker free genome modifications in Penicillium chrysogenum, a model filamentous fungus and industrially relevant cell factory. The developed CRISPR/Cas9 toolbox is highly flexible and allows editing of new targets with minimal cloning efforts. The Cas9 protein and the sgRNA can be either delivered during transformation, as preassembled CRISPR Cas9 ribonucleoproteins (RNPs) or expressed from an AMA1 based plasmid within the cell. The direct delivery of the Cas9 protein with in vitro synthesized sgRNA to the cells allows for a transient method for genome engineering that may rapidly be applicable for other filamentous fungi. The expression of Cas9 from an AMA1 based vector was shown to be highly efficient for marker free gene deletions.
Talaromyces (Penicillium) marneffei infection in non HIV infected patients
Venue: Emerging Microbes Infections

Talaromyces (Penicillium) marneffei is an important pathogenic thermally dimorphic fungus causing systemic mycosis in Southeast Asia. The clinical significance of T. marneffei became evident when the human immunodeficiency virus (HIV)/acquired immunodeficiency syndrome epidemic arrived in Southeast Asia in 1988. Subsequently, a decline in the incidence of T. marneffei infection among HIV infected patients was seen in regions with access to highly active antiretroviral therapy and other control measures for HIV. Since the 1990s, an increasing number of T. marneffei infections have been reported among non HIV infected patients with impaired cell mediated immunity. Their comorbidities included primary adult onset immunodeficiency due to anti interferon gamma autoantibodies and secondary immunosuppressive conditions including other autoimmune diseases, solid organ and hematopoietic stem cell transplantations, T lymphocyte depleting immunsuppressive drugs and novel anti cancer targeted therapies such as anti CD20 monoclonal antibodies and kinase inhibitors. Moreover, improved immunological diagnostics identified more primary immunodeficiency syndromes associated with T. marneffei infection in children. The higher case fatality rate of T. marneffei infection in non HIV infected than HIV infected patients might be related to delayed diagnosis due to the lack of clinical suspicion. Correction of the underlying immune defects and early use of antifungals are important treatment strategies. Clinicians should be familiar with the changing epidemiology and clinical management of T. marneffei infection among non HIV infected patients.
Treasury Single Account: A Tool for Effective Cash Management in Nigeria

The Treasury Single Account is a financial tool that unifies all government accounts in a single pool for effective cash management. It ensures that all tax and non tax revenues are collected from all sources and payments due are made correctly in a timely manner and that government's cash balances are optimally managed to reduce borrowing costs.TSA was introduced to bring an end to the fragmented multiple accounts kept by all Ministries, Departments and Agencies. The objective of this paper is to examine the effectiveness of the TSA as a tool for effective cash management. The research examines the objectives and benefits of TSA as a catalyst for public financial management in Nigeria. It highlights the emerging issues in TSA implementation, its operational guidelines and essential requirements of the TSA in federating states and the stakeholders responsibilities in the operation of the policy .The paper also discusses the various operational challenges facing the implementation of TSA in Nigeria and concluded that TSA as a financial tool can only achieve its desired objectives in blocking loopholes of wastages and leakages ,curbing corruption and financial recklessness in ranks and file of government functionaries and enthroning transparency and probity, if government put in place enabling environment and adequate legislative supports for the smooth implementation of the policy with minimum infrastructural and technological facilities needed by the MDAs for meaningful compliance. Only gradual implementation of TSA policy can serve as a catalyst and a tool for effective cash management in Nigeria.
Tiny Descriptors for Image Retrieval with Unsupervised Triplet Hashing
Venue: 2016 Data Compression Conference (DCC)

A typical image retrieval pipeline starts with the comparison of global descriptors from a large database to find a short list of candidate matches. A good image descriptor is key to the retrieval pipeline and should reconcile two contradictory requirements: providing recall rates as high as possible and being as compact as possible for fast matching. Following the recent successes of Deep Convolutional Neural Networks (DCNN) for large scale image classification, descriptors extracted from DCNNs are increasingly used in place of the traditional hand crafted descriptors such as Fisher Vectors (FV) with better retrieval performances. Nevertheless, the dimensionality of a typical DCNN descriptor extracted either from the visual feature pyramid or the fully connected layers remains quite high at several thousands of scalar values. In this paper, we propose Unsupervised Triplet Hashing (UTH) a fully unsupervised method to compute extremely compact binary hashes in the 32 256 bits range from high dimensional global descriptors. UTH consists of two successive deep learning steps. First, Stacked Restricted Boltzmann Machines (SRBM) a type of unsupervised deep neural nets, are used to learn binary embedding functions able to bring the descriptor size down to the desired bitrate. SRBMs are typically able to ensure a very high compression rate at the expense of loosing some desirable metric properties of the original DCNN descriptor space. Then, triplet networks, a rank learning scheme based on weight sharing nets is used to fine tune the binary embedding functions to retain as much as possible of the useful metric properties of the original space. A thorough empirical evaluation conducted on multiple publicly available dataset using DCNN descriptors shows that our method is able to significantly outperform state of the art unsupervised schemes in the target bit range.
Hodgkin lymphoma: MOPP chemotherapy to PD 1 blockade and beyond
Venue: American journal of hematology

Hodgkin lymphoma is a rare lymphoid malignancy affecting ~9,200 new patients in the United States annually. Progress in the management of this disease over the past 50 years has been remarkable and the prognosis of this malignancy has changed from a uniformly fatal process to one in which the vast majority of patients are expected to be cured. This remarkable progress has been due to the use of combination approaches incorporating chemotherapy and radiation therapy, and now more recently antibody drug conjugates and immune checkpoint inhibitors. The goal for the future is to develop treatment combinations that successfully treat all patients and markedly decrease the long term side effects.  2016.
Treatment of Advanced Hodgkin's Disease With Chemotherapy Comparison of MOPP/ABV Hybrid Regimen With Alternating Courses of MOPP and ABVD

The institution affiliation section on page 1638 of the April 1997 article entitled, "Treatment of Advanced Hodgkin's Disease With Chemotherapy Comparison of MOPP/ABV Hybrid Regimen With Alternating Courses of MOPP and ABVD: A Report From the National Cancer Institute of Canada Clinical Trials Group" by Connors, et al ( 1997) was incomplete. The "London Regional Cancer Centre, London, Ontario, Canada" should have been included in the listing of author affiliated institutions.
Secondary Neoplasms in Children with Hodgkin's Lymphoma Receiving C MOPP and Radiotherapy: Presentation of Four Cases
Venue: Turkish journal of haematology official journal of Turkish Society of Haematology

Patients who survive Hodgkin lymphoma (HL) are at increased risk of secondary neoplasms (SNs) A wide variety of SNs have been reported, including leukemias, non Hodgkin's lymphomas, and solid tumors, specifically breast and thyroid cancers. Herein we report subsequent neoplasms in four patients with HL receiving chemoradiotherapy. It is interesting that three SNs, fibrosarcoma, thyroid carcinoma, and retrobulbar meningioma, were observed in the radiation area in one of our patients. A hypopharyngeal epithelioid malignant peripheral nerve sheath tumor as an unusual secondary malignant neoplasm developed in another patient, while a benign thyroid nodule and invasive ductal breast carcinoma were observed at different times in the female patient. Follicular adenoma of the thyroid gland developed in one of our patients.
Understanding purchase intention towards Chinese products: Role of ethnocentrism, animosity, status and self esteem

The Indian market has got flooded with Chinese goods that pose a great threat to indigenous businesses. Despite increase in bilateral trade, the relationship between India and China continues to be marred with suspicion, animosity and distrust. Therefore, it becomes meaningful to understand how the consumers distinguish between domestic and Chinese goods. The study examines the relationship between ethnocentrism, customer animosity, social status and personal self esteem and their impact on purchase intention towards Chinese imports. The results indicate that the attitudes and behaviour of consumers in an emerging nation differ greatly from their counterparts in developed nations. Contrary to expectations, the relationship between ethnocentrism and customer animosity is not significant. Personal self esteem and customer animosity impact the purchase intentions of Indians while ethnocentrism and social status do not have any such influence. The study seeks to expand the existing literature on purchase intention of foreign products and also help the marketers design their marketing mix strategies.