Miracle-dz/UniFAR-FTUs huggingface dataset:
Life history strategies of four small‐size fishes in the Suez Canal, Egypt

Of 35 species collected from the shores of the Suez Canal and its lakes, five were abundant year round. Sihouettea aegyptia and Aphanius dispar are of Red Sea (warm water) origin, whereas Pomatoschistus marmoratus, Aphanius fasciatus and Atherina boyeri are Mediterranean species. S. aegyptia and A. dispar are distributed throughout the Suez system whereas A. fasciatus is restricted to the northern canal. P. marmoratus and A. boyeri have not spread southward beyond the Bitter Lakes. Salinity is the main limiting factor for the distribution of Mediterranean species. S. aegyptia and A. dispar are dominant in the Bitter Lakes (salinity 44‰), whereas P. marmoratus and A. boyeri are abundant in Timsah Lake (salinity 7·8–41·6‰). There was considerable interannual and monthly variation in the relative abundance of each species. The populations were dominated by a single age group, and life spans were no more than 2 years. Rapid growth was evident during the first spring in P. marmoratus and A. boyeri and during the first summer, early autumn in S. aegyptia and A. dispar. The relative abundance of each food item in the diet varied with fish size and season. S. aegyptia, P. marmoratus and A. dispar fed mostly on harpacticoid copepods, polychaetes, demersal eggs, diatoms and blue-green algae whereas A. boyeri fed mostly on planktonic copepods. The warm water species are summer spawners, whereas the temperate species are autumn-winter spawners.
Establishment of sorghum cell suspension culture system for proteomics studies

This study describes the establishment of sorghum cell suspension culture system for use in proteomics studies. Friable sorghum callus was initiated from young shoots under completely dark conditions on MS medium supplemented with 3 mg/L 2, 4-dichlorophenoxyacetic acid (2, 4-D) and 2.5 mg/L 1-naphthaleneacetic acid (NAA). Additionally, sorghum cell suspension cultures have been initiated from the friable callus masses in liquid medium with the same composition as the callus initiation medium. Total soluble proteins (TSP) and culture filtrate (CF) proteins were extracted from the cell culture system and solubilised in urea buffer (9 M urea, 2 M thiourea and 4% CHAPS). Both onedimensional (1D) and two-dimensional (2D) gel analysis of these two proteomes show that the TSP and CF proteomes have different protein expression profiles. The sorghum TSP proteome, which is highly complex, is best resolved when separated on large format, 18 cm, pH 4 - 7 isoelectric focusing (IEF) immobilised pH gradient (IPG) strips. On the other hand, the sorghum CF proteome (secretome) is less complex with most proteins being resolved on mini format, 7 cm, pH 3 - 10 IPG strips. Furthermore, narrowing down the pH range from 3 - 10 to 4 - 7 for the CF proteome resulted in improved protein spot resolution.
Massive Multi-Document Summarization of Product Reviews with Weak Supervision

Product reviews summarization is a type of Multi-Document Summarization (MDS) task in which the summarized document sets are often far larger than in traditional MDS (up to tens of thousands of reviews). We highlight this difference and coin the term "Massive Multi-Document Summarization" (MMDS) to denote an MDS task that involves hundreds of documents or more. Prior work on product reviews summarization considered small samples of the reviews, mainly due to the difficulty of handling massive document sets. We show that summarizing small samples can result in loss of important information and provide misleading evaluation results. We propose a schema for summarizing a massive set of reviews on top of a standard summarization algorithm. Since writing large volumes of reference summaries needed for advanced neural network models is impractical, our solution relies on weak supervision. Finally, we propose an evaluation scheme that is based on multiple crowdsourced reference summaries and aims to capture the massive review collection. We show that an initial implementation of our schema significantly improves over several baselines in ROUGE scores, and exhibits strong coherence in a manual linguistic quality assessment.
Fast Graphlet Transform of Sparse Graphs

We introduce the computational problem of graphlet transform of a sparse graph. Graphlets are fundamental topology elements of all graphs/networks. They can be used as coding elements to encode graph-topological information at multiple granularity levels, for classifying vertices on the same graph/network, as well as, for making differentiation or connection across different networks. Network/graph analysis using graphlets has growing applications. We recognize the universality and increased encoding capacity in using multiple graphlets, we address the arising computational complexity issues, and we present a fast method for exact graphlet transform. The fast graphlet transform establishes a few remarkable records at once in high computational efficiency, low memory consumption, and ready translation to high-performance program and implementation. It is intended to enable and advance network/graph analysis with graphlets, and to introduce the relatively new analysis apparatus to graph theory, high-performance graph computation, and broader applications.
sbi: A toolkit for simulation-based inference

e Equally contributing authors 1 Computational Neuroengineering, Department of Electrical and Computer Engineering, Technical University of Munich 2 School of Informatics, University of Edinburgh 3 Neural Systems Analysis, Center of Advanced European Studies and Research (caesar), Bonn 4 Model-Driven Machine Learning, Centre for Materials and Coastal Research, Helmholtz-Zentrum Geesthacht 5 Machine Learning in Science, University of Tübingen 6 Empirical Inference, Max Planck Institute for Intelligent Systems, Tübingen DOI: 10.21105/joss.02505
Intermittent theta burst stimulation facilitates functional connectivity from the dorsal premotor cortex to primary motor cortex

Background Motor information in the brain is transmitted from the dorsal premotor cortex (PMd) to the primary motor cortex (M1), where it is further processed and relayed to the spinal cord to eventually generate muscle movement. However, how information from the PMd affects M1 processing and the final output is unclear. Here, we applied intermittent theta burst stimulation (iTBS) to the PMd to alter cortical excitability not only at the application site but also at the PMd projection site of M1. We aimed to determine how PMd iTBS–altered information changed M1 processing and the corticospinal output. Methods In total, 16 young, healthy participants underwent PMd iTBS with 600 pulses (iTBS600) or sham-iTBS600. Corticospinal excitability, short-interval intracortical inhibition (SICI), and intracortical facilitation (ICF) were measured using transcranial magnetic stimulation before and up to 60 min after stimulation. Results Corticospinal excitability in M1 was significantly greater 15 min after PMd iTBS600 than that after sham-iTBS600 (p = 0.012). Compared with that after sham-iTBS600, at 0 (p = 0.014) and 15 (p = 0.037) min after iTBS600, SICI in M1 was significantly decreased, whereas 15 min after iTBS600, ICF in M1 was significantly increased (p = 0.033). Conclusion Our results suggested that projections from the PMd to M1 facilitated M1 corticospinal output and that this facilitation may be attributable in part to decreased intracortical inhibition and increased intracortical facilitation in M1. Such a facilitatory network may inform future understanding of the allocation of resources to achieve optimal motion output.
Predicting job-hopping likelihood using answers to open-ended interview questions

Voluntary employee turnover incurs significant direct and indirect financial costs to organizations of all sizes. A large proportion of voluntary turnover includes people who frequently move from job to job, known as job-hopping. The ability to discover an applicant's likelihood towards job-hopping can help organizations make informed hiring decisions benefiting both parties. In this work, we show that the language one uses when responding to interview questions related to situational judgment and past behaviour is predictive of their likelihood to job hop. We used responses from over 45,000 job applicants who completed an online chat interview and also self-rated themselves on a job-hopping motive scale to analyse the correlation between the two. We evaluated five different methods of text representation, namely four open-vocabulary approaches (TF-IDF, LDA, Glove word embeddings and Doc2Vec document embeddings) and one closed-vocabulary approach (LIWC). The Glove embeddings provided the best results with a positive correlation of r=0.35 between sequences of words used and the job-hopping likelihood. With further analysis, we also found that there is a positive correlation of r=0.25 between job-hopping likelihood and the HEXACO personality trait Openness to experience. In other words, the more open a candidate is to new experiences, the more likely they are to job hop. The ability to objectively infer a candidate's likelihood towards job hopping presents significant opportunities, especially when assessing candidates with no prior work history. On the other hand, experienced candidates who come across as job hoppers, based purely on their resume, get an opportunity to indicate otherwise.
Impact of Clinical, Laboratory and Fluid Therapy Variables on Hospital Length of Stay for Children with Acute Pancreatitis

Purpose There have been many efforts to develop generalizable severity markers in children with acute pancreatitis (AP). Expert opinion panels have developed consensus guidelines on management but it is unclear if these are sufficient or valid. Our study aims to assess the effect of clinical and laboratory variables, in addition to treatment modality on hospital length of stay (LOS) as a proxy variable for severity in pediatric patients admitted with AP. Methods We conducted a retrospective chart review of patients between ages of 0–18 years, who were admitted with AP at 2 institutions between 2013–2018, John R. Oishei Children's Hospital (Buffalo, NY, USA) and Medical University of South Carolina Children's Hospital (Charleston, SC, USA). We constructed three linear regression models to analyze the effect of clinical signs of organ dysfunction, laboratory markers and fluid intake on hospital LOS. Results Ninety-two patients were included in the study. The mean age was 12 years (range, 7.6–17.4 years), 55% were females, and median LOS was 3 days. The most frequent cause of AP was idiopathic. Our study showed that elevated blood urea nitrogen (BUN) on admission (p<0.005), tachycardia that lasted for ≥48 hours (p<0.001) and need for fluid resuscitation were associated with increase LOS. Total daily fluid intake above maintenance did not have a significant effect on the primary outcome (p=0.49). Conclusion Elevated serum BUN on admission, persistent tachycardia and need for fluid resuscitation were associated with increase LOS in pediatric AP. Daily total fluid intake above recommended maintenance did not reduce LOS.
How Frequently Do We Touch Facial T-Zone: A Systematic Review

Background: Researchers across the world are emphasising the importance of hand-washing and limited touching of face to curb the spread of COVID-19. However, access to safe water and hygiene is inadequate in many places around the globe; hence T-zone touching restriction is considered more worthwhile compared to other prevention strategies. Aim: A systematic review was carried out to appraise the frequency of T-zone (eyes, nose, mouth, chin) touching in humans to comprehend the challenge of its restriction, and thus support public health professionals to produce evidence synthesis guidance for public. For this systemic review, data were collected by keyword searching, and several online databases were searched. The PRISMA checklist, PECO protocol and STROBE guideline were followed in this review, and pooled data were analysed in R version 4. Result: Total of 10 single arms observational studies were included. The pooled average (SD) facial self-touch per hour was 50.06 (±47) times, and a specific touch of T-zone was 68.7 (±27). T-zone self-touch within the total facial self-touch was found higher R = 0.680, with 95% CI 0.14, 0.91, P = 0.02 and X2 = 167.63, P < 0.0001. Conclusion: The review found that face-touch is a type of consistent regulatory movements. Control of T-zone touch requires extensive behaviour intervention and community awareness.
Magnetic Damping in Epitaxial 
Iron
 Alloyed with Vanadium and Aluminum

To develop low-moment, low-damping metallic ferromagnets for power-efficient spintronic devices, it is crucial to understand how magnetic relaxation is impacted by the addition of nonmagnetic elements. Here, we compare magnetic relaxation in epitaxial Fe films alloyed with light nonmagnetic elements of V and Al. FeV alloys exhibit lower intrinsic damping compared to pure Fe, reduced by nearly a factor of 2, whereas damping in FeAl alloys increases with Al content. Our experimental and computational results indicate that reducing the density of states at the Fermi level, rather than the average atomic number, has a more significant impact in lowering damping in Fe alloyed with light elements. Moreover, FeV is confirmed to exhibit an intrinsic Gilbert damping parameter of $\simeq$0.001, among the lowest ever reported for ferromagnetic metals.
Safety and efficacy of Lactobacillus parafarraginis DSM 32962 as a silage additive for all animal species

Abstract Following a request from the European Commission, the Panel on Additives and Products or Substances used in Animal Feed was asked to deliver a scientific opinion on the safety and efficacy of Lactobacillus parafarraginis DSM 32962 when used as a technological additive intended to improve the production of silage at a proposed application rate of 1 × 108 colony forming units (CFU)/kg fresh material. The bacterial species L. parafarraginis is considered by EFSA to be suitable for the qualified presumption of safety approach to safety assessment. As the identity of the strain has been clearly established and no acquired antimicrobial resistance determinants of concern were detected, the use of the strain as a silage additive is considered safe for livestock species, for consumers of products from animals fed the treated silage and for the environment. The additive is not an eye or dermal irritant but should be considered a potential respiratory sensitiser. No conclusions can be drawn on the skin sensitisation potential of the additive. Three studies with laboratory‐scale silos were made using samples of easy and moderately difficult to ensile forage. In each case, replicate silos containing untreated forage were compared with identical silos containing the same forage to which Lactobacillus parafarraginis DSM 32962 was added to reach an intended concentration of 1 × 108 CFU/kg fresh matter. The results showed that the addition of the additive improves significantly the aerobic stability of the silage tested.
Impact of supervised exercise training on pulmonary function parameters, exercise capacity and Irisin Biomarker in Interstitial lung disease patients

Objectives: To assess the impact of supervised exercise training (SET) on pulmonary function Parameters, exercise capacity and Irisin biomarker in Interstitial Lung Disease (ILD) patients. Methods: Ten (10)patients with ILD and 18 healthy controls of age between 30-40+ years were selected for 8-week SET program. Before and after SET all subjects performed exercise capacity six minutes’ walk test (6MWT), heart rate (HR) changes were recorded, shortness of Breath Respiratory Questionnaire (SOBQ) was obtained and Irisin levels were measured by Enzyme-Linked Immunosorbent Assay (ELISA). This interventional study was carried out at Department of Physiology, Faculty of Medicine, King Khalid University Hospital, King Saud University, Riyadh, Saudi Arabia, from October 2018 to February 2019. Results: Mean six minutes’ walk distance (6MWD) was 395 ± 68.4 m at 1st visit increased significantly (p=0.001) to 458.8± 87.1 mat 15 visit. However, 6MWD values found significantly higher in controls (517.4±84.1 m; 561.7±81.6 m; p=0.013) than ILD patients. Overall change (difference between post and pre exercise) in HRvalue was recorded lower in ILD patients (30-35 bpm) as compared to controls (40-45 bpm). Moreover, ILD patients had overall higher SOBQ score than controls. Pre SET Irisin levels of ILD patients (4.24 ±1.73 pg/ml) and controls (3.43 ±1.04pg/ml) were found unchanged dafter SET (4.48±2.02pg/ml, 3.39 ±1.41pg/ml, p=0.677, p=0.093)respectively. However, patients Irisin values were found higher as compared to controls before and after SET. Conclusion: Exercise capacity and Dyspneain patients with ILD were improved after 8-week of SET program. No major changes in Irisin levels among patients with ILD and controls were observed. Additional research requires to be carried out on large number of subjects to deter Minutese the advantages of exercise in ILD.
Vaccinia VirusExpression Vector: Coexpression of1-Galactosidase Provides Visual Screening ofRecombinant VirusPlaques

anddistinguished fromspontaneous TK-mutantsbytheaddition ofa (3-gal indicator totheagaroseoverlay. Plaques thatexpressed ,8-gal stained darkbluewithin several hoursat3rC. Alternatively, TK-selection could beeliminated, andrecombinant plaques could bereadily identified solely by their bluecolor. Thereverseprocedure, inwhichthestarting virus expresses(3-gal (i.e., formsblueplaques) andthedesired recombinant hasdeleted theentire (-gal gene (i.e., formswhiteplaques), isanother alternative. Eachprotocol wastested byconstructing vaccinia virus recombinants that expresshepatitis Bvirus surface antigen. Vaccinia virus, themostthoroughly studied memberof thepoxvirus family, wassuccessfully usedasalive vaccine toeradicate smallpox. Medical interest invaccinia virus subsequently declined butwasrestimulated whenlive recombinants wereshowntobecapable ofexpressing foreign genes (8,18)andofprotectively immunizing animals against infections withinfluenza virus (26), herpes simplex virus types 1(6,19)and2(6), hepatitis B virus (14), rabies virus (31) andvesicular stomatitis virus (10). Theability toincorporate large amountsofforeign DNA without a lossof infectivity (25), thecorrect processing ofexpressed proteins (6,10,24,26,31), andthewidehostrange ofvaccinia virus alsomakethis expression system ofspecial valueforresearch purposes. Onenovel application hasbeentoidentify target antigens forcell-mediated immuneresponses toviruses (1,33). Tofacilitate theuseofvaccinia virus asacloning and expression vehicle, Mackett etal. (9)constructed plasmid vectors thatcontain defined vaccinia virus promoters, restriction sites fortheinsertion offoreign coding sequences, andflanking segments ofthevaccinia virus thymidine kinase (TK)gene.Vaccinia virus promoters, whicharefound immediately upstream ofearly andlate vaccinia virus genes (2,5,9,30), arenecessary because ofthespecificity ofthe viral transcription system (21)andthecytoplasmic site of replication. Flanking segments ofvaccinia virus DNA are usedforhomologous recombination (16, 23,28), themost practical wayofinserting foreign sequences into thelarge 187,000-base-pair
Novel Computed Tomography-based Metric Reliably Estimates bone Strength, Offering Potentially Meaningful Enhancement in Clinical Fracture Risk Prediction

Osteoporosis with resultant fractures is a major global health problem with huge socio-economic implications for patients, families and healthcare services. Areal (2D bone mineral density (BMD) assessment is commonly used for predicting such fracture risk, but is unreliable, estimating only about 50% of bone strength. By contrast, computed tomography (CT) based techniques could provide improved metrics for estimating bone strength such as bone volume fraction (BVF; a 3D volumetric measure of mineralised bone), enabling cheap, safe and reliable strategies for clinical application, and to help divert resources to patients identified as most likely to benefit, meeting an unmet need. Here we describe a novel method for measuring BVF at clinical-CT like low-resolution (550µm voxel size). Femoral heads (n=8) were micro-CT scanned ex-vivo . Micro-CT data were downgraded in resolution from 30µm to 550µm voxel size and BVF calculated at high and low resolution. Experimental mechanical testing was applied to measure ex vivo bone strength of samples. BVF measures collected at high-resolution showed high correlation (correlation coefficient r 2 =0.95) with low-resolution data. Low-resolution BVF metrics showed high correlation (r 2 =0.96) with calculated sample strength. These results demonstrate that measuring BVF at low resolution is feasible, which also predicts bone strength. Measures of BVF should be useful for clinically estimating bone strength and fracture risk. The method needs to be validated using clinical CT scans.
Multiclass Object Classification Using Covariance Descriptors with Kernel SVM

Feature descriptor is a crucial part for image object detection and classification in computer vision. This study adopts the covariance descriptor which is a ROI(region of interest) based feature reserving the integrity of regions with rotation and scale invariant, combining with kernel SVM for multiclass object classification. The experimental results show that the combination of covariance descriptor and kernel SVM is very feasible and practical to be applied on dataset images in which the foreground objects are the major portions and the backgrounds are relatively simple.
Identifying Pleiotropic SNPs Associated With Femoral Neck and Heel Bone Mineral Density

Background Genome-wide association studies (GWASs) routinely identify loci associated with risk factors for osteoporosis. However, GWASs with relatively small sample sizes still lack sufficient power to ascertain the majority of genetic variants with small to modest effect size, which may together truly influence the phenotype. The loci identified only account for a small percentage of the heritability of osteoporosis. This study aims to identify novel genetic loci associated with DXA-derived femoral neck (FNK) bone mineral density (BMD) and quantitative ultrasound of the heel calcaneus estimated BMD (eBMD), and to detect shared/causal variants for the two traits, to assess whether the SNPs or putative causal SNPs associated with eBMD were also associated with FNK-BMD. Methods Novel loci associated with eBMD and FNK-BMD were identified by the genetic pleiotropic conditional false discovery rate (cFDR) method. Shared putative causal variants between eBMD and FNK-BMD and putative causal SNPs for each trait were identified by the colocalization method. Mendelian randomization analysis addresses the causal relationship between eBMD/FNK-BMD and fracture. Results We identified 9,500 (cFDR < 9.8E-6), 137 (cFDR < 8.9E-4) and 124 SNPs associated with eBMD, FNK-BMD, and both eBMD and FNK-BMD, respectively, with 37 genomic regions where there was a SNP that influences both eBMD and FNK-BMD. Most genomic regions only contained putative causal SNPs associated with eBMD and 3 regions contained two distinct putative causal SNPs influenced both traits, respectively. We demonstrated a causal effect of FNK-BMD/eBMD on fracture. Conclusion Most of SNPs or putative causal SNPs associated with FNK-BMD were also associated with eBMD. However, most of SNPs or putative causal SNPs associated with eBMD were not associated with FNK-BMD. The novel variants we identified may help to account for the additional proportion of variance of each trait and advance our understanding of the genetic mechanisms underlying osteoporotic fracture.