dataesr/scientific-paragraphs-categorization huggingface dataset:
Similar to other P-loop NTPases, in the HpDnaB transition state trapped by solid-state NMR, residues S206, G208, K209, T210 and S211 of the Walker A motif were identified in coordinating the ADP phosphate groups by their backbone amino groups and by the sidechain of K209 yielding a dense hydrogen-bond network (see Fig. 7a  for a schematic representation). DnaB helicases are characterized by a unique ARP[G/S] xGK[T/S] sequence of the Walker A motif with an Ala residue instead of Gly in the first position  16. Homologous residues were found to coordinate the phosphate chain in the crystal structure of DnaB from Bacillus stearothermophilus (currently Geobacillus stearothermophilus) crystallized with Ca 2+ :GDP:AlF 4 -and DNA (PDB accession code 4ESV  21  , see Fig. 7b  and Supplementary Table  2  for the averaged distances to the oxygen atoms of the phosphate groups).
The 2D spectra were processed with the software TOPSPIN (version 3. 5, Bruker Biospin) with a shifted (2. 0 or 3. 0) squared cosine apodization function and automated baseline correction in the indirect and direct dimensions. For 1 H-detected experiments, the sample temperature was set to 293 K  93  and varied in the range of 294-302 K for the temperature-dependence studies. A fast adjustment of the temperature in the bore of the magnet (typically causing B 0 instabilities) was achieved by a bore heating system implemented by the instrument manufacturer. This is crucial for detecting the rather small temperature dependences of proton chemical-shift values (on the order of several ppb/K)  62. For 19 F (recorded at 14. 1 T) and  27  Al (recorded at 11. 7 T) MAS-NMR experiments, the sample temperature was adjusted to 278 K.
1  H and 31 P-detected spectra were analysed with the software CcpNmr (version 2. 4. 2)  [94] [95] [96]  and referenced to 4,4-dimethyl-4-silapentane-1-sulfonic acid (DSS). 19 F and  27  Al spectra were referenced to internal standards. For more detail see the Source Data file. All samples were measured repeatedly. The samples were at least prepared twice and yield identical NMR spectra. The temperature chemical-shift gradients were analysed with MATLAB, version 9. 6. 0 (R2019a). EPR experiments. All experiments were conducted on a Bruker Elexsys E680 EPR spectrometer (Bruker Biospin) operating at W-band frequencies (~94. 2 GHz). ENDOR measurements used a 250 W radiofrequency (rf) amplifier. The temperature was generally set to 10 K. Electron-electron double resonance (ELDOR)-detected NMR spectra were acquired with a shot repetition time of 1 ms and the echo-detected hole-burning sequence t HTA -T-t p -τ -2t p -τ-echo, with t HTA = 50 µs, T = 10 µs, t p = 100 ns, τ = 1400 ns and an integration window of 1400 ns.
Raw EDNMR data were background corrected with a Lorentzian line that was fitted to the central hole, and normalized to the signal intensity far off-resonance, i. e. the peak intensity corresponds to the relative hole depth. Fitting of the EPR spectra was performed with EasySpin (version 6. 0. 0). DFT calculations of hyperfine tensors. DFT calculations were performed on small clusters mimicking the coordination sphere of the metal ion co-factor extracted from the PDB structures (BstDnaB: accession code 4ESV and AaDnaB: accession code 4NMN, see Supplementary Fig. 2 ). Hydrogen atoms were added to saturate terminating groups and their positions were optimized on a TPSS 98 /def2-SVP  99  level using TURBOMOLE (version 6. 0)  100, 101. In all TURBOMOLE SCF calculations, an energy convergence criterion of 10 -7 E h and in all geometry optimizations an energy convergence criterion of 5 × 10 -7 E h was chosen.
Acknowledgements This work was supported by the  ETH Career   SEED-69 16-1  (T. W. ) and the  ETH Research Grant   ETH-43 17-2  (T. W. ), the  Deutsche Forschungsgemeinschaft (DFG, German Research Foundation , project number  455240421  and  Heisenberg fellowship , project number  455238107 , T. W. ), an  ERC Advanced Grant  (B. H. M. , grant number  741863 , Faster) and by the  Swiss National Science Foundation  (B. H. M. , grant number  200020_159707  and  200020-188711 ), the  German Academic Exchange Service  (DAAD, A. Y. M. ) and the  EvoCell Program of the Osnabrueck University  (M. I. K. ). T. W. acknowledges discussions with  Prof. Matthias Ernst  and  Dr. Denis Lacabanne.
Data availability The NMR and EPR spectra can be accessed at https://doi. org/10. 3929/ethz-b-000501034. The following PDB structures were used in this study: 4ZC0, 4NMN, 4ESV, 3CMW and 3PUW. All experimental NMR parameters are provided as a Source Data file. Protein resonance assignments are available from the BMRB database (www. bmrb. wisc. edu, accession code 27879). Source data are provided with this paper.
This procedure showed no duplicates in either of the final databases, suggesting the presence of distinct participants in both samples. In addition, only participants working at the time of the data collection were included in the study (which was ensured by asking participants explicitly to indicate whether they worked at the time they responded to the survey). Two samples were used in the current study. Participants in both samples were employees in a wide variety of organizations and job roles across Hungary. These samples were not representative of the population of Hungarian working adults. Sample 1, recruited between January-September 2018, consisted of 242 working adults (184 females, 76%) who were aged between 18 and 73 years (M Sample1 = 35. 81, SD Sample1 = 13. 46) and worked in different organizational levels (48 blue collars: 20%, 136 white collars: 56%, 58 managers: 24%).
Statistical Analyses Statistical analyses were performed with SPSS 22 and Mplus 8  (Muthén and Muthén, 1998-2017). For factor analyses, the robust maximum likelihood estimator (MLR) was used as this estimator robust to non-normality and is more preferable when the response scale has more than five categories  (Morin et al. , 2020). The first step of the analyses comprised of the estimation of four alternative CFA solutions (see Figure  1  for a graphical depiction of these models): (1) a one-factor solution; (2) a first-order (including the 3 specific factors); (3) a secondorder (including the 3 specific factors and a higher-order work engagement factor); and a (4) bifactor solution (including the 3 specific factors and a co-existing work engagement factor). All these models were estimated separately for the two samples.
Following suggestions by  Raykov and Penev (1998) ; see also  Pekrun et al. , 2019) , RDR was interpreted in relation to RMSEA (i. e. , RDR < 0. 05 indicates strong equivalence, RDR < 0. 08 indicates acceptable equivalence). Spearman correlations were calculated between the factors to assess the validity evidence of the bifactor-CFA solution based on its test-criterion relationship. Reliability was assessed with the model-based omega composite reliability coefficient  (McDonald, 1970; Morin et al. , 2020)  and values above 0. 500 are considered adequate  (Perreira et al. , 2018). All questions were mandatory; therefore, the sample sizes were the same for all analyses. The data can be found on the following link: https://osf. io/upn9c/?view_ only=8fd4125ad1654e32b7219ba29aaa0ecf.
, 2016b). In practical terms, this approach allows researchers to obtain a more precise and direct estimate of global work engagement as bifactor models weight items based on their contribution to the factor itself. To make this process seamless, as suggested by  Perreira et al. (2018) , automated scoring procedures could be developed, or the Mplus statistical package could be used, which has the advantage of providing standardized measurements interpretable as a function of the sample mean and standard deviation.
6e7. 8 months), five patients (22%, 95% confidence interval ¼ 7e22%) had a partial response to pazopanib. The best objective response rate was 30% (95% confidence interval ¼ 13e53%) using Response Evaluation Criteria in Solid Tumors. One patient with metastatic DFSP previously treated with imatinib died after 2. 4 months. Nine patients (39%) discontinued the treatment owing to adverse events. Pharmacodynamics analyses of tumor samples were conducted: the enrichment of EGF and the EGFR-associated gene panel was associated with resistance, suggesting that EGFR-targeted therapies could be a therapeutic option to explore in DFSP. Trial registration: ClinicalTrials.
Patients We conducted an open-label phase II multicenter trial in nine cancer centers or university hospitals in France (ClinicalTrial. gov: NCT01059656). The inclusion criteria were as follows: patients with histologically proven, unresectable DFSP, which was either primary, locally recurrent, or metastatic and measurable according to the RECIST, version 1. 1; Eastern Cooperative Oncology Group performance status of 1; adequate hematologic, hepatic, and renal functions; and left ventricular ejection fraction within the local normal ranges (>45%). The unresectable stage of DFSP had to be assessed by a multidisciplinary team expert in sarcoma management before enrollment. The presence of the COL1A1ePDGFB fusion was assessed at baseline using fluorescence in situ hybridization. Patients with fibrosarcomatous DFSP were included if molecularly confirmed by the detection of the t(17;22) translocation.
Statistical methods All the patients enrolled in the trial were included in the primary analysis, and death was considered nonresponse. The study was designed according to an exact single-stage phase II design  (A'Hern, 2001)  and powered to detect an increase in the response rate from 20% to 50% at a one-sided 0. 025 significance level with 90% power. Accordingly, the null hypothesis would be rejected if !10 responses would be observed out of 26 patients. Owing to difficulties in accrual, the trial was stopped after enrollment of 23 patients before any data analysis, which lowered the power to 80%. Gene mRNA expression was compared with the best response (complete response þ PR for responders vs. SDx þ progressive disease for nonresponders) using Student's t-tests; P-values corrected to control the false discovery rate over the multiple analyses were computed  (Benjamini and Hochberg, 1995).
Data availability statements The gene expression data discussed in this article have been deposited in National Center for Biotechnology Information's Gene Expression Omnibus and are accessible through Gene Expression Omnibus series accession number GSE150787 (https://www. ncbi. nlm. nih. gov/geo/query/acc. cgi?acc¼GSE150787). The study protocol including the statistical analysis plan will be shared on request. The initial protocol did not include the possibility of sharing data of participants with researchers not involved in the study. However, access to individual patient data that underline the results reported in this article, after deidentification, can be granted on reasonable.
The entire attachment procedure lasted between 10 and 20 minutes depending on glue setting. Turtles were released ~1 hour after WACU attachment. Before attachment to a turtle and after retrieval, each WACU was rotated over all angles at exact GPS times, used as time stamps, to assess and correct the potential drift of their internal Real Time Clock (RTC) throughout the duration of deployment. All times are given as UTC (Universal Time Coordinated), while local time was UTC+2. In addition to data recorded by the WACUs, air and water temperatures were recorded at the study site using Tinytags data-loggers (Gemini Data Loggers, Chichester, UK, https://www. geminidataloggers. com/fr/). These loggers recorded temperature every 10 minutes: (1) in the air (TAirField), (2) at three different depths within the water column of the pond, using three devices that were suspended at a vertical rope: (a) at the surface (TWaterSurface), (b) at 20 cm depth (TWater20cm), and (c) at the bottom of the pond (TWaterBottom).
Data handling Data were handled, pre-treated, visualized and analysed using Matlab (version 8. depth). The 3-axis acceleration signal was decomposed using a low-pass filter (filtfilt Matlab function) following  [8]. We used a 2 second window for the low pass filter to minimize variance of the vectorial sum of the static components. For each axis, the low-pass filter extracted the static (due to gravity) and dynamic (due to a change in velocity) components of the acceleration signal  [8]. The Vectorial Dynamic Body Acceleration (VeDBA, in m. s -2 ) was calculated as the vectorial sum of the absolute values of the dynamic component of the three axes: in other words, VeDBA is the total acceleration due to changes in animal velocity. When VeDBA is integrated over a certain time window, the result (in m.
All acceleration-derived nest digging and nesting events occurred between 29 May and 25 June, 2017, during the Evening. Only Turtle#5 that was not observed during nocturnal patrols nested during the Morning. On average, nest digging lasted 73 ± 38 min and was associated with a mean VeDBA of 0. 31 ± 0. 06 m. s -2 (Table  1 ). As a comparison, mean VeDBA computed over the entire dataset was 0. 16 ± 0. 12 m. s -2 , i. e. half that observed during nest digging. Accordingly, nesting (walking, nest digging, laying eggs, nest covering) appears as a highly energy-consuming activity.
Discussion This study shows that 3-axis accelerometry associated with simple temperature, pressure, light sensors provide unrevealed fine-scale behaviours and time-budget in free living freshwater turtles throughout the nesting season. We show that in Alsace, NE of France, adult females behave according to four distinguishable phases over the circadian cycle, referred as Night, Morning, Midday, and Evening. Each of the four phases were associated with particular behaviours and activity levels. Additionally, the high resolution and high frequency data collected with these devices permitted to assess breathing events, timing of nesting events and energetic proxies (VeDBA) derived from acceleration. Importantly, we show that the nesting events appear to be a turning point in terms of individual behaviour, energy expenditure, and environmental drivers: before nesting occurs, the daily activity is highly related to ambient temperature, whereas it shows more stochastic patterns and changes afterward (Figs  2A  and 2D ).
Automatic detection of daily patterns The algorithm we developed to identify daily patterns has proven a powerful, fast and customisable tool. First, it allowed to work on extensive datasets (one 3-axis accelerometer operating at 10Hz over 140 days provides 130 million lines of [Time,X,Y,Z], i. e. ~4. 5 GB of data), without subjectivity in pattern cutting. Second, despite automatic detection based on threshold values that may introduce biases (e. g. a point just above a threshold value is automatically removed whereas a visual/manual treatment may have led to take it into account), visual inspection of 12 randomly chosen days revealed that the algorithm is highly robust and consistent in terms of number of events.
Foraging occurs in the morning In the morning, turtles experienced temperatures (TWACU) closest to TWaterSurface (Fig 1A ), indicating that turtles mostly remained close to the surface, as confirmed by direct field observations. The subsurface layer has been proposed as the preferred environment for foraging in pond turtles  [32] [33]. However, actual behaviour of WACU-equipped individuals monitored in our study was hard to deduce from recorded data only. There was neither an informative signal in the temperature records, nor a clear pattern in pressure and angle data. Yet, the pressure signal was very erratic, suggesting that turtles repeatedly banged into obstacles with the logger attached to the carapace. Such erratic pressure signal constrained us to use water temperature as a proxy of the water depth where turtles actually behaved.
Acknowledgments The study was part of the research project EMYS@lsace led by JYG who initially conducted field procedures, algorithms writing and data analyses. Fieldwork was additionally run by ASLG. Algorithms and data analyses were completed by TM. Special thanks to  Yann Tremblay  for initial advices in mastering Matlab,  Nancy Rebout  for statistical analyses and  Manfred Enstipp  for correcting the first drafts. Thanks to  Philippe Kniebly ,  Bapstiste Doenlen ,  Valentin Amrhein  and  Lilla Lovazc  ( Petite Camargue Alsacienne ) for their logistical support in the field.
This VEGFdependent increase in mean fEPSP slopes was not associated with a change in PPF (Figures  5G  and 5H ). Overall, our data demonstrated the importance of VEGF in restoring the strength of basal synaptic transmission when hippocampal synapses are challenged by toxic Abo, either during acute exposure or chronically in the APP/PS1 model of AD. Accumulating evidence indicates that GluA1 trafficking and phosphorylation processes also have a critical role in synaptic plasticity  (Citri and Malenka, 2008). In addition, invalidation of VEGFR2 in neurons or trapping of endogenously released VEGF was reported to be detrimental to LTP in the hippocampus  (De Rossi et al. , 2016; Licht et al. , 2011). Thus, we assessed the biological activity of Abo and/or VEGF on long-term synaptic plasticity in acute hippocampal slices from adult mice after theta burst stimulation (TBS) of Schaeffer collaterals.
After washing in TBS 1% Tween 20, arrays were incubated with HRP-conjugated Streptavidin for 2h at RT. Peptide interaction was detected using SuperSigna West Pico PLUS Chemiluminescent Substrate according to the manufacturer's instructions. Nonspecific Ab binding was determined using control peptides. Spots were quantified using ImageJ software and OD values measured with control incubation assigned as background. For each experiment, OD values reflecting binding to the duplicated spots were used to calculate the mean value for each spot.
Electrical stimulation was realized with a bipolar tungsten electrode placed in stratum radiatum and fEPSPs were measured using borosilicate glass microelectrodes (~1-3 MU) filled with NaCl (1 M), or ACSF. The tip of the recording electrode was located close to the slice surface. LFP were amplified and low-pass filtered at 3 kHz using a differential amplifier. Data acquisition and analyses were carried out using a National Instrument interface coupled with Elphy software (G. Sadoc, UNIC-CNRS, Gif-sur-Yvette, France). LFP were sampled at 10 kHz. We computed fEPSPs initial slope to quantify synaptic responses. After baseline recordings of synaptic activity evoked at 0. 2 Hz for at least 10 minutes, slices were treated with Abo (500 nM) or vehicle for 40 min before LTP or LTD induction. To minimize indirect effects, local VEGF applications (500 ng.
Cultures were subsequently counterstained with DAPI and mounted in FluorSave reagent. Hippocampal neuron transfection for 3D confocal imaging 11 DIV hippocampal neurons were transfected with a pEGFP-C1 plasmid coding for enhanced green fluorescent protein (eGFP) under a CMV promoter (GenBank Accession #: U55763), using Lipofectamine LTX. Briefly, cells were treated with a mix including LTX, DNA and Plus reagent in OptiMEM. Transfection medium was removed after 5h and replaced with fresh Neurobasal medium supplemented with L-glutamine (2 mM), 2% B27, without antibiotics, for 24h. Next, half of the medium was changed for fresh supplemented Neurobasal medium with antibiotics. Hippocampal neurons were treated at 6 days post-transfection for 24h with Abo or control peptide, supplemented or not with VEGF.
IMAGE ACQUISITION AND ANALYSIS Imaging of brain section and cell surface immunostainings Images were obtained using a Zeiss Imager Z1 equipped with Apotome technology for human brain section and hippocampal cell surface immunostainings, and with a slide scanner Axio Scan. Z1 for immunostaining of transgenic mice brain sections. For each image acquisition system identical acquisition parameters were used between treated conditions, and images were further analyzed with ImageJ software. To assess GluA1 surface expression, regions of interest (ROIs) were centered on the dendrite of hippocampal neurons in which F-actin cytoskeleton was labeled using Alexa fluor 555 phalloidin, and the density as well as the size of GluA1 clusters was quantified in each ROI in collapsed Z stacks. GluA1 surface clusters were defined as fluorescence signal being fivefold above background fluorescence and ranging from 0.
ACKNOWLEDGMENTS We thank  Smatti Batoule ,  Annabelle Bouchardon ,  Bruno Chapuis , and  Denis Ressnikoff  from the  Centre d'Imagerie Quantitative Lyon-Est ;  Corinne Perrin  and  Anthony Terra  from the  CRB HCL ; and Aurelie Mongope and  Jean-Michel Vicat  from the  Animalerie Lyon-Est Module SPF facility  ( University Lyon 1 ) for assistance. We are grateful to  Kevin Baranger ,  Anne Didier ,  Gilles Pages , and  Laure Verret  for helpful discussions. This study was supported by grants from the  Institut National de la Santeet de la Recherche Medicale  and the  French foundations Fondation Vaincre Alzhemer (R17004CC)  (to C. M. ) and  Fondation d'Entreprise Caisse d'Epargne Rhône-Alpes  (CERA;  R14154CC ) (to C. M. ). L. M. was supported by a doctoral research contract  ADR ARC2  from the Region  Rhône-Alpes , and P.
Gregorio del Olmo Lete (Madrid: Trotta / Fundación San Millán de la Cogolla, 2008), 13-75; and "The Bible in Spanish and Catalan," in From 600 to 1450, vol. 2 of The New Cambridge History of the Bible, ed. Richard Marsden and E. Ann Matter, (Cambridge: Cambridge University Press, 2012), 2:288-306; Pedro Sánchez-Prieto Borja, "Biblias romanceadas," in Alvar and Lucía Megías, Diccionario filológico, 212-223. The Biblia Medieval database, http://www. bibliamedieval. es, includes up-to-date information about the entire group of medieval ence in the translation of twenty-eight Hebrew lemmata in the eleven medieval codices containing vernacular renderings of the Hebrew Bible into Castilian, to determine how many translations this textual corpus contains. Based on this analysis, they have established six distinct translation projects: E3 (complete Bible), E19 (Pentateuch), E7/E5 (complete Bible), the Marqués de Santillana Bible (E4 for Pentateuch, Former Prophets and Writings, and bnm for Later Prophets and Writings),37 the Arragel Bibles (Arragel and rah, the latter for Later Prophets), and the Former Prophets contained in ms Canon Ital.
6. 2 Jb One thing to note before proceeding is that Arragel was translating both from the Hebrew text and from the Vulgate. His translation has been included in the study because, when he translated from the Hebrew, there are inter-51 The romanceamientos that are relevant for comparing are: E3, E5 (represented by the E5 and ev codices), the Marqués de Santillana Bible (represented by the E4 and bnm codices), and Arragel (represented by the Arragel Bible). Here I follow the edition included in the Biblia Medieval database, but unlike the Biblia Medieval, I do not indicate in italics the completion of the abbreviations. The ladinamientos that I have consulted are those that have already been mentioned (hs, Lombroso, S, L, and Ferrara). 52 For the purposes of the comparison, note the following: 1) each of the terms of a "doublet" (nos.
At first, the vernacular Psalter and liturgical gospels and epistles escaped the prohibition. 8 See Fernández López, Lectura y prohibición, 142-143. 9 It would be of little use to present a detailed history of the scholarship on each one of these codices here. For a relatively recent bibliographical survey, see Gemma Avenoza and Andrés Enrique-Arias, "Bibliografía sobre las biblias romanceadas castellanas medievales," Boletín bibliográfico de la Asociación Hispánica de Literatura Medieval 19 (2005): 411-454, and for more-recent updates see Andrés Enrique-Arias and F. Javier Pueyo Mena, eds. , Biblia Medieval database, http://www. bibliamedieval. es, which includes a searchable corpus of all medieval translations of the Bible into Castilian and detailed information on each of the codices and fragments included therein.