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opencc-by-4.0Sep 2024View details →

Protein engineering using variational free energy approximation

Data generated by PREVENT model and used in manuscript "Protein engineering using variational free energy approximation". Contains raw input data, R scripts and Jupyter Notebooks to process data and output figures used in the main text and supplementary materials of the manuscripts.

opencc-by-4.0Jun 2021View details →

Data for: Semiclassical approach to photophysics beyond Kasha's rule and vibronic spectroscopy beyond the Condon approximation. The case of azulene

Data for publication: A. Prlj, T. Begušić, Z. T. Zhang, G. C. Fish, M. Wehrle, T. Zimmermann, S. Choi, J. Roulet, J.-E. Moser, and J. Vaníček, J. Chem. Theory Comput. 16 (4), 2617–2626 (2020). Contains simulated linear absorption and emission spectra of azulene, excited-state and ground-state ab initio trajectories and single-point calculations, and results of nonadiabatic mixed quantum-classical simulations.

opencc-by-4.0Oct 2004View details →

Figs. 1–6. Americobdella valdiviana. 1. Whole specimen approximately 20 in Leech Collections from Chile Including Two New Species of Helobdella (Annelida: Hirudinida)

Figs. 1–6. Americobdella valdiviana. 1. Whole specimen approximately 20 cm in length from the Universidad Austral. 2. Ventral view of female (f) and male (m) gonopores. 3. Dorsal view of caudal somites in which there are no annuli between the anus and the sucker. 4. Dorsal view of cephalic somites in live specimen from Hueyelhue. 5. Lateral view of cephalic somites in live specimen from Hueyelhue. 6. Dissection of clitellar somites revealing the atrial region (a), ovisacs (o), female gonopore (f), and the conducting tissue (arrowheads) between the oviducts and male median reproductive apparatus.

opencc-by-4.0Nov 2002View details →

Fig. 56. Approximate M1 in Morphology And Relationships Of Apternodus And Other Extinct, Zalambdodont, Placental Mammals

Fig. 56. Approximate M1 area (top) and palatal width (bottom) of Apternodus brevirostris specimens from Flagstaff Rim plotted by stratigraphic level, following Emry (1973).

Text-fig. 15. Photo of a red deer (Cervus elaphus) lower molar m2 root cut. The approximate age of individual is 8 years (No 8 in Tabs 6, 7). Photo by M. Nývltová Fišáková. in The Mammalian Fauna Of Barová Cave (Moravian Karst, The Czech Republic)

Text-fig. 15. Photo of a red deer (Cervus elaphus) lower molar m2 root cut. The approximate age of individual is 8 years (No 8 in Tabs 6, 7). Photo by M. Nývltová Fišáková.

Text-fig. 14. Photo of a wolf (Canis lupus) lower molar m1 root cut. The approximate age of individual is 5 years (No 7 in Tabs 6, 7). Photo by M. Nývltová Fišáková. in The Mammalian Fauna Of Barová Cave (Moravian Karst, The Czech Republic)

Text-fig. 14. Photo of a wolf (Canis lupus) lower molar m1 root cut. The approximate age of individual is 5 years (No 7 in Tabs 6, 7). Photo by M. Nývltová Fišáková.

Text-fig. 11. Photo of a cave hyena (C. crocuta spelaea) upper canine root cut. The approximate age of individual is 5 years (No 4 in Tabs 6, 7). Photo by M. Nývltová Fišáková. in The Mammalian Fauna Of Barová Cave (Moravian Karst, The Czech Republic)

Text-fig. 11. Photo of a cave hyena (C. crocuta spelaea) upper canine root cut. The approximate age of individual is 5 years (No 4 in Tabs 6, 7). Photo by M. Nývltová Fišáková.

Text-fig. 13. Photo of an upper canine root cut of a bear from the cave bear group (Ursus ex gr. spelaeus). The approximate age of individual is 14.5 years (No 6 in Tabs 6, 7). Photo by M. Nývltová Fišáková. in The Mammalian Fauna Of Barová Cave (Moravian Karst, The Czech Republic)

Text-fig. 13. Photo of an upper canine root cut of a bear from the cave bear group (Ursus ex gr. spelaeus). The approximate age of individual is 14.5 years (No 6 in Tabs 6, 7). Photo by M. Nývltová Fišáková.

Text-fig. 10. Photo of a cave lion (Panthera spelaea) upper premolar P3 root cut. The approximate age of individual is 3 years (No 2 in Tabs 6, 7). Photo by M. Nývltová Fišáková. in The Mammalian Fauna Of Barová Cave (Moravian Karst, The Czech Republic)

Text-fig. 10. Photo of a cave lion (Panthera spelaea) upper premolar P3 root cut. The approximate age of individual is 3 years (No 2 in Tabs 6, 7). Photo by M. Nývltová Fišáková.

Text-fig. 9. Photo of a cave lion (Panthera spelaea) upper premolar P4 root cut. The approximate age of individual is 11 years (No 1 in Tabs 6, 7). Photo by M. Nývltová Fišáková. in The Mammalian Fauna Of Barová Cave (Moravian Karst, The Czech Republic)

Text-fig. 9. Photo of a cave lion (Panthera spelaea) upper premolar P4 root cut. The approximate age of individual is 11 years (No 1 in Tabs 6, 7). Photo by M. Nývltová Fišáková.

Text-fig. 12. Photo of a cave hyena (C. crocuta spelaea) lower canine root cut. The approximate age of individual is 9 years (No 5 in Tabs 6, 7). Photo by M. Nývltová Fišáková. in The Mammalian Fauna Of Barová Cave (Moravian Karst, The Czech Republic)

Text-fig. 12. Photo of a cave hyena (C. crocuta spelaea) lower canine root cut. The approximate age of individual is 9 years (No 5 in Tabs 6, 7). Photo by M. Nývltová Fišáková.

Text-fig. 6. Photo of cave lion lower premolar p4 root cut. The approximate age of individual is 9.5 years (No 3 in Tabs 6, 7). The thin layers on the edge of root are the dental cement increments; number 1 marks winter increment, number 2 marks summer increment. Photo by M. Nývltová Fišáková. in The Mammalian Fauna Of Barová Cave (Moravian Karst, The Czech Republic)

Text-fig. 6. Photo of cave lion lower premolar p4 root cut. The approximate age of individual is 9.5 years (No 3 in Tabs 6, 7). The thin layers on the edge of root are the dental cement increments; number 1 marks winter increment, number 2 marks summer increment. Photo by M. Nývltová Fišáková.

Text-fig. 6. a. Vertical section showing part of body-chamber of a Cenoceras in the top of the Main Cenoceras Bed associated with attached oysters below and stringers of crinoid debris below and stretching laterally. Coin 23 mm in diameter. b. Complete lateral half of conch showing intact and elastically deformed septa on which rests crinoid debris that spreads across the exposed septa and onto the adjacent substrate. Conch approximately 180 mm in diameter. c. Individual showing dispersed crinoid and molluscan debris within body-chamber and septa in the crushed inner whorls that have taken a sparite cement prior to, and after having undergone brittle deformation. 160 mm in diameter. d. Vertically embedded specimen showing the loss of septa in the inner whorls that are infilled with matrix mottled by bioturbation. Tape measure provides scale. in 'Cenoceras Islands' In The Blue Lias Formation (Lower Jurassic) Of West Somerset, Uk: Nautilid Dominance And Influence On Benthic Faunas

Text-fig. 6. a. Vertical section showing part of body-chamber of a Cenoceras in the top of the Main Cenoceras Bed associated with attached oysters below and stringers of crinoid debris below and stretching laterally. Coin 23 mm in diameter. b. Complete lateral half of conch showing intact and elastically deformed septa on which rests crinoid debris that spreads across the exposed septa and onto the adjacent substrate. Conch approximately 180 mm in diameter. c. Individual showing dispersed crinoid and molluscan debris within body-chamber and septa in the crushed inner whorls that have taken a sparite cement prior to, and after having undergone brittle deformation. 160 mm in diameter. d. Vertically embedded specimen showing the loss of septa in the inner whorls that are infilled with matrix mottled by bioturbation. Tape measure provides scale.

Text-fig. 7. a. Worn section through a horizontally bedded body-chamber and phragmocone, body-chamber showing oyster attached to inside of aperture as well as burrow mottling. Tape measure provides scale. b. Body-chamber and crushed phragmocone with body-chamber and phragmocone entirely filled with bioturbated matrix containing stringers of crinoid and molluscan debris. Flank of phragmocone encrusted by oysters. Tape measure for scale. c. Complex of Thallassinoides and Diplocraterion burrows associated with conch that has been eroded out by wave action. A few 'Ghostly' fragments of ammonite are also present. Original scope of the image approximately 400 mm. c. Verically embedded conch with largely intact septa and camera infilled with burrowed matrix containing crinoid debris. Tape measure for scale. in 'Cenoceras Islands' In The Blue Lias Formation (Lower Jurassic) Of West Somerset, Uk: Nautilid Dominance And Influence On Benthic Faunas

Text-fig. 7. a. Worn section through a horizontally bedded body-chamber and phragmocone, body-chamber showing oyster attached to inside of aperture as well as burrow mottling. Tape measure provides scale. b. Body-chamber and crushed phragmocone with body-chamber and phragmocone entirely filled with bioturbated matrix containing stringers of crinoid and molluscan debris. Flank of phragmocone encrusted by oysters. Tape measure for scale. c. Complex of Thallassinoides and Diplocraterion burrows associated with conch that has been eroded out by wave action. A few 'Ghostly' fragments of ammonite are also present. Original scope of the image approximately 400 mm. c. Verically embedded conch with largely intact septa and camera infilled with burrowed matrix containing crinoid debris. Tape measure for scale.

Text-fig. 8. a. Shell belonging to one flank of the conch a horizontally bedded individual with sveral large oysters attached to its underside indicating that the shell was either originally vertical or was flipped from one surface to the other by turbulance. Approximately 300 mm across. b. Crushed individual showing oysters encrusting both flanks of the conch. 250 mm in diameter. c. Wave-worn conch showing oysters attached to the umbilicus, the venter and possibly the inside of the body-chamber. Tape measure for scale. d. Flank of conch with crinoid debris and oysters spread around its periphery. Scope of image approximately 350 mm. in 'Cenoceras Islands' In The Blue Lias Formation (Lower Jurassic) Of West Somerset, Uk: Nautilid Dominance And Influence On Benthic Faunas

Text-fig. 8. a. Shell belonging to one flank of the conch a horizontally bedded individual with sveral large oysters attached to its underside indicating that the shell was either originally vertical or was flipped from one surface to the other by turbulance. Approximately 300 mm across. b. Crushed individual showing oysters encrusting both flanks of the conch. 250 mm in diameter. c. Wave-worn conch showing oysters attached to the umbilicus, the venter and possibly the inside of the body-chamber. Tape measure for scale. d. Flank of conch with crinoid debris and oysters spread around its periphery. Scope of image approximately 350 mm.

Text-fig. 1. Sketch map of the Devonian of the Prague Basin, and generalised stratigraphy of the Koněprusy Limestone (Pragian), Suchomasty Limestone (Upper Emsian), Acanthopyge Limestone (Eifelian) and the top of the Acanthopyge Limestone and the Srbsko Formation (transition Eifelian-Givetian) in the Koněprusy area (with marked neptunian dykes and approximate positions of Calceola-bearing limestone beds). Modified after Chlupáč et al. (1986), Hladil et al. (1992) and Mergl (2014). in Trilobite Assemblage Of Calceola -Bearing Beds In Acanthopyge Limestone (Choteč Formation, Middle Devonian, Eifelian, Prague Basin, The Czech Republic)

Text-fig. 1. Sketch map of the Devonian of the Prague Basin, and generalised stratigraphy of the Koněprusy Limestone (Pragian), Suchomasty Limestone (Upper Emsian), Acanthopyge Limestone (Eifelian) and the top of the Acanthopyge Limestone and the Srbsko Formation (transition Eifelian-Givetian) in the Koněprusy area (with marked neptunian dykes and approximate positions of Calceola-bearing limestone beds). Modified after Chlupáč et al. (1986), Hladil et al. (1992) and Mergl (2014).

opencc-by-4.0Sep 2021View details →

Dataset for: Using the quasi-chemical model beyond the quadruplet approximation: Density and Viscosity Models for Molten Salt Fuel Systems

Contains data plotted in the figures of the manuscript with the same title (submitted, 2021).

opencc-by-4.0Oct 2021View details →

Farm and regional levels' database used to test the effectiveness of slope and distance from buildings in approximating the pastoral site-use intensity of alpine pastures

The excel file contains the two databases used in the paper “Slope and distance from buildings are easy-to-retrieve proxies for estimating livestock site-use intensity in alpine summer pastures” to test the effectiveness of slope and distance from buildings in approximating the pastoral site-use intensity of alpine pastures. The database in the ‘farm level’ sheet has been used to assess if slope and distance from buildings were good predictors of site-use intensity at farm level, i.e. the number of GPS locations counted within sample units was modelled as a function of the two proxies. Moreover, this database has been used to evaluate if the expected transition of Vegetation Ecological Groups (VEGs) from the shrub-encroached to the nitrophilous ones corresponded to a real site-use intensity gradient as represented by the stocking rates measured through GPS locations, i.e. by modelling the total number of GPS locations within sample units in function VEGs. The database in the ‘Regional level’ sheet has been used to evaluate if the five VEGs were effectively discriminated by distance from buildings and slope. Two models were performed by specifying either slope and distance from buildings as response variables and VEG as fixed factor.

opencc-by-4.0Nov 2022View details →

FEX3-ECG/Charts02: Least Squares Approximation of ECG Signals with Rational Functions

We introduce a new algorithm for "Least Squares Approximation of ECG Signals with Rational Functions". Detailed description here: <a href="https://doi.org/10.5281/zenodo.7628747">https://doi.org/10.5281/zenodo.7628747</a> . The following figures show the results of some of the approximations. The original ECG signals:   DOI:     <a href="https://doi.org/10.13026/C28C71">https://doi.org/10.13026/C28C71</a>   License: Open Data Commons Attribution License v1.0 Notes: - We refer to the database records as follows:  s.... = serial number, p... = patient. For example: s0508_p269. If we want to specify the location more precisely within the record, we also indicate the lead and the time of the QRS. For example: s0508_p269, vy, 6689 (Where "vy" is one of the Frank leads.). - The figures were created with Microsoft Excel (gif, non-animated). In addition to the figures, data files of the results are usually also included. In the text files, we used a decimal point (for GNU Octave) or a decimal comma (for Excel). Any text editor can be used to transform them, replacing all commas with points or vice versa. - In some ppaarraamm.txt files, we have written the location and values of the parameters of each approximation (in Hungarian). The starting point of the time coordinate is now the first point of the ECG signal drawing. For the quadratic parameters of the numerator, the values of the two real roots or the conjugate complex root are placed one after the other. Similarly, the quadratic parameters of the denominator have the values of the conjugate complex root one after the other. The data from example_1a.m in  <a href="https://doi.org/10.5281/zenodo.6479410">https://doi.org/10.5281/zenodo.6479410</a>  is from From_series\s0035_p009\vy\ppaarraamm.txt also found below. Mini Hu==>En dictionary: ha==>if; nincs==>there is none; számláló==>numerator; nevező==>denominator; a pontok száma==>the number of points; nullad- és elsőfokú==>zeroth and first degree; másodfokú==>second degree; hely_bazis==>location base (the origin of the drawings). - Below, the meaning of the two numbers after the wave letter is related to the number of approximation parameters. For example: P35 means: P wave, 3 is the number of parameters of the numerator (including the main coefficient d), while 5 is the number of pole pairs (factors) of the denominator. So the number of approximation parameters is 3 + 2×5=13. The meaning of Ta here: the approximation includes the Ta wave. - Below is the meaning of the 2×6 digit number, for example in filename:       yymmdd hhmmss:  year month day   hour minute second (time stamp). Notes on pole-zero representation: - In the figures, the poles are marked with x and the zeros with o. - In the figures, only one of the two conjugated complex roots was shown, namely always the one falling towards the momentary value of the signal. - The pole of the Ta wave was not marked. - In the older figures, only the poles are visible, the zeros are not indicated. When the poles are drawn in the diagram shared with the signs, their location (coordinate t) is good, but the imaginary part was taken into account in a different way at that time. - Drawing the imaginary values of the roots on the same diagram as the signs on the newer figures, we multiplied them by 50, 100 and 10 for the P, QRS and T waves, respectively. The grids of charts (on the original medical ECG paper: "small squares" = 1mm x 1mm):     X axis: 40ms  (The sampling rate is 1000Hz)     Y axis: 0.1mV (200 A/D units) ===================================================================================== Unid-Alte\ Diagram of two multipliers. Here, the imaginary part of the poles and zeros is multiplied by 0.3. It can be seen that the pole and zero locations do not coincide with the extremum locations on the alternating direction diagram. Histogram\ All 125 periods of the s0177_p050 signal were approximated (vx, vy, vz). The figure is a histogram of one of the parameters of the T wave of vz lead (excluding the 2 extreme values). s0021_p005-vy\ These figures are the steps for approximating a QRS (s0021_p005, vy, 6810). Mini Hu==>En dictionary: kozelito==>approximate; err......==>discrepancy; kend volt==>this had to be approached rajz-r-y-002---1.gif    result of QRS11 rajz-r-y-002---2.gif    result of QRS12 rajz-r-y-002---3.gif    result of QRS13     The approximation of the small wave on the right side of the QRS is still missing. The approximation below the left side of the QRS is not yet good enough. We entered 2 zeros and multiplied the denominator by a complex conjugate root pairs. rajz-r-y-002---4.gif    result of QRS34 rajz-r-y-002---5.gif    result of QRS35  Acceptable.   rajz-r-y-002---6.gif    after a later approximation, we compared the results of the new QRS77 and QRS35. rajz-y-002-221022_201157_1.gif     The final results of this new approximation (indicating the poles and zeros). rajz-y-002-221022_201157_2.gif Mini Hu==>En dictionary: R.hely==>the relative t coordinate calculated from the origin; Eredeti==>raw; Approx==>approximate; Err......==>discrepancy, BL......==>baseline Shapes\ Approximation of some important shape types. Mini Hu==>En dictionary: R.hely==>the relative t coordinate calculated from the origin; Eredet==>raw; Approx==>approximate; Err......==>discrepancy, BL......==>baseline; pólusok==>poles s0025_p005   V3 7009   Dome                 Ta  P32  T34  QRS34 s0047_p015     II  2758   Digitalis                    P22  T33  QRS34    One pair of poles of QRS and T coincide in the drawing (t=32). s0146_p044   V4 3725   Coronaria T        Ta  P22  T22  QRS23 s0508_p269 aVR 5019   Block                  Ta  P12  T12  QRS24 s0542_p283    vz  2581  QRS W-shaped         P__   T22  QRS34    There is no P wave in any of the leads. (Atrial fibrillation) From_series\   Mini Hu==>En dictionary: R.hely==>the relative t coordinate calculated from the origin; Eredet==>raw; Approx==>approximate; Err......==>discrepancy, BL......==>baseline; pólusok==>poles <table> <tbody> <tr> <td>s.... = S/N, p... = patient:</td> <td>       s0001_p119</td> <td>s0002_p196</td> <td>s0034_p163</td> <td>s0035_p009</td> </tr> <tr> <td>               QRS_location:</td> <td>6938              10291</td> <td>9067</td> <td>7580</td> <td>8669</td> </tr> <tr> <td>vx</td> <td>Ta                   Ta</td> <td>Ta</td> <td> </td> <td>Ta</td> </tr> <tr> <td> </td> <td>P12                 P12</td> <td>P12</td> <td>P65</td> <td>P13</td> </tr> <tr> <td> </td> <td>T23                 T34</td> <td>T25</td> <td>T35</td> <td>T34</td> </tr> <tr> <td> </td> <td>QRS24            QRS24</td> <td>QRS15</td> <td>QRS89</td> <td>QRS57</td> </tr> <tr> <td>vy</td> <td>Ta</td> <td> </td> <td>Ta</td> <td>Ta</td> </tr> <tr> <td> </td> <td>P24</td> <td>P55</td> <td>P34</td> <td>P13</td> </tr> <tr> <td> </td> <td>T54</td> <td>T24</td> <td>T26</td> <td>T13</td> </tr> <tr> <td> </td> <td>QRS55</td> <td>QRS25</td> <td>QRS47</td> <td>QRS48</td> </tr> <tr> <td>vz</td> <td> </td> <td> </td> <td>Ta</td> <td>Ta</td> </tr> <tr> <td> </td> <td>P65</td> <td>P43</td> <td>P23</td> <td>P11</td> </tr> <tr> <td> </td> <td>T14</td> <td>T33</td> <td>T24</td> <td>T44</td> </tr> <tr> <td> </td> <td>QRS25</td> <td>QRS25</td> <td>QRS27</td> <td>QRS26</td> </tr> </tbody> </table> The s0001_p119\vy\rajz-y-001-190918_210304_vlc.gif image has been expanded with the length of the vector ("V__idy 1"). The origin of the t axis (vx, vy, vz) is determined from the curve of the vector length. The figures for s0001_p119, vx, 10291 are in the s0001_p119_U\vx directory. This is from the same vx signal as the previous one (6938), just 4 periods later. There is a U wave in it, T34 was needed instead of T23 to approximate it. The image Rajz-001-005a.gif is in the same directory. On this, we enlarged the part between the T and the next P wave at two periods (Data1 6938 and Data5 10291) of the vx signal. The figures of s0002_p196, vx, vy, vz, 9067 show that the approximation on the left side of the QRS should be improved, probably by increasing the degree of the denominator. The figures for s0034_p163, vx, 7580 are in the s0034_p163\vx\ directory. In the figure "rajz-x-003-221031_174534_2.gif" at t=-128, a pole and a zero coincide in the drawing, so we have enlarged this part (around P and QRS) : rajz-x-003-221031_174534_2-zoom.gif. The figures for s0035_p009, vy, 8669 are in the s0035_p009\vy\ directory. In the figure "rajz-y-004-221031_114914_2.gif" at t=-21, a pole and a zero almost coincide in the drawing. As already written above, the data of example_1a.m (Octave, Matlab) on <a href="https://doi.org/10.5281/zenodo.6479410">https://doi.org/10.5281/zenodo.6479410</a> comes from the file ppaarraamm.txt in the same directory.                                                                                              Kobzos, Laszlo                                                                                              Location: HU (Budapest)                                                                                              email:   zehu.kola.ci@gmail.com