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  • Authors: Chitnis, Saurabh S.; Sparkes, Hazel A.; Annibale, Vincent T.; Pridmore, Natalie E.; +2 Authors

    An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures. Related Article: Saurabh S. Chitnis, Hazel A. Sparkes, Vincent T. Annibale, Natalie E. Pridmore, Alex M. Oliver, Ian Manners|2017|Angew.Chem.,Int.Ed.|56|9536|doi:10.1002/anie.201704991

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    Authors: Bernhardt, Boris C.; Fadaie, Fatemeh; Liu, Min; Caldairou, Benoit; +6 Authors

    OBJECTIVE. To assess whether HS severity is mirrored at the level of large-scale networks. METHODS. We studied preoperative high-resolution anatomical and diffusion-weighted MRI of 44 TLE patients with histopathological diagnosis of HS (n=25; TLE-HS) and isolated gliosis (n=19; TLE-G), and 25 healthy controls. Hippocampal measurements included surface-based subfield mapping of atrophy and T2 hyperintensity indexing cell loss and gliosis, respectively. Whole-brain connectomes were generated via diffusion tractography and examined using graph theory along with a novel network control theory paradigm which simulates functional dynamics from structural network data. RESULTS. Compared to controls, we observed markedly increased path length and decreased clustering in TLE-HS compared to controls, indicating lower global and local network efficiency, while TLE-G showed only subtle alterations. Similarly, network controllability was lower in TLE-HS only, suggesting limited range of functional dynamics. Hippocampal imaging markers were positively associated with macroscale network alterations, particularly in ipsilateral CA1-3. Systematic assessment across several networks revealed maximal changes in the hippocampal circuity. Findings were consistent when correcting for cortical thickness, suggesting independence from grey matter atrophy. CONCLUSIONS. Severe HS is associated with marked remodeling of connectome topology and structurally-governed functional dynamics in TLE, as opposed to isolated gliosis which has negligible effects. Cell loss, particularly in CA1-3, may exert a cascading effect on brain-wide connectomes, underlining coupled disease processes across multiple scales. Data_phen_conn_dryadPhenotypic information and mean connectome feature data for Bernhardt et al. (2019) Temporal lobe epilepsy: hippocampal pathology modulates white matter connectome topology and controllability. Neurology

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    Dataset . 2019
    Data sources: B2FIND
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    Dataset . 2019
    License: CC 0
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      Dataset . 2019
      Data sources: B2FIND
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      DRYAD; ZENODO; NARCIS
      Dataset . 2019
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  • Authors: Schatte, G.; Labiuk, S.; Li, B.; Burnett, P.-G.; +5 Authors

    An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures. Related Article: G.Schatte, S.Labiuk, B.Li, P.-G.Burnett, M.Reaney, P.Grochulski, M.Fodje, J.Yang, R.Sammynaiken|2012|Acta Crystallogr.,Sect.E:Struct.Rep.Online|68|o50|doi:10.1107/S1600536811051488

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  • Authors: Choudhary, Neha; Scheiber, Hayden; Zhang, Jiale; Patrick, Brian O.; +2 Authors

    Related Article: Neha Choudhary, Hayden Scheiber, Jiale Zhang, Brian O. Patrick, María de Guadalupe Jaraquemada-Peláez, Chris Orvig|2021|Inorg.Chem.|60|12855|doi:10.1021/acs.inorgchem.1c01175

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    Authors: Carrasco, Andres; Brown, Trecia A.; Lomber, Stephen G.;

    Assemblies of vertically connected neurons in the cerebral cortex form information processing units (columns) that participate in the distribution and segregation of sensory signals. Despite well-accepted models of columnar architecture, functional mechanisms of inter-laminar communication remain poorly understood. Hence, the purpose of the present investigation was to examine the effects of sensory information features on columnar response properties. Using acute recording techniques, extracellular response activity was collected from the right hemisphere of eight mature cats (felis catus). Recordings were conducted with multichannel electrodes that permitted the simultaneous acquisition of neuronal activity within primary auditory cortex columns. Neuronal responses to simple (pure tones), complex (noise burst and frequency modulated sweeps), and ecologically relevant (con-specific vocalizations) acoustic signals were measured. Collectively, the present investigation demonstrates that despite consistencies in neuronal tuning (characteristic frequency), irregularities in discharge activity between neurons of individual A1 columns increase as a function of spectral (signal complexity) and temporal (duration) acoustic variations. Multi-unit responses to acoustic signals within A1 columnsThe data set consists of eight multi-unit electrophysiology experiments located within a single .zip file. Acoustic feature (signal type and duration) are in subfolders where data rasters for each recording session conducted can be found. Columns represent time and rows trial number. Data is presented as Matlab files.DRYAD.zip

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    Dataset . 2014
    Data sources: B2FIND
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      Dataset . 2014
      Data sources: B2FIND
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  • Authors: Garai, Sumanta; Leo, Luciana M.; Szczesniak, Anna-Maria; Hurst, Dow P.; +14 Authors

    Related Article: Sumanta Garai, Luciana M. Leo, Anna-Maria Szczesniak, Dow P. Hurst, Peter C. Schaffer, Ayat Zagzoog, Tallan Black, Jeffrey R. Deschamps, Elke Miess, Stefan Schulz, David R. Janero, Alex Straiker, Roger G. Pertwee, Mary E. Abood, Melanie E. M. Kelly, Patricia H. Reggio, Robert B. Laprairie, Ganesh A. Thakur|2021|J.Med.Chem.|64|8104|doi:10.1021/acs.jmedchem.1c00040

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  • Authors: Choudhary, Neha; Jaraquemada-Peláez, Marı́a de Guadalupe; Zarschler, Kristof; Wang, Xiaozhu; +4 Authors

    Related Article: Neha Choudhary, Marı́a de Guadalupe Jaraquemada-Peláez, Kristof Zarschler, Xiaozhu Wang, Valery Radchenko, Manja Kubeil, Holger Stephan, Chris Orvig|2020|Inorg.Chem.|59|5728|doi:10.1021/acs.inorgchem.0c00509

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    Authors: Rashid, Asim J.; Yan, Chen; Mercaldo, Valentina; Hsiang, Hwa-Lin; +9 Authors

    Collections of cells called engrams are thought to represent memories. Although there has been progress in identifying and manipulating single engrams, little is known about how multiple engrams interact to influence memory. In lateral amygdala (LA), neurons with increased excitability during training outcompete their neighbors for allocation to an engram. We examined whether competition based on neuronal excitability also governs the interaction between engrams. Mice received two distinct fear conditioning events separated by different intervals. LA neuron excitability was optogenetically manipulated and revealed a transient competitive process that integrates memories for events occurring closely in time (coallocating overlapping populations of neurons to both engrams) and separates memories for events occurring at distal times (disallocating nonoverlapping populations to each engram). Rashid et al Science 2016- Data for Figs 1-4, S1-S9Excel file with all data presented in manuscript (each sheet corresponds to specific figures as indicated).Rashid et al Science 2016.xlsx

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    Dataset . 2016
    Data sources: B2FIND
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      Dataset . 2016
      Data sources: B2FIND
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    Authors: Williams, Rebecca J.; Tse, Tony; DiPiazza, Katelyn; Zarin, Deborah A.;

    Background: Clinical trials that end prematurely (or “terminate”) raise financial, ethical, and scientific concerns. The extent to which the results of such trials are disseminated and the reasons for termination have not been well characterized. Methods and Findings: A cross-sectional, descriptive study of terminated clinical trials posted on the ClinicalTrials.gov results database as of February 2013 was conducted. The main outcomes were to characterize the availability of primary outcome data on ClinicalTrials.gov and in the published literature and to identify the reasons for trial termination. Approximately 12% of trials with results posted on the ClinicalTrials.gov results database (905/7,646) were terminated. Most trials were terminated for reasons other than accumulated data from the trial (68%; 619/905), with an insufficient rate of accrual being the lead reason for termination among these trials (57%; 350/619). Of the remaining trials, 21% (193/905) were terminated based on data from the trial (findings of efficacy or toxicity) and 10% (93/905) did not specify a reason. Overall, data for a primary outcome measure were available on ClinicalTrials.gov and in the published literature for 72% (648/905) and 22% (198/905) of trials, respectively. Primary outcome data were reported on the ClinicalTrials.gov results database and in the published literature more frequently (91% and 46%, respectively) when the decision to terminate was based on data from the trial. Conclusions: Trials terminate for a variety of reasons, not all of which reflect failures in the process or an inability to achieve the intended goals. Primary outcome data were reported most often when termination was based on data from the trial. Further research is needed to identify best practices for disseminating the experience and data resulting from terminated trials in order to help ensure maximal societal benefit from the investments of trial participants and others involved with the study. DATA_Terminated Trials in ClinicalTrialsgov Results Database (19 Feb 2013)CSV data file containing data retrieved from the ClinicalTrials.gov registry and results database on February 19, 2013. Additional details are available in the ReadMe file.

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    Dataset . 2015
    Data sources: B2FIND
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    DRYAD; ZENODO; NARCIS
    Dataset . 2015
    License: CC 0
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      Dataset . 2015
      Data sources: B2FIND
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      DRYAD; ZENODO; NARCIS
      Dataset . 2015
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  • Authors: Matinkhoo, Kaveh; Pryyma, Alla; Todorovic, Mihajlo; Patrick, Brian O.; +1 Authors

    An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures. Related Article: Kaveh Matinkhoo, Alla Pryyma, Mihajlo Todorovic, Brian O. Patrick, David M. Perrin|2018|J.Am.Chem.Soc.|140|6513|doi:10.1021/jacs.7b12698

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347 Research products
  • Authors: Chitnis, Saurabh S.; Sparkes, Hazel A.; Annibale, Vincent T.; Pridmore, Natalie E.; +2 Authors

    An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures. Related Article: Saurabh S. Chitnis, Hazel A. Sparkes, Vincent T. Annibale, Natalie E. Pridmore, Alex M. Oliver, Ian Manners|2017|Angew.Chem.,Int.Ed.|56|9536|doi:10.1002/anie.201704991

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    Authors: Bernhardt, Boris C.; Fadaie, Fatemeh; Liu, Min; Caldairou, Benoit; +6 Authors

    OBJECTIVE. To assess whether HS severity is mirrored at the level of large-scale networks. METHODS. We studied preoperative high-resolution anatomical and diffusion-weighted MRI of 44 TLE patients with histopathological diagnosis of HS (n=25; TLE-HS) and isolated gliosis (n=19; TLE-G), and 25 healthy controls. Hippocampal measurements included surface-based subfield mapping of atrophy and T2 hyperintensity indexing cell loss and gliosis, respectively. Whole-brain connectomes were generated via diffusion tractography and examined using graph theory along with a novel network control theory paradigm which simulates functional dynamics from structural network data. RESULTS. Compared to controls, we observed markedly increased path length and decreased clustering in TLE-HS compared to controls, indicating lower global and local network efficiency, while TLE-G showed only subtle alterations. Similarly, network controllability was lower in TLE-HS only, suggesting limited range of functional dynamics. Hippocampal imaging markers were positively associated with macroscale network alterations, particularly in ipsilateral CA1-3. Systematic assessment across several networks revealed maximal changes in the hippocampal circuity. Findings were consistent when correcting for cortical thickness, suggesting independence from grey matter atrophy. CONCLUSIONS. Severe HS is associated with marked remodeling of connectome topology and structurally-governed functional dynamics in TLE, as opposed to isolated gliosis which has negligible effects. Cell loss, particularly in CA1-3, may exert a cascading effect on brain-wide connectomes, underlining coupled disease processes across multiple scales. Data_phen_conn_dryadPhenotypic information and mean connectome feature data for Bernhardt et al. (2019) Temporal lobe epilepsy: hippocampal pathology modulates white matter connectome topology and controllability. Neurology

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    Dataset . 2019
    Data sources: B2FIND
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    DRYAD; ZENODO; NARCIS
    Dataset . 2019
    License: CC 0
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      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ DANS-EASYarrow_drop_down
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      DANS-EASY
      Dataset . 2019
      Data sources: B2FIND
      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
      DRYAD; ZENODO; NARCIS
      Dataset . 2019
      License: CC 0
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  • Authors: Schatte, G.; Labiuk, S.; Li, B.; Burnett, P.-G.; +5 Authors

    An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures. Related Article: G.Schatte, S.Labiuk, B.Li, P.-G.Burnett, M.Reaney, P.Grochulski, M.Fodje, J.Yang, R.Sammynaiken|2012|Acta Crystallogr.,Sect.E:Struct.Rep.Online|68|o50|doi:10.1107/S1600536811051488

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  • Authors: Choudhary, Neha; Scheiber, Hayden; Zhang, Jiale; Patrick, Brian O.; +2 Authors

    Related Article: Neha Choudhary, Hayden Scheiber, Jiale Zhang, Brian O. Patrick, María de Guadalupe Jaraquemada-Peláez, Chris Orvig|2021|Inorg.Chem.|60|12855|doi:10.1021/acs.inorgchem.1c01175

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    Authors: Carrasco, Andres; Brown, Trecia A.; Lomber, Stephen G.;

    Assemblies of vertically connected neurons in the cerebral cortex form information processing units (columns) that participate in the distribution and segregation of sensory signals. Despite well-accepted models of columnar architecture, functional mechanisms of inter-laminar communication remain poorly understood. Hence, the purpose of the present investigation was to examine the effects of sensory information features on columnar response properties. Using acute recording techniques, extracellular response activity was collected from the right hemisphere of eight mature cats (felis catus). Recordings were conducted with multichannel electrodes that permitted the simultaneous acquisition of neuronal activity within primary auditory cortex columns. Neuronal responses to simple (pure tones), complex (noise burst and frequency modulated sweeps), and ecologically relevant (con-specific vocalizations) acoustic signals were measured. Collectively, the present investigation demonstrates that despite consistencies in neuronal tuning (characteristic frequency), irregularities in discharge activity between neurons of individual A1 columns increase as a function of spectral (signal complexity) and temporal (duration) acoustic variations. Multi-unit responses to acoustic signals within A1 columnsThe data set consists of eight multi-unit electrophysiology experiments located within a single .zip file. Acoustic feature (signal type and duration) are in subfolders where data rasters for each recording session conducted can be found. Columns represent time and rows trial number. Data is presented as Matlab files.DRYAD.zip

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    DANS-EASY
    Dataset . 2014
    Data sources: B2FIND
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