cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25493/gdt6-bmk
title: Individual Brain Charting: HCP Language task

description: This dataset contains functional magnetic resonance images (fMRIs) of 12 subjects performing HCP Language task that was used as a localizer of brain regions involved in semantic processing. It was adapted from a study dedicated to exploring the particular role of the anterior temporal lobe (ATL) on semantic integration. The paradigm comprised two categories of blocks: (1) story blocks and (2) math blocks. Math blocks served as a control condition in this context, since it is likely to involve both auditory processing and attentional demands. Both type of blocks exhibited auditory stimuli in short epochs, which in turn finished with a final question followed by two possible answers. During story blocks, in which participants were presented with Aesop’s fables, the final question targeted the topic of the story. Conversely, math blocks showed arithmetic problems for which the correct solution must be selected. The response was provided after the two possible options were displayed, through pressing the corresponding button of the response box. The difficulty levels of the problems, presented for both categories, were adjusted throughout the experiment, in order to keep the participants engaged in the task and, thus, ensure accurate performances. The task was composed by eleven blocks per run. For the first run, six story blocks and five math blocks were interleaved, respectively. The reverse amount and order of blocks were used during the second run. The number of trials per block varied between one and four. Nevertheless, it was assured that both block categories matched their length of presentation at every run. There was a cue during two seconds at the beginning of each block, indicating its category. The duration of the trials within a block varied from ten to thirty seconds. Finally, the presentation of the auditory stimuli was always accompanied by the display of a fixation cross on the screen throughout the entire run. [https://openfmri.org/dataset/ds000244/](https://openfmri.org/dataset/ds000244/) [https://neurovault.org/collections/2138/](https://neurovault.org/collections/2138/)
DOI: 10.25493/xx28-vj1
title: Individual Brain Charting (IBC, release 2)

description: We present an extension of the Individual Brain Charting dataset – a high spatial-resolution, multi-task, functional Magnetic Resonance Imaging dataset, intended to support the investigation on the functional principles governing cognition in the human brain. The concomitant data acquisition from the same 12 participants, in the same environment, allows to obtain in the long run finer cognitive topographies, free from inter-subject and inter-site variability. This second release provides more data from psychological domains present in the first release, and also yields data featuring new ones. It includes tasks on e.g. mental-time travel, reward, theory-of-mind, pain, numerosity, self-reference effect and speech recognition. In total, 13 tasks with 86 contrasts were added to the dataset and 63 new components were included in the cognitive description of the ensuing contrasts. As the dataset becomes larger, the collection of corresponding topographies becomes more comprehensive, leading to better brain-atlasing frameworks. This dataset is an open-access facility; raw data and derivatives are also publicly available in NeuroVault repositories. NeuroVault persistent identifier: [https://identifiers.org/neurovault.collection:6618]( https://neurovault.org/collections/6618/)
DOI: 10.25493/bha1-q95
title: Human Intracranial EEG Database (HID) [cohort III]

description: The Human Intracranial Database (HID) is a collection of stereotactic electroencephalography (sEEG) data in epileptic patients, performing eight behavioral tasks. The behavioral tasks were used as functional localizers: short and classic task paradigms designed to activate large-scale neural networks involved in language processing (LEC1 and LEC2), verbal and visuo-spatial working memory (MVEB and MVIS), visual attention (VISU), motor behavior (MOTO), high-level visual (MCSE) and auditory perception (AUDI). Furthermore, patients were also recorded during resting state (REST) and a series of tests designed to evaluate wheather specific types of actions can generate artefacts (ARFA). The sEEG data were obtained via several sEEG depth-electrodes (linear arrays with up to 20 contacts) that were implanted in each patient in a stereotactic surgery. Coordinates of the sEEG electrode contacts are provided in the individual brain space of each patient as well as in a reference brain space (MNI icbm 152). Semantically sEEG electrode contacts were linked to brain areas of the MarsAtlas, but can be positioned on the individual anatomy for checking purposes.
DOI: 10.25493/zxmk-ah0
title: Individual Brain Charting: HCP Emotion

description: This dataset contains functional magnetic resonance images (fMRIs) of 12 subjects performing HCP Emotional task aiming to capture neural activity related to the perception of fear and anger. Affective facial expressions were used as visual stimuli due to their importance in adaptive social behavior. The paradigm included two categories of blocks, namely face and shape blocks. All blocks consisted of a series of events, in which images of faces or shapes were displayed, respectively. There were always three faces/shapes per image; one face/shape was shown at the top and two faces/shapes were shown at the bottom. The participants were then asked to decide which face/shape at the bottom, i.e. left or right face/shape, matched the one displayed at the top, by pressing the corresponding button of the response box. The task was formed by twelve blocks per run, i.e. six face blocks and six shape blocks. The two block categories were alternately presented for each run. All blocks contained six trials and they were always initiated by a cue of three seconds. In turn, the trials included a visual-stimulus period of two seconds and a fixation-cross period of one second; the total duration of the trial was thus three seconds. [https://openfmri.org/dataset/ds000244/](https://openfmri.org/dataset/ds000244/) [https://neurovault.org/collections/2138/](https://neurovault.org/collections/2138/)
DOI: 10.25493/3jxw-afs
title: Individual Brain Charting: HCP Social task

description: This dataset contains functional magnetic resonance images (fMRIs) of 12 subjects performing HCP Social task that intended to provide evidence for brain activity related to social cognition. The paradigm included two categories of blocks, in which movies were presented during short epochs. The movies consisted in triangle-shape clip art, moving in a predetermined fashion. Putative social interactions could be inferred from movements in the so-called social condition. In contrast, objects appeared to be randomly moving in the random condition. The task was constituted by ten blocks per run, five for each category, whose order was pseudo-randomized for every run, but fixed for all participants. There was only one trial per block. It consisted of a twenty-second period of video-clip presentation plus three seconds maximum of a response period, indicated by a momentary instruction on the screen. Thus, the total duration of a block was approximately twenty three seconds. A fixation-cross period of fifteen seconds was always displayed between blocks. [https://openfmri.org/dataset/ds000244/](https://openfmri.org/dataset/ds000244/) [https://neurovault.org/collections/2138/](https://neurovault.org/collections/2138/)
DOI: 10.25493/yw4p-3u
title: Individual Brain Charting: ARCHI standard

description: This dataset contains functional magnetic resonance images (fMRIs) of 12 subjects performing a variety of elementary cognitive functions, ranging from perceptual processing to high-cognition. The task was organized as a fast event-related paradigm, composed of trials of ten different conditions: (1) left-hand three-times button press, indicated by visual instruction; (2) right-hand three-times button press, indicated by visual instruction; (3) left-hand three-times button press, indicated by auditory instruction; (4) right-hand three-times button press, indicated by auditory instruction; (5) listen to narrative sentences; (6) read narrative sentences; (7) viewing of flashing horizontal checkerboards; (8) viewing of flashing vertical checkerboards; (9) silent subtraction, indicated by visual instruction; and (10) silent subtraction, indicated by auditory instruction. The task comprised eighty trials in one single run. There were two runs within the same session, in which two different sequences of trials were presented. The sequence of trials per run was pseudo-randomized for the session, but fixed for all participants. The duration of the trials ranged between two and four seconds. There were twenty two epochs of rest between trials, in which a fixation cross was displayed. [https://openfmri.org/dataset/ds000244/](https://openfmri.org/dataset/ds000244/) [https://neurovault.org/collections/2138/](https://neurovault.org/collections/2138/)
DOI: 10.6084/m9.figshare.17081990
title: Taxonomic and functional diversity of the microbiome in a jet fuel contaminated site as revealed by combined application of in situ microcosms with metagenomic analysis

description: Natural attenuation represents all processes that govern contaminant mass removal, which mainly occurs via microbial degradation in the environment. Although this process is intrinsic its rate and efficiency depend on multiple factors. This study aimed to characterize the microbial taxonomic and functional diversity in different aquifer sediments collected in the saturated zone and <em>in situ</em> microcosms (BACTRAP®s) amended with hydrocarbons (<sup>13</sup>C-labeled and non-labeled benzene, toluene and naphthalene) using 16S rRNA gene and “<em>shotgun</em>” Illumina high throughput sequencing at a jet-fuel contaminated site. The BACTRAP®s were installed to assess hydrocarbon metabolism by native bacteria. Results indicated that Proteobacteria, Actinobacteria and Firmicutes were the most dominant phyla (~98%) in the aquifer sediment samples. Meanwhile, in the benzene- and toluene-amended BACTRAP®s the phyla Firmicutes and Proteobacteria accounted for about 90% of total community. In the naphthalene-amended BACTRAP®, members of the SR-FBR-L83 family (Order Ignavibacteriales) accounted for almost 80% of bacterial community. Functional annotation of metagenomes showed that only the sediment sample located at the source zone border and with the lowest BTEX concentration, has metabolic potential to degrade hydrocarbons aerobically. On the other hand, <em>in situ</em> BACTRAP®s allowed enrichment of hydrocarbon-degrading bacteria. Metagenomic data suggest that fumarate addition is the main mechanism for hydrocarbon activation of toluene. Also, indications for methylation, hydroxylation and carboxylation as activation mechanisms for benzene anaerobic conversion were found. After 120 days of exposure in the contaminated groundwater, the isotopic analysis of fatty acids extracted from BACTRAP®s demonstrated the assimilation of isotopic labeled compounds in the cells of microbes expressed by strong isotopic enrichment. We propose that the microbiota in this jet-fuel contaminated site has metabolic potential to degrade benzene and toluene by a syntrophic process, between members of the families Geobacteraceae and Peptococcaceae (genus <em>Pelotomaculum</em>), coupled to nitrate, iron and/or sulfate reduction.
DOI: 10.6084/m9.figshare.17081990.v1
title: Taxonomic and functional diversity of the microbiome in a jet fuel contaminated site as revealed by combined application of in situ microcosms with metagenomic analysis

description: Natural attenuation represents all processes that govern contaminant mass removal, which mainly occurs via microbial degradation in the environment. Although this process is intrinsic its rate and efficiency depend on multiple factors. This study aimed to characterize the microbial taxonomic and functional diversity in different aquifer sediments collected in the saturated zone and <em>in situ</em> microcosms (BACTRAP®s) amended with hydrocarbons (<sup>13</sup>C-labeled and non-labeled benzene, toluene and naphthalene) using 16S rRNA gene and “<em>shotgun</em>” Illumina high throughput sequencing at a jet-fuel contaminated site. The BACTRAP®s were installed to assess hydrocarbon metabolism by native bacteria. Results indicated that Proteobacteria, Actinobacteria and Firmicutes were the most dominant phyla (~98%) in the aquifer sediment samples. Meanwhile, in the benzene- and toluene-amended BACTRAP®s the phyla Firmicutes and Proteobacteria accounted for about 90% of total community. In the naphthalene-amended BACTRAP®, members of the SR-FBR-L83 family (Order Ignavibacteriales) accounted for almost 80% of bacterial community. Functional annotation of metagenomes showed that only the sediment sample located at the source zone border and with the lowest BTEX concentration, has metabolic potential to degrade hydrocarbons aerobically. On the other hand, <em>in situ</em> BACTRAP®s allowed enrichment of hydrocarbon-degrading bacteria. Metagenomic data suggest that fumarate addition is the main mechanism for hydrocarbon activation of toluene. Also, indications for methylation, hydroxylation and carboxylation as activation mechanisms for benzene anaerobic conversion were found. After 120 days of exposure in the contaminated groundwater, the isotopic analysis of fatty acids extracted from BACTRAP®s demonstrated the assimilation of isotopic labeled compounds in the cells of microbes expressed by strong isotopic enrichment. We propose that the microbiota in this jet-fuel contaminated site has metabolic potential to degrade benzene and toluene by a syntrophic process, between members of the families Geobacteraceae and Peptococcaceae (genus <em>Pelotomaculum</em>), coupled to nitrate, iron and/or sulfate reduction.
DOI: 10.25493/pr7b-hnd
title: Individual Brain Charting: HCP Motor task

description: This dataset contains functional magnetic resonance images (fMRIs) of 12 subjects performing HCP Motor task that was designed with the intent of extracting maps on gross motor topography, in particular responses associated with movements of the foot, hand and tongue. There were thus five categories of motor tasks blocks involving the left foot, the right foot, the left hand, the right hand, and the tongue, respectively. The blocks always started with visual cues referring to which part of the body should be moved. The cues were then followed by a set of events that were indicated by flashing arrows on the screen. The subjects had to move in synchrony with the flashes. The task was formed by five blocks per category, with a total of twenty blocks per run. The order of the block categories was pseudo-randomized during each run, but fixed for all participants. A fixation-dot period of fifteen seconds was inserted between some blocks. All blocks contained ten trials. Every trial included a cue of one second and a period of performance of twelve seconds. [https://openfmri.org/dataset/ds000244/](https://openfmri.org/dataset/ds000244/) [https://neurovault.org/collections/2138/](https://neurovault.org/collections/2138/)
DOI: 10.25493/9bgg-8qu
title: Comparative analyses of Natural Sound-Encoding in Human and Monkey Auditory Cortex

description: Goal: Cross-species comparison of natural sound processing in Human and Monkey Auditory Cortex (Erb et al., 2019). Experimental design: In order to encode auditory cortical representations of multiple acoustic features in awake macaques and humans, subjects listened to 168 natural sounds (human speech and vocal sounds, animal cries, tool and environmental sounds) in a 3T (macaques) or 7T (humans) fMRI scanner. Design, stimuli and computational modeling approach were identical to the ones presented to human subjects in previous experiments (Moerel et al. 2012, 2013; Santoro et al. 2017). Results: Comparative analyses revealed homologous large-scale topographies for frequency, temporal and spectral modulations. In contrast, model-based decoding of temporal modulations was most accurate for high rates (&gt;30 Hz) in macaques, but at slower rates (~3 Hz) for humans. These slower temporal modulations are relevant for the analysis of speech sounds and may have played a role in the evolution of speech and language.
DOI: 10.25493/xyby-xyg
title: Recordings of spiking activity and local field potentials from Human Visual Cortex V3

description: The first quantitative description of spiking actvity from area V3 of human visual cortex. We recorded electrophyisological data from two micro-wires implanted chrnoically in area V3 of an epileptic patient. The data has been filtered into spiking actvity and local field potential. Data from several different visual tasks are presented. The data show very clear receptive-fields, in both spiking and gamma frequencies. The tuning curves (orientation, contrast, spatial frequency, size) resemble those from macaque monkeys. Also the effects of context and attention were studied using a figure-ground sergegation task and a curve-tracing task respectively.
DOI: 10.6084/m9.figshare.14184587
title: The optimized atomic positions of the reaction intermediates and transition states

description: The optimized atomic positions of the reaction intermediates and transition states.
DOI: 10.6084/m9.figshare.14184587.v1
title: The optimized atomic positions of the reaction intermediates and transition states

description: The optimized atomic positions of the reaction intermediates and transition states.
DOI: 10.25493/73gh-ket
title: Individual Brain Charting: ARCHI emotional

description: This dataset contains functional magnetic resonance images (fMRIs) of 12 subjects that investigates cognitive-emotional processes on perception of faces and expressions. The paradigm was arranged in blocks that comprised sets of trials. Two categories of conditions can be highlighted from the paradigm: (1) the face-task category and (2) the eye-task category. Both categories involved self-reply according to the stimulus presented at every condition. The face-task category consisted in the presentation of human faces, whereas the eye-task category was dedicated to images representing human eyes. For the face-task category, two conditions corresponded to evaluation of gender and trustworthiness of the human faces. In the eye-task category, the two homologous conditions referred to gender and emotion-expression evaluation. The task concerning emotion expression in the latter category was in accordance with a cue given immediately before the image display. Besides, there was also a baseline condition, common to both categories, showing a grayscale grid image that may be tilted or not. To achieve the intended goal of this condition, a mental assessment about the orientation of the image had to be performed. The task consisted of twelve blocks per run, and every block comprised between two and four trials. The order of trials presentation was pseudorandomized for the session, but fixed for all participants. The trials lasted about 6.3 seconds. A fixation-cross period of approximately one second was presented between blocks. [https://openfmri.org/dataset/ds000244/](https://openfmri.org/dataset/ds000244/) [https://neurovault.org/collections/2138/](https://neurovault.org/collections/2138/)
DOI: 10.5281/zenodo.5727643
title: Perceptual learning with mood manipulations -- Children and adults

description: A .csv including trial-by-trial data from a texture detection visual perceptual learning experiment (see, e.g., Ahissar & Hochstein, 2001). Each trial [row] includes whether the participant responded correctly ('acc'), the stimulus onset asynchrony ('SOA'), the trial number ('trialNum'), the age group ('ageC'; children coded -.5 and adults coded .5), the coding of manipulation condition by arousal ('arousal'; control coded -.5 and non-control coded .5), the deidentified subject ID ('subID'), and the name of the manipulation condition ('valence'; options are "Control", "Stress", or "Positive").
DOI: 10.5281/zenodo.5727642
title: Perceptual learning with mood manipulations -- Children and adults

description: A .csv including trial-by-trial data from a texture detection visual perceptual learning experiment (see, e.g., Ahissar & Hochstein, 2001). Each trial [row] includes whether the participant responded correctly ('acc'), the stimulus onset asynchrony ('SOA'), the trial number ('trialNum'), the age group ('ageC'; children coded -.5 and adults coded .5), the coding of manipulation condition by arousal ('arousal'; control coded -.5 and non-control coded .5), the deidentified subject ID ('subID'), and the name of the manipulation condition ('valence'; options are "Control", "Stress", or "Positive").
DOI: 10.25493/wqag-zdz
title: Individual Brain Charting: HCP Relational task

description: This dataset contains functional magnetic resonance images (fMRIs) of 12 subjects performing HCP Relational task that employed a relational match-to-sample paradigm, featuring a second-order comparison of relations between two pairs of objects. It served primarily as a localizer of the rostrolateral prefrontal cortex, since relational matching mechanisms have been shown to yield activity in this region. Similar to some previous tasks, the paradigm included two categories of blocks, namely relational-processing and control-matching blocks. All blocks were constituted by a set of events. In the relational-processing block, visual stimuli consisted of images representing two pairs of objects, in which one pair was placed at the top and the other one at the bottom of the image, respectively. Objects within a pair may differ in two features: shape and texture. The participants had to identify whether the pair of objects from the top differed in a specific feature and, subsequently, they were asked to determine whether the pair from the bottom changed along the same feature. For the control block, one pair of objects was displayed at the top of the image and a single object at the bottom of the same image. In addition, a cue was shown in the middle of that image, indicating which feature is relevant. The participants had thus to indicate whether the object from the bottom was matching either of the two objects from the top, according to the feature specified as a cue. This task included twelve blocks per run, with six blocks per category. Block categories were, in turn, interleaved for display within a run. A fixation-cross period of sixteen seconds was inserted between some blocks. All blocks contained six trials and they were always initiated by a cue of two seconds. The trials were described by a visual-stimulus plus response period followed by a fixation-cross period, lasting up to ten seconds. The duration of the former was nine seconds and 7.6 seconds during the relational-processing block and controlmatching block, respectively. [https://openfmri.org/dataset/ds000244/](https://openfmri.org/dataset/ds000244/) [https://neurovault.org/collections/2138/](https://neurovault.org/collections/2138/)