DS005523#

Spatial Memory of Object Locations with Open-Loop Stimulation at Encoding

Access recordings and metadata through EEGDash.

Citation: Haydn G. Herrema, Michael J. Kahana (2024). Spatial Memory of Object Locations with Open-Loop Stimulation at Encoding. 10.18112/openneuro.ds005523.v1.0.1

Modality: ieeg Subjects: 22 Recordings: 728 License: CC0 Source: openneuro Citations: 0.0

Metadata: Complete (100%)

Quickstart#

Get Started

Install

pip install eegdash

Access the data

from eegdash.dataset import DS005523

dataset = DS005523(cache_dir="./data")
# Get the raw object of the first recording
raw = dataset.datasets[0].raw
print(raw.info)

Query & Filter

Filter by subject

dataset = DS005523(cache_dir="./data", subject="01")

Advanced query

dataset = DS005523(
    cache_dir="./data",
    query={"subject": {"$in": ["01", "02"]}},
)

Iterate recordings

for rec in dataset:
    print(rec.subject, rec.raw.info['sfreq'])

Cite This Dataset

If you use this dataset in your research, please cite the original authors.

BibTeX

@dataset{ds005523,
  title = {Spatial Memory of Object Locations with Open-Loop Stimulation at Encoding},
  author = {Haydn G. Herrema and Michael J. Kahana},
  doi = {10.18112/openneuro.ds005523.v1.0.1},
  url = {https://doi.org/10.18112/openneuro.ds005523.v1.0.1},
}

About This Dataset#

Spatial Navigation Memory of Object Locations with Open-Loop Stimulation at Encoding

Description

This dataset contains behavioral events and intracranial electrophysiological recordings from a spatial navigation memory task with open-loop stimulation at encoding. The experiment consists of participants encoding object locations during a guided navigation learning phase and then recalling the object locations during a self-navigation test phase. The data was collected at clinical sites across the country as part of a collaboration with the Computational Memory Lab at the University of Pennsylvania. This dataset is an open-loop stimulation version of the YC1_ dataset.

Each session contains 50 trials (2 practice and 48 experimental), and each overall “trial” contains 2 learning trials followed by 1 test trial with the same object at the same location. For learning trial 1, participants are placed at a random location at a given radius from the object. They are smoothly turned to face the object (1 s), automatically driven to the object location (3 s), and then paused at the object (1 s). 5 seconds later, participants are placed at a new random location and the process repeats for learning trial 2. On test trials, participants are placed at a random location and orientation, with the object invisible. They navigate to where they believe the object was located and press a button to record their response. The environment for all sessions and trials is 64.8 x 36, with coordinates: x = (-32.4, 32.4), y = (-18.0, 18.0).

View full README

Spatial Navigation Memory of Object Locations with Open-Loop Stimulation at Encoding

Description

This dataset contains behavioral events and intracranial electrophysiological recordings from a spatial navigation memory task with open-loop stimulation at encoding. The experiment consists of participants encoding object locations during a guided navigation learning phase and then recalling the object locations during a self-navigation test phase. The data was collected at clinical sites across the country as part of a collaboration with the Computational Memory Lab at the University of Pennsylvania. This dataset is an open-loop stimulation version of the YC1_ dataset.

Each session contains 50 trials (2 practice and 48 experimental), and each overall “trial” contains 2 learning trials followed by 1 test trial with the same object at the same location. For learning trial 1, participants are placed at a random location at a given radius from the object. They are smoothly turned to face the object (1 s), automatically driven to the object location (3 s), and then paused at the object (1 s). 5 seconds later, participants are placed at a new random location and the process repeats for learning trial 2. On test trials, participants are placed at a random location and orientation, with the object invisible. They navigate to where they believe the object was located and press a button to record their response. The environment for all sessions and trials is 64.8 x 36, with coordinates: x = (-32.4, 32.4), y = (-18.0, 18.0).

This study contains open-loop electrical stimulation of the brain during encoding. There is no stimulation during the retrieval phase. Stimulation is delivered to a single electrode at a time, with locations chosen in the hippocampus and entorhinal cortex. Stimulation parameters are included in the behavioral events tsv files, denoting the anode/cathode labels, amplitude, pulse frequency, pulse width, and pulse count.

Half of the (experimental) trials are assigned to the stimulation condition, and stimulation and no stimulation trials are alternated. On stimulation trials, stimulation occurs during both of the associated learning trials. Stimulation begins at the onset of turning towards the object’s location and lasts for the 5 seconds of the learning trial (1s turn + 3s drive + 1s pause).

The trials are blocked by a counterbalanced scheme, so for every stimulated trial there is another non-stimulated trial with reflected object position, starting position, and orientation. This counterbalancing ensures stimulated and non-stimulated trials are difficulty matched. Each block contains 2 trials (i.e., 2 x (2 learning, 1 test)), with object (X, Y) and starting locations (x, y). Bold represents stimulation: - (X1, Y1)

(x1’, y1’)

(x1’’, y1’’)

(x1’’’, y1’’’)

(X2, Y2)
- (x2’, y2’)
- (x2’’, y2’’)
- (x2’’’, y2’’’)

The paired block contains 2 trials in the opposite order with object and starting locations: - (-X2, -Y2)

(-x2’, -y2’)

(-x2’’, -y2’’)

(-x2’’’, -y2’’’)

(-X1, -Y1)
- (-x1’, -y1’)
- (-x1’’, -y1’’)
- (-x1’’’, -y1’’’)

To Note

The iEEG recordings are labeled either “monopolar” or “bipolar.” The monopolar recordings are referenced (typically a mastoid reference), but should always be re-referenced before analysis. The bipolar recordings are referenced according to a paired scheme indicated by the accompanying bipolar channels tables.
Each subject has a unique montage of electrode locations. MNI and Talairach coordinates are provided when available.
Recordings done with the Blackrock system are in units of 250 nV, while recordings done with the Medtronic system are estimated through testing to have units of 0.1 uV. We have completed the scaling to provide values in V.

Contact

For questions or inquiries, please contact sas-kahana-sysadmin@sas.upenn.edu.

Dataset Information#

Dataset ID	`DS005523`
Title	Spatial Memory of Object Locations with Open-Loop Stimulation at Encoding
Year	2024
Authors	Haydn G. Herrema, Michael J. Kahana
License	CC0
Citation / DOI	doi:10.18112/openneuro.ds005523.v1.0.1
Source links	OpenNeuro \| NeMAR \| Source URL

Found an issue with this dataset?

If you encounter any problems with this dataset (missing files, incorrect metadata, loading errors, etc.), please let us know!

Report an Issue on GitHub

Technical Details#

Subjects & recordings

Subjects: 22
Recordings: 728
Tasks: 1

Channels & sampling rate

Channels: 180 (14), 144 (14), 166 (14), 182 (14), 126 (12), 156 (10), 50 (10), 56 (10), 109 (8), 118 (8), 141 (8), 133 (6), 64 (6), 68 (6), 123 (4), 108 (4), 120 (4), 104 (4), 87 (4), 138 (4), 100 (4), 94 (4), 174 (4), 85 (4), 76 (4), 173 (2), 110 (2), 163 (2), 112 (2), 80 (2), 92 (2), 143 (2), 88 (2), 188 (2), 124 (2)
Sampling rate (Hz): 1000.0 (116), 1600.0 (44), 500.0 (36), 999.0 (4), 499.7071 (4)
Duration (hours): 0.0

API Reference#

Use the DS005523 class to access this dataset programmatically.

class eegdash.dataset.DS005523(cache_dir: str, query: dict | None = None, s3_bucket: str | None = None, **kwargs)[source]#

Bases: EEGDashDataset

OpenNeuro dataset ds005523. Modality: ieeg; Experiment type: Memory; Subject type: Surgery. Subjects: 21; recordings: 102; tasks: 1.

Parameters:

cache_dir (str | Path) – Directory where data are cached locally.
query (dict | None) – Additional MongoDB-style filters to AND with the dataset selection. Must not contain the key dataset.
s3_bucket (str | None) – Base S3 bucket used to locate the data.
**kwargs (dict) – Additional keyword arguments forwarded to EEGDashDataset.

data_dir#

Local dataset cache directory (cache_dir / dataset_id).

Type:: Path

query#

Merged query with the dataset filter applied.

Type:: dict

records#

Metadata records used to build the dataset, if pre-fetched.

Type:: list[dict] | None

Notes

Each item is a recording; recording-level metadata are available via dataset.description. query supports MongoDB-style filters on fields in ALLOWED_QUERY_FIELDS and is combined with the dataset filter. Dataset-specific caveats are not provided in the summary metadata.

References

OpenNeuro dataset: https://openneuro.org/datasets/ds005523 NeMAR dataset: https://nemar.org/dataexplorer/detail?dataset_id=ds005523

Examples

>>> from eegdash.dataset import DS005523
>>> dataset = DS005523(cache_dir="./data")
>>> recording = dataset[0]
>>> raw = recording.load()

__init__(cache_dir: str, query: dict | None = None, s3_bucket: str | None = None, **kwargs)[source]#

save(path, overwrite=False)[source]#

Save the dataset to disk.

Parameters:

path (str or Path) – Destination file path.
overwrite (bool, default False) – If True, overwrite existing file.

Return type:

None