DS005489#

Free Recall with Open-Loop Stimulation at Encoding

Access recordings and metadata through EEGDash.

Citation: Haydn G. Herrema, Michael J. Kahana (2024). Free Recall with Open-Loop Stimulation at Encoding. 10.18112/openneuro.ds005489.v1.0.3

Modality: ieeg Subjects: 38 Recordings: 1095 License: CC0 Source: openneuro Citations: 0.0

Metadata: Complete (100%)

Quickstart#

Get Started

Install

pip install eegdash

Access the data

from eegdash.dataset import DS005489

dataset = DS005489(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 = DS005489(cache_dir="./data", subject="01")

Advanced query

dataset = DS005489(
    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{ds005489,
  title = {Free Recall with Open-Loop Stimulation at Encoding},
  author = {Haydn G. Herrema and Michael J. Kahana},
  doi = {10.18112/openneuro.ds005489.v1.0.3},
  url = {https://doi.org/10.18112/openneuro.ds005489.v1.0.3},
}

About This Dataset#

Free Recall with Open-Loop Stimulation at Encoding

Description

This dataset contains behavioral events and intracranial electrophysiological recordings from a delayed free recall task with open-loop stimulation at encoding. The experiment consists of participants studying a list of words, presented visually one at a time, completing simple arithmetic problems that function as a distractor, and then freely recalling the words from the just-presented list in any order. 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 FR1_ dataset.

This study contains open-loop electrical stimulation of the brain during encoding. There is no stimulation during the distractor or retrieval phases. 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.

20 of the 25 lists in a session are randomly assigned as stimulation lists. On these lists, stimulation occurs on alternating two-word blocks, meaning 6 of the 12 words are presented with stimulation. Stimulation starts 200 ms prior to the onset of the first word in the block and lasts for 4.6 seconds, ending 200-450 ms after the offset of the second word (depending on the inter-stimulus interval). Half of the stimulation lists begin with a stimulation on pair and half begin with a stumulation off pair, but the order of these conditions is random. A stimulation list that begins with a stimulation on pair would look as follows (with bold indicating stimulation):

1 - 2| 3 - 4 |**5 - 6**| 7 - 8 |**9 - 10** | 11 - 12

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	`DS005489`
Title	Free Recall with Open-Loop Stimulation at Encoding
Year	2024
Authors	Haydn G. Herrema, Michael J. Kahana
License	CC0
Citation / DOI	doi:10.18112/openneuro.ds005489.v1.0.3
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: 38
Recordings: 1095
Tasks: 1

Channels & sampling rate

Channels: 100 (24), 64 (20), 141 (18), 118 (16), 96 (16), 109 (14), 136 (14), 88 (12), 72 (12), 68 (12), 56 (8), 75 (8), 126 (8), 87 (8), 70 (8), 110 (8), 85 (6), 76 (6), 156 (6), 93 (6), 120 (6), 58 (6), 74 (6), 80 (4), 128 (4), 134 (4), 112 (4), 124 (4), 104 (4), 108 (4), 123 (4), 99 (4), 138 (4), 97 (2), 101 (2), 83 (2), 20 (2), 14 (2), 163 (2), 18 (2), 16 (2), 177 (2), 114 (2)
Sampling rate (Hz): 500.0 (180), 1000.0 (92), 1600.0 (20), 513.0 (8), 256.0 (4), 499.7071 (4)
Duration (hours): 0.0

API Reference#

Use the DS005489 class to access this dataset programmatically.

class eegdash.dataset.DS005489(cache_dir: str, query: dict | None = None, s3_bucket: str | None = None, **kwargs)[source]#

Bases: EEGDashDataset

OpenNeuro dataset ds005489. Modality: ieeg; Experiment type: Clinical/Intervention; Subject type: Unknown. Subjects: 37; recordings: 154; 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/ds005489 NeMAR dataset: https://nemar.org/dataexplorer/detail?dataset_id=ds005489

Examples

>>> from eegdash.dataset import DS005489
>>> dataset = DS005489(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