2025 - Autism
This is the dataset associated with the publication A common computational and neural anomaly across mouse models of autism.
Electrophysiology, behavioral and video data were collected in mice performing the IBL task. Animals were either wildtype, or from one of 3 different autism models:
B6.129P2-Fmr1tm1Cgr/J JAX Strain #003025
B6.129(Cg)-Cntnap2tm2Pele/J JAX Strain #028635
B6.129-Shank3tm2Gfng/J JAX Strain #017688
The following data repository contains intermediate results and code to reproduce the analysis: https://osf.io/fap2s/ and https://osf.io/fap2s/wiki/home/.
Please note that different quality standards were applied in the article than what is presented in this page. For example, the IBL does not use a presence ratio to assess the quality of its good spike sorting units.
Notes
The dataset has also been published via the OSF platform. However, downloading the dataset through OSF is not recommended. We recommend you download the data via ONE.
Overview of the Data
We have released data from 198 Neuropixel experimental sessions, with single Neuropixel recordings, referred to as probe insertions. Those were obtained with 62 genetically modified subjects performing the IBL task. As output of spike-sorting, there are 71,067 units; of which 12,163 are passing IBL automated quality control.
Strain |
Subject Count |
Recording Count |
Units Count |
Good Units Count |
|---|---|---|---|---|
Cntnap2 |
17 |
52 |
20,467 |
2683 |
Fmr1 |
15 |
54 |
17,801 |
3491 |
Shank3t |
15 |
41 |
16,357 |
2911 |
Wildtype |
15 |
51 |
16,442 |
3078 |
Total |
62 |
198 |
71,067 |
12,163 |
Data structure and download
The organisation of the data follows the standard IBL data structure.
Please see
These instructions to download an example dataset for one session, and get familiarised with the data structure
These instructions to learn how to use the ONE-api to search and download the released datasets
These instructions to get familiarised with specific data loading functions
Note:
The tag associated to this release is
2025_Q3_Noel_et_al_Autism
How to cite this dataset
If you are using this dataset for your research please cite:
the paper A common computational and neural anomaly across mouse models of autism
if you download the data via ONE (recommended), cite the DOI: 10.6084/m9.figshare.30024880
if you download the data via OSF (not recommended), please use the OSF DOI.
Data release notes and changelog
2025-08-29: initial release
Possible future evolutions:
Spike sorting re-run with iblsorter or newer algorithm to have better yield and better pre-processing
Perfom new alignments of the brain region labels with regards to the ephys signatures using an automatic tool
Excluded sessions
The following sessions were excluded as the synchronisation stream from the bpod couldn’t be found in the FPGA. As such the behaviour information couldn’t be extracted to a clock synced to the electrophysiology.
EID |
Subject |
Date |
Number |
|---|---|---|---|
5d4e158b-7d6d-48fd-ad94-74ad4704e89f |
CSP018 |
2021-01-20 |
001 |
8507e9f6-4da3-454a-b553-3fc8f6299bbb |
SH014 |
2020-07-13 |
001 |
e9620e9a-688a-45da-ba6e-33fce6753729 |
SH008 |
2020-03-04 |
001 |
429de7e8-1fc9-4aa2-87a1-0800268935d7 |
CSP023 |
2020-11-17 |
001 |
Video data: QC report
We have only included video data where we could confidently align the frames timing to the main experiment clock.
Electrophysiology: QC report
Quality of uppermost channels
What we believe to be a failing Neuropixel headstage translates in the loss of 10-15 of the uppermost channels of the probes. This affects many recordings. Make sure to perform an anomaly detection using ibl-neuropixel or spike interface
CRITICAL: Missing spike sorting
The following insertions do not have any spike sorting available.
PID |
EID |
Subject |
Date |
Number |
Probe |
|---|---|---|---|---|---|
bcb1dac7-6d2b-47ad-bbbe-a4aaf9774481 |
b33a5ab8-7b51-4fe4-9ee2-584fb430b41b |
FMR025 |
2021-09-02 |
001 |
probe01 |
a25d9370-a714-4662-88c5-ccf69b646bd5 |
1a4479ec-8511-48c9-9169-55a20f2626f9 |
FMR031 |
2022-03-22 |
001 |
probe01 |
7bf6ff8d-6487-481e-a174-d1cbe31db2c4 |
baab8aae-273e-4f83-80a9-81e9b7f99185 |
FMR032 |
2022-03-15 |
001 |
probe01 |
65c6349d-6ec3-4a7d-aefc-7cfe328c1faf |
2fe8aa16-faab-49e3-8e13-aceb0b095a30 |
SH006 |
2020-02-26 |
001 |
probe00 |
7b00f29f-f67f-4fa9-b4c9-e844c44b7b6b |
ccffff9f-c432-4377-b228-e2710bc109b6 |
SH011 |
2020-02-06 |
001 |
probe01 |
8ade2696-5a06-4e0e-8f73-674aaf60a6ca |
8658a5ad-58ce-4626-8d46-be68cd33581b |
SH011 |
2020-02-07 |
001 |
probe01 |
1606f00b-e4a0-434e-a81b-a492016b42d9 |
792fe5db-dd66-4fc7-ab96-accfce28b7f4 |
SH025 |
2022-02-01 |
002 |
probe00 |
2a32115c-bb3e-42ec-81a4-c24f11d1721f |
68c22775-1b40-44ff-8802-b95d0152d565 |
SH025 |
2022-02-02 |
001 |
probe01 |
474965f4-5751-497b-9423-cb130fc30644 |
2d792481-75e5-4e51-a189-20e7cbbcd8ad |
SH025 |
2022-02-04 |
002 |
probe00 |
de7639c4-0f81-4370-84f2-70dde255eca7 |
ae21bab0-65dc-40a2-bc6d-48a6a07e9c82 |
SH027 |
2022-01-27 |
001 |
probe01 |
1034a9c5-85cd-49c1-bf6b-0fb2cbc4ee67 |
576de022-4a2b-4423-8f7f-53f83b1b896e |
CSP003 |
2019-11-22 |
001 |
probe01 |
ef8eb985-3731-48c5-ac62-38214f8d8ee4 |
95fa5278-3870-4087-9c7d-a306a068d334 |
CSP031 |
2022-02-01 |
001 |
probe01 |
eddf08b2-2b1f-489c-bceb-f28592518f61 |
bf708a95-5980-463d-b54f-329b49754313 |
CSP032 |
2022-01-27 |
001 |
probe00 |
c31e3510-cc05-4992-ac30-808d3b3f0d81 |
d133df68-dec9-4979-a500-a549719424d1 |
CSP032 |
2022-01-28 |
001 |
probe00 |
131716c1-515e-4a45-9158-cf1af6da39c7 |
86bef629-a95d-4a68-890b-2f7cabb58504 |
NYU-57 |
2021-11-18 |
001 |
probe00 |
CRITICAL: Missing Histology tracing
PID |
EID |
Subject |
Date |
Number |
Probe |
|---|---|---|---|---|---|
7d475dc7-a60e-4418-837d-fa9c43a91cff |
fb5831ac-d15b-437b-98fe-47d03d7edc15 |
SH002 |
2019-11-25 |
001 |
probe01 |
2fe497f6-95e8-4349-9b92-47f26265b784 |
0c2f24d9-5184-43e6-97dc-17b31cb8cee9 |
SH004 |
2020-02-10 |
002 |
probe00 |
ada946d0-1195-4f04-9d45-8e7e6adf7f60 |
cdfb4449-30fb-4dd9-85cd-c8dd385ddf75 |
SH013 |
2020-07-23 |
001 |
probe00 |
2eeeee9a-678e-47c9-b2d9-22daec55ddbb |
b73a16d7-555d-4c51-91a0-611d0ed0a975 |
CSP003 |
2019-11-19 |
001 |
probe00 |
5831925c-4b27-425f-9b7a-ff8b0691e9f3 |
c1f807b4-7538-4f82-a9a6-52d658eb0bd2 |
CSP017 |
2020-11-17 |
001 |
probe01 |
be8f5333-ea97-4a80-8574-ab937b2087cd |
5f1a76fa-a1b6-4140-83f2-e891db4e11a8 |
CSP017 |
2020-11-18 |
001 |
probe01 |
d8ed8bbe-c2fc-46ad-b769-872d326a8179 |
579881ec-e2f8-4079-b109-100e9ddbe8c0 |
CSP017 |
2020-11-19 |
001 |
probe01 |
553b258e-e21d-48b2-8065-21246c82e51a |
9c257bc7-ac32-4255-bb03-8ff90dfc2547 |
CSP017 |
2020-11-20 |
001 |
probe00 |
ERROR: Missing alignments
Here we have spike sorting and histology tracing, but the channels haven´t been aligned. We are not releasing those datasets for the time being. Those would be good candidates for a future revision if the ephys atlas task force devises a tool to perform automatic alignments.
PID |
EID |
Subject |
Date |
Number |
Probe |
|---|---|---|---|---|---|
66887465-3ace-43d6-b609-5e5e1878e8bd |
41eaf4a1-62d6-445f-9284-840b082b31da |
FMR030 |
2022-03-29 |
001 |
probe01 |
eacf11c1-47d5-4245-b715-0acc29ccec5c |
77d47a6a-6e05-4e3e-9c85-49a62feada2a |
FMR030 |
2022-03-31 |
001 |
probe01 |
131e4225-f661-4d2a-9e82-ce5c476ca33c |
813e255f-9958-4faf-939d-4d1fdc6536de |
FMR030 |
2022-04-01 |
001 |
probe01 |
58c392e4-1a2e-455e-89eb-65a3ceab8093 |
9c09d626-ef3f-4e51-b353-a578531a8a4b |
FMR030 |
2022-04-04 |
001 |
probe01 |
d805f64c-87dc-459c-b23d-8970483c3127 |
badc1a08-030c-4144-91f4-d002a05b6d1f |
SH020 |
2021-09-22 |
001 |
probe00 |
f4fb1053-61a7-482a-9099-39ed436dd756 |
81adee43-8f38-459c-b9ec-f8fee29ddb60 |
SH024 |
2021-09-28 |
001 |
probe00 |
6f74c301-8d73-49c3-b2fd-6ad1a74528ce |
d6492634-aa84-4b51-ab8e-2434648f2d83 |
SH024 |
2021-09-29 |
001 |
probe00 |
af95a0e6-073e-416c-9209-7ab30da8ce02 |
66687fe4-c6f8-40db-96c1-9fc49e07d2b6 |
SH024 |
2021-09-30 |
001 |
probe00 |
27271de8-f1ff-4299-a547-05f1be477417 |
1862cb56-2241-42c6-9298-a0861d8fb175 |
SH024 |
2021-10-01 |
001 |
probe00 |
685fb0f1-ed10-4a8b-8e10-51b42a7d67eb |
54859a45-23eb-41ed-b0dc-aa6d6607f006 |
SH026 |
2022-03-01 |
001 |
probe01 |
fcdc2472-1025-41ef-bc0f-2c026c35dd6e |
a152d17b-b1e3-4994-89a0-86edbf28661e |
SH026 |
2022-03-02 |
001 |
probe01 |
94d1359a-3e87-40a5-b747-7e2b85a4330a |
340a0f2b-0201-4c8b-a491-57b8b6320498 |
SH026 |
2022-03-03 |
001 |
probe01 |
2793cec9-4422-47b4-a58c-4dc5a71baa41 |
7b8d00bf-d7d9-43a4-8f69-50217cfb284c |
SH026 |
2022-03-04 |
001 |
probe01 |
9dd7e4a7-391a-4f61-982f-0efa470ccf59 |
fdd79794-88ea-4a9c-910b-524c150dec48 |
CSP001 |
2019-11-20 |
001 |
probe00 |
326c22d1-dbce-41dd-92f7-26d6e4a8d9dc |
147d9be2-ab3a-4dd6-a9b8-fdf6fc129d84 |
CSP003 |
2019-11-21 |
002 |
probe00 |
a6b0d2db-c3fc-4967-bdbf-e3f338f3af5e |
9b304cf6-a878-4539-bfd0-aeebcf07f8d1 |
CSP023 |
2020-11-18 |
001 |
probe01 |
c9eb42ff-3d53-4044-9468-93e89d870368 |
9854d7b0-ab63-48d5-a7d6-6b5bf0cf5a30 |
CSP026 |
2021-06-08 |
001 |
probe00 |
051a6c5f-4a75-42e2-aa82-b4e3cbe1cecf |
26ef4db9-d1b2-4df8-8de7-519accb9883c |
CSP026 |
2021-06-09 |
002 |
probe00 |
8e5c51e1-690d-4b50-88c4-37242d5ccb65 |
8d3b57dd-4651-4c5f-a4c3-8de8865fdca3 |
CSP026 |
2021-06-10 |
001 |
probe00 |
fab06f3a-9ff5-405d-957c-6e628c25af3d |
7b3be2f3-e11c-4352-b73f-10e7813ccec9 |
CSP026 |
2021-06-11 |
001 |
probe00 |
8d6c9ffc-6606-4f11-89bf-cc422ce5022a |
50911ee6-732b-4b07-afe0-8c48a287c803 |
NYU-49 |
2021-07-23 |
001 |
probe01 |