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publicOct 2025View details →

Electrophysiology of neurons adjacent and away from microglia in control and TBI conditions

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publicJun 2023View details →

Data from: Brain criticality predicts individual levels of inter-areal synchronization in human electrophysiological data

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publicFeb 2025View details →

Patch-walking electrophysiology recordings

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publicJun 2023View details →

Electrophysiological measurement results in patients with a missense variant in ACTG1

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opencc-by-4.0Dec 2020View details →

The Buzsaki Lab Databank - Public electrophysiological datasets from awake animals

The Buzsaki Lab is proud to present a large selection of experimental data available for public access: <a href="https://buzsakilab.com/wp/database/">https://buzsakilab.com/wp/database/</a>. We publicly share more than a thousand sessions (about 40TB of raw and spike- and LFP-processed data) via our public data repository. The datasets are from freely moving rodents and include sleep-task-sleep sessions (3 to 24 hrs continuous recording sessions) in various brain structures, including metadata. We are happy to assist you in using the data. Our goal is that by sharing these data, other users can provide new insights, extend, contradict, or clarify our conclusions. The databank contains electrophysiological recordings performed in freely moving rats and mice collected by investigators in the Buzsaki Lab over several years (a subset from head-fixed mice). Sessions have been collected with extracellular electrodes using high-channel-count silicon probes, with spike sorted single units, and intracellular and juxtacellular combined with extracellular electrodes. Several sessions include physiologically and optogenetically identified units. The sessions have been collected from various brain region pairs: the hippocampus, thalamus, amygdala, post-subiculum, septal region, and the entorhinal cortex, and various neocortical regions. In most behavioral tasks, the animals performed spatial behaviors (linear mazes and open fields), preceded and followed by long sleep sessions. Brain state classification is provided. Getting started The top menu “Databank” serves as a navigational menu to the databank. The metadata describing the experiments is stored in a relational database which means that there are many entry points for exploring the data. The databank is organized by projects, animal subjects, and sessions. Accessing and downloading the datasets We share the data through two services: our public <a href="https://app.globus.org/file-manager?origin_id=558c54fe-cc41-11e8-8c6a-0a1d4c5c824a&origin_path=%2F">Globus.org endpoint</a> and our webshare: <a href="https://buzsakilab.nyumc.org/datasets/">buzsakilab.nyumc.org</a>. A subset of the datasets is also available at <a href="https://buzsakilab.com/wp/resources/datasets/">CRCNS.org</a>. If you have an interest in a dataset that is not listed or is lacking information, please contact us. We pledge to make our data available immediately after publication. Support For support, please use our <a href="https://groups.google.com/g/buzsaki-databank">Buzsaki Databank google group</a>. If you have an interest in a dataset that is not listed or is lacking information, please send us a request. Feel free to contact us, if you need more details on a given dataset or if a dataset is missing.

opencc-by-4.0Nov 2024View details →

Pore-Opening and Ion-Conduction Mechanism in Channelrhodopsins C1C2, ChR2, and iChloC by Computational Electrophysiology and Constant-pH Simulations

The simulation run input files, comprising the starting configuration and all necessary parameters for performing the MD simulations.

opencc-by-4.0Nov 2021View details →

Data and code from "Full bandwidth electrophysiology of seizures and epileptiform activity enabled by flexible graphene micro-transistor depth neural probes"

Data and python code for reproducing the main results of the paper "Full bandwidth electrophysiology of seizures and epileptiform activity enabled by flexible graphene micro-transistor depth neural probes."

Figure 16 in Rediscovery and description of Paramormyrops sphekodes (Sauvage, 1879) and a new cryptic Paramormyrops (Mormyridae: Osteoglossiformes) from the Ogooué River of Gabon using morphometrics, DNA sequencing and electrophysiology

Figure 16. Nine species of Paramormyrops from Lower Guinea showing, from left to right, head shape viewed from above, the outline of the body, and representative female and male EOD waveforms. Head shapes are camera lucida tracings of the holotypes for each species from the snout to end of opercular opening. The first six have sharp V-shaped head profiles and the last three have relatively blunt U-shaped heads. All but the last two have electric organs composed of Type NPp electrocytes (exhibiting Non-Penetrating stalks innervated on the posterior face). The last two have electric organs composed of Type Pa electrocytes (with Penetrating stalks innervated on the anterior face). All known mormyrids with Type Pa electrocytes have an initial, head-negative peak, P0, in the EOD waveform as illustrated here for P. kingsleyae. The P0 peak is absent in all species with Type NPp electrocytes. The EOD of P. batesii is unknown, but the electric organ is composed of Type Pa electrocytes.

Figure 9 in Rediscovery and description of Paramormyrops sphekodes (Sauvage, 1879) and a new cryptic Paramormyrops (Mormyridae: Osteoglossiformes) from the Ogooué River of Gabon using morphometrics, DNA sequencing and electrophysiology

Figure 9. Histology of para-sagittal section of paralectotype of P. sphekodes specimen MNHN 1998-1050 (Female, 98.7 mm, SL) shows electrocytes of type NPp (Non-Penetrating stalks with posterior innervation). The specimen, collected from Doumé Falls by Alfred Marche in 1876–1877 and preserved in alcohol, was embedded in plastic, sectioned with a tungsten carbide knife at 7 µm and stained with toluidine blue. E = main body of the electrocyte; anterior = anterior face of electrocyte; post = posterior face of same electrocyte; c = collagen layer separating two electrocytes; S = stalk of electrocyte which is innervated by the axons from the electromotor nerve (not shown); s = stalklets, or small branches from a dividing stalk that eventually fuse with posterior face of the electrocyte. Stalks are innervated on the posterior side of the electrocyte and all branches of the stalk system remain posterior to the main body of the electrocyte without crossing to the opposite or anterior side.

Figure 11 in Rediscovery and description of Paramormyrops sphekodes (Sauvage, 1879) and a new cryptic Paramormyrops (Mormyridae: Osteoglossiformes) from the Ogooué River of Gabon using morphometrics, DNA sequencing and electrophysiology

Figure 11. (A, B) Collection localities near the rapids at Doumé (0.84245°S, +12.96249°E) on the Ogooué River of Gabon, where P. sphekodes is sympatric with P. ntotom sp. nov. (B) shows local villagers fishing with hoop nets at Doumé. (C, D) View of the Sébé River (0.93494°S, 13.35767°E) where the two species are also sympatric. Both habitats are moderate-sized rivers with gentle flow or rapids over rocky outcroppings, interspersed with sandy beaches, surrounded by dense rain forest. The Ogooué River is 75–100 m wide at Doumé, 3 m in depth, and the water had low conductivity (13.9 µs/cm) at pH 7.04 and 6.66 mg/L O2 (83.1% saturated) at 26.7 °C. The Sébé River is 55–75 m wide, approximately 3.1 m deep, 16.0 µs conductivity, 7.08 pH and 7.5 mg/L O2 (93.6% saturation) at 26.6°C).

Figure 12 in Rediscovery and description of Paramormyrops sphekodes (Sauvage, 1879) and a new cryptic Paramormyrops (Mormyridae: Osteoglossiformes) from the Ogooué River of Gabon using morphometrics, DNA sequencing and electrophysiology

Figure 12. Holotype of P. ntotom sp. nov. CUMV 98138, tag number JPS-1189, male, 178 mm SL, from top to bottom photographed when alive, preserved in alcohol left and right sides, and radiograph. Scale bars = 1 cm.

Figure 4 in Rediscovery and description of Paramormyrops sphekodes (Sauvage, 1879) and a new cryptic Paramormyrops (Mormyridae: Osteoglossiformes) from the Ogooué River of Gabon using morphometrics, DNA sequencing and electrophysiology

Figure 4. The short EOD and SN4 Paramormyrops differ in the ratio of head length (HL) to head depth (HD) when measurements are taken from radiographs. (A) HLx/HDx is plotted against standard length for 41 specimens including short EOD specimens (n = 9, blue circles), SN4 specimens (n = 30, red squares) and the two existing types (* = lectotype of P. sphekodes and 'x' = the paralectotype). Solid lines show linear regression lines showing that head shape changes little with overall size. The measurements of the lectotype (LT) of P. sphekodes (MNHN-A893) and paralectotype (PLT) (MNHN 1998-1050) identify the short EOD individuals as P. sphekodes. The specimens with SN4-type EODs belong to a new species (red * indicates the new species holotype). Specimen 1185 is shown in x-ray in C. (B) Non-overlapping histograms of HLx/ HDx allow for good diagnosis of the two EOD types even if no EOD is available, as with the two types of P. sphekodes. (C) Radiographs of two specimens (Specimen CUMV 98134 tag number JPS-1185, an SN4 fish and MNHN-A893) illustrate landmarks used for measuring HLx and HDx (see Material and Methods). Scale bars = 1 cm.

Figure 10 in Rediscovery and description of Paramormyrops sphekodes (Sauvage, 1879) and a new cryptic Paramormyrops (Mormyridae: Osteoglossiformes) from the Ogooué River of Gabon using morphometrics, DNA sequencing and electrophysiology

Figure 10. Distribution map of West-Central Africa showing collection localities of specimens of P. sphekodes (blue), P. ntotom sp. nov. (red) and P. curvifrons (green). Stars mark collection locations of holotypes (or lectotype) and circles mark locations of other specimens.

Figure 6 in Rediscovery and description of Paramormyrops sphekodes (Sauvage, 1879) and a new cryptic Paramormyrops (Mormyridae: Osteoglossiformes) from the Ogooué River of Gabon using morphometrics, DNA sequencing and electrophysiology

Figure 6. Relevant portion of the phylogram produced from maximum likelihood analysis in RAxML of cyt-b sequences from nine individuals of the 'short EOD' form (blue), eight specimens of species 'SN4' from the Doumé and Sébé sites (red) aligned to data matrix (73 Paramormyrops individuals) of Sullivan et al. (2002), rooted with sequence of M. ntemensis (not shown). Sequence of P. curvifrons individual is shown in green. For species codes, follow Sullivan et al. (2002). Bootstrap values are shown at nodes (filled circles). Haplotypes of SN4 and 'short EOD' do not constitute monophyletic groups. However, no haplotypes are shared between these forms and nowhere on the tree do haplotypes from the two forms appear as nearest relatives. This result is consistent with the hypothesis of heterospecificity of the two forms.

Figure 7 in Rediscovery and description of Paramormyrops sphekodes (Sauvage, 1879) and a new cryptic Paramormyrops (Mormyridae: Osteoglossiformes) from the Ogooué River of Gabon using morphometrics, DNA sequencing and electrophysiology

Figure 7. Five specimens of P. sphekodes from Ogooué basin of Gabon. From top to bottom: specimen tag number 1192, female, 113.5 mm; 1201, female, 111 mm from the Ogooué River at Doumé; 1214, male, 112.5 mm; 1230, male, 133 mm and 1238, male, 119 mm from the Sébé River nearby. Scale bars = 1 cm.

Figure 3 in Rediscovery and description of Paramormyrops sphekodes (Sauvage, 1879) and a new cryptic Paramormyrops (Mormyridae: Osteoglossiformes) from the Ogooué River of Gabon using morphometrics, DNA sequencing and electrophysiology

Figure 3. The Paramormyrops specimens with short EODs, and those called SN4 have overlapping meristics but differ in a number of morphometric ratios. Here, the short EOD specimens are shown as blue circles, while '*' indicates the lectotype of P. sphekodes and '+' indicates the paralectotype. The red circles show those with longer EODs referred to as SN4 specimens. The short EOD forms have elevated ratios of interorbital width to snout length and correspondingly blunter snout angles than the SN4 specimens. They also have slightly reduced caudal peduncle depth to length ratios. There is overlap in each ratio taken separately, but combined they provide a convenient morphological basis for diagnosis between these two EOD types. EOD traces are 10 ms long.

Figure 1 in Rediscovery and description of Paramormyrops sphekodes (Sauvage, 1879) and a new cryptic Paramormyrops (Mormyridae: Osteoglossiformes) from the Ogooué River of Gabon using morphometrics, DNA sequencing and electrophysiology

Figure 1. (A) Paramormyrops sphekodes (Sauvage, 1877) MNHN A.893 photographed in 1984 by W. Harder at which time the lot contained two specimens, suspended vertically in a tall jar from a glass floater. The original MNHN catalogue shows two specimens accessioned in 1878 under this number. The larger specimen (SL = 113.8 mm) is currently catalogued as A 893; the smaller specimen (SL = 98.7 mm) was subsequently catalogued in 1998 as MNHN 1050-1998. Sauvage's original description indicates multiple specimens with a largest of 140 mm total length, but he designated no holotype. We regard these specimens as syntypes prior to our designation of the larger as lectotype. (B) Radiograph of MNHN A893.

Figure 2 in Rediscovery and description of Paramormyrops sphekodes (Sauvage, 1879) and a new cryptic Paramormyrops (Mormyridae: Osteoglossiformes) from the Ogooué River of Gabon using morphometrics, DNA sequencing and electrophysiology

Figure 2. Electric organ discharge (EOD) waveforms recorded from 40 specimens of P. sphekodes-like mormyrids from the Ogooué River Basin of Gabon suggest the possibility of two species with distinct EOD waveforms. (A) For each specimen, EOD duration is plotted against standard length (SL). (B) Histogram of EOD durations reveals two modal peaks: one for short EODs, <2 ms duration, and one for longer EODs,> 2 ms. (C) EOD waveforms of longer (above) and shorter duration (below) are superimposed after each EOD's amplitude is normalized to the same peak-to-peak height and centred on the zero-crossing between positive and negative peaks. Blue lines are males and red lines are females. Head positivity is upward. EOD duration is measured between T1 and T2 (in E), first and last points of the waveform that deviate above or below the baseline by more than 2% of the peak-to-peak height. In previous publications, the longer EOD type was referred to by the code name 'SN4'. The fish with the 'short EOD' waveform is new to this study. (D) Histograms of SLs of all 40 specimens separated by EOD-type and by sex/age class show that within each EOD type there are males recognized by their dimorphic anal fins. Within each group, males tend to have the longest duration waveforms. This sex difference is especially pronounced for SN4 males recorded during the breeding season. Fish of both EOD types co-occur at two sites in Gabon: the main channel of the Ogooué River at Doumé and the Sébé River nearby (see map). (E) EOD waveform of specimen CUMV 98177 tag JPS-1238 showing how EOD duration is measured.

Figure 5 in Rediscovery and description of Paramormyrops sphekodes (Sauvage, 1879) and a new cryptic Paramormyrops (Mormyridae: Osteoglossiformes) from the Ogooué River of Gabon using morphometrics, DNA sequencing and electrophysiology

Figure 5. Morphometrics and ratios from the three species of Paramormyrops included in this study. (A–C) and (E–G) show measurement ratios useful in diagnosis of these three species. Snout angle measurements (see Material and Methods) are compared in (D) and (G). (D) plots snout angle against IOW/SNL. Holotypes or lectotypes are indicated by '*' symbols and paratypes are indicated by 'x' symbols. (H) compares IOW/SNL for specimens of differing standard lengths. Superimposed on the data points in (A–C) and (E–G) are box plots showing range, 25% quartile, median and 75% quartile. Black bars above box plots span samples where means differ significantly (P ≤ 0.05) using Tukey–Kramer multiple comparison tests for differences in sample means. See Table 1 for abbreviations.