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Identifying Neuronal Connectivity in the Rat Lateral Geniculate Nucleus (LGN) from Spike Train Data
The lateral geniculate nucleus (LGN) is conventionally regarded as a passive thalamic relay between the retina and primary visual cortex. However, growing evidence suggests that its neuronal populations engage in higher-order visual information processing. To explore this possibility, we recorded ne...
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2026
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| _version_ | 1867613431491723264 |
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| access_status_str | Open Access |
| author | Ibrahim, Maryam Elsayed Ali Hermas |
| author_browse | Ibrahim, Maryam Elsayed Ali Hermas |
| author_facet | Ibrahim, Maryam Elsayed Ali Hermas |
| author_sort | Ibrahim, Maryam Elsayed Ali Hermas |
| collection | Thesis |
| description | The lateral geniculate nucleus (LGN) is conventionally regarded as a passive thalamic relay between the retina and primary visual cortex. However, growing evidence suggests that its neuronal populations engage in higher-order visual information processing. To explore this possibility, we recorded neural activity from the LGN of six adult female Albino rats. Animals were anesthetized, and a 4x4 mm craniotomy was performed over the right LGN. A 32-channel silicon microelectrode array recorded extracellular activity for approximately 26 minutes in a darkened room, with a 13-inch screen positioned tangentially to the left eye at a distance of ~15 cm. The visual stimulus was a 4 × 8-pixel checkerboard in which four randomly selected pixels flickered ON for 200 ms, followed by 300 ms OFF; 32 distinct patterns were presented in pseudorandom order, each repeated 100 times. Spike trains were extracted for each neuron, and their tuning curves were analyzed to estimate receptive fields, evaluating how individual neurons responded to the stimuli. Cross-correlation analysis was performed to infer functional connectivity, and trial-specific adjacency matrices were used to construct directed graphs depicting excitatory and inhibitory connections. We trained support vector machine (SVM) classifiers to distinguish between all possible pattern pairs using three representations of population activity: raw spike trains, spike counts, and connectivity matrices. Across animals, mean classification accuracy for the top 10 stimulus pairs was highest when using connectivity features (mean = 0.86), followed by spike counts (mean = 0.79) and spike trains (mean = 0.75). Effective connectivity outperformed the other representations in five out of six rats (Wilcoxon signed-rank test, p < 0.05), suggesting that incorporating network-based features enhances decoding performance. Statistical significance was corroborated using t-tests, yielding complementary results. Tuning curve and receptive field analyses revealed that individual neurons did not consistently prefer the most accurately classified patterns, suggesting that improved decoding arose from emergent population-level dynamics captured through connectivity. These findings support the hypothesis that interactions among LGN neurons encode information about visual stimuli, consistent with a computational role for the LGN beyond simple signal relay. They further align with recent anatomical findings and theoretical models implicating the LGN in thalamocortical coordination. Overall, our results underscore the value of connectivity-based representations in understanding sensory population coding and inform future applications in visual prosthetics. |
| format | Thesis |
| id | oai:fount.aucegypt.edu:etds-3681 |
| institution | American University in Cairo (Egypt) |
| last_indexed | 2026-06-10T12:35:59.828Z |
| license_str | Not specified — see source repository |
| provenance_str_mv | Harvested via OAI-PMH from AUC Knowledge Fountain — bepress |
| publishDate | 2026 |
| publishDateRange | 2026 |
| publishDateSort | 2026 |
| publisher | AUC Knowledge Fountain |
| publisherStr | AUC Knowledge Fountain |
| record_format | dspace |
| source_str | AUC Knowledge Fountain — bepress |
| spelling | oai:fount.aucegypt.edu:etds-3681 Identifying Neuronal Connectivity in the Rat Lateral Geniculate Nucleus (LGN) from Spike Train Data Ibrahim, Maryam Elsayed Ali Hermas The lateral geniculate nucleus (LGN) is conventionally regarded as a passive thalamic relay between the retina and primary visual cortex. However, growing evidence suggests that its neuronal populations engage in higher-order visual information processing. To explore this possibility, we recorded neural activity from the LGN of six adult female Albino rats. Animals were anesthetized, and a 4x4 mm craniotomy was performed over the right LGN. A 32-channel silicon microelectrode array recorded extracellular activity for approximately 26 minutes in a darkened room, with a 13-inch screen positioned tangentially to the left eye at a distance of ~15 cm. The visual stimulus was a 4 × 8-pixel checkerboard in which four randomly selected pixels flickered ON for 200 ms, followed by 300 ms OFF; 32 distinct patterns were presented in pseudorandom order, each repeated 100 times. Spike trains were extracted for each neuron, and their tuning curves were analyzed to estimate receptive fields, evaluating how individual neurons responded to the stimuli. Cross-correlation analysis was performed to infer functional connectivity, and trial-specific adjacency matrices were used to construct directed graphs depicting excitatory and inhibitory connections. We trained support vector machine (SVM) classifiers to distinguish between all possible pattern pairs using three representations of population activity: raw spike trains, spike counts, and connectivity matrices. Across animals, mean classification accuracy for the top 10 stimulus pairs was highest when using connectivity features (mean = 0.86), followed by spike counts (mean = 0.79) and spike trains (mean = 0.75). Effective connectivity outperformed the other representations in five out of six rats (Wilcoxon signed-rank test, p < 0.05), suggesting that incorporating network-based features enhances decoding performance. Statistical significance was corroborated using t-tests, yielding complementary results. Tuning curve and receptive field analyses revealed that individual neurons did not consistently prefer the most accurately classified patterns, suggesting that improved decoding arose from emergent population-level dynamics captured through connectivity. These findings support the hypothesis that interactions among LGN neurons encode information about visual stimuli, consistent with a computational role for the LGN beyond simple signal relay. They further align with recent anatomical findings and theoretical models implicating the LGN in thalamocortical coordination. Overall, our results underscore the value of connectivity-based representations in understanding sensory population coding and inform future applications in visual prosthetics. 2026-01-31T08:00:00Z thesis application/pdf https://fount.aucegypt.edu/etds/2625 https://fount.aucegypt.edu/context/etds/article/3681/viewcontent/maryam_hermas_ibrahim_thesis.pdf Theses and Dissertations AUC Knowledge Fountain Lateral Geniculate Nucleus (LGN) Subcortical structures Thalamocortical coordination Visual information processing Spike train data Neural connectivity Neural decoding Visual prosthetics Computational Neuroscience Systems Neuroscience |
| spellingShingle | Lateral Geniculate Nucleus (LGN) Subcortical structures Thalamocortical coordination Visual information processing Spike train data Neural connectivity Neural decoding Visual prosthetics Computational Neuroscience Systems Neuroscience Ibrahim, Maryam Elsayed Ali Hermas Identifying Neuronal Connectivity in the Rat Lateral Geniculate Nucleus (LGN) from Spike Train Data |
| title | Identifying Neuronal Connectivity in the Rat Lateral Geniculate Nucleus (LGN) from Spike Train Data |
| title_full | Identifying Neuronal Connectivity in the Rat Lateral Geniculate Nucleus (LGN) from Spike Train Data |
| title_fullStr | Identifying Neuronal Connectivity in the Rat Lateral Geniculate Nucleus (LGN) from Spike Train Data |
| title_full_unstemmed | Identifying Neuronal Connectivity in the Rat Lateral Geniculate Nucleus (LGN) from Spike Train Data |
| title_short | Identifying Neuronal Connectivity in the Rat Lateral Geniculate Nucleus (LGN) from Spike Train Data |
| title_sort | identifying neuronal connectivity in the rat lateral geniculate nucleus lgn from spike train data |
| topic | Lateral Geniculate Nucleus (LGN) Subcortical structures Thalamocortical coordination Visual information processing Spike train data Neural connectivity Neural decoding Visual prosthetics Computational Neuroscience Systems Neuroscience |
| url | https://fount.aucegypt.edu/etds/2625 https://fount.aucegypt.edu/context/etds/article/3681/viewcontent/maryam_hermas_ibrahim_thesis.pdf |
| work_keys_str_mv | AT ibrahimmaryamelsayedalihermas identifyingneuronalconnectivityintheratlateralgeniculatenucleuslgnfromspiketraindata |