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Open Access Highly Accessed Research article

Hierarchical clustering of gene expression patterns in the Eomes + lineage of excitatory neurons during early neocortical development

David A Cameron1, Frank A Middleton1, Anjen Chenn3 and Eric C Olson124*

Author Affiliations

1 Department of Neuroscience and Physiology, SUNY Upstate Medical University, Syracuse, NY 13210, USA

2 Department of Electrical Engineering and Computer Science, Syracuse University, Syracuse, NY 13210, USA

3 Department of Pathology, Feinberg School of Medicine, Northwestern University, Chicago IL, 60611, USA

4 Department of Neuroscience and Physiology, SUNY Upstate Medical University, 3295 Weiskotten Hall, 750 E, Adams St. Syracuse, NY 13210, USA

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BMC Neuroscience 2012, 13:90  doi:10.1186/1471-2202-13-90

Published: 1 August 2012

Additional files

Additional file 1:

Comparison of QISPs from repeated measurement of Dab1 in situ expression in rostral neocortex along (a, b) the rostral-caudal axis and (c, d) the lateral-medial axis. Panels b and d plot strength of the in situ hybridization label (“intensity”) as a function of cortical position. All in situ hybridizations are derived from Genepaint.

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Additional file 2:

Table S1. RMA values for eye-specific genes that were used to establish not-expressed threshold for this study.

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Additional file 3:

Table S2. Complete list of all ≥ 3 fold up-regulated genes in E14.5 GFP + Eomes lineage compared to E13.5 GFP + Eomes lineage.

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Additional file 4:

Table S3. Complete list of all ≥ 3 fold down-regulated genes in E14.5 GFP + Eomes lineage compared to E13.5 GFP + Eomes lineage.

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Additional file 5:

Table S4. Complete list of all ≥ 3 fold up-regulated genes in the E14.5 GFP + Eomes lineage compared to E13.5 GFP- precursors. Blue cells indicate genes that were unavailable or could not be analyzed by Genepaint in situ.

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Additional file 6:

Table S5. Complete list of all ≥ 3 fold down-regulated genes in the E14.5 GFP + Eomes lineage compared to GFP- precursors.

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Additional file 7:

Functional groupings of QISPs based on Gene Ontology (GO) molecular function and biological process annotations. Genes are grouped according to zone of expression: deep (D, dark gray), middle (M, light gray), upper (U, white). Listed genes are ranked by fold up-regulation.

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