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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Xu, Enquan; Boddu, Ravindra; Abdelmotilib, Hisham A.; Sokratian, Arpine; +12 Authors

    Additional file 1.

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    Authors: Zarei, Mahdi; Xie, Dan; Jiang, Fei; Bagirov, Adil; +4 Authors

    Additional file 1. Light-sheet imaging and image processing generate large-scale single neuron activity data.

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    Authors: Liang, Ping; Song, Fei; Srimoyee Ghosh; Morien, Evan; +6 Authors

    Authors’ original file for figure 1

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    Authors: Metrick, Michael; NatáLia Ferreira; Saijo, Eri; Kraus, Allison; +5 Authors

    Additional file 5. K12 RT-QuIC performance in the presence of AD and PiD tau seeds. Sixteen replicate K12 RT-QuIC reactions were performed at the given ratio of AD:PiD seeds.

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    Authors: Iba, Michiyo; McDevitt, Ross A.; Kim, Changyoun; Roy, Roshni; +8 Authors

    Additional file 1: Fig. S1. Representative maps of the distribution of p-ɑ-syn in young and aged mice with PBS or ɑ-syn pff injection. Fig. S2. Immunohistochemical analysis of p-ɑ-syn and T cells in the Substantia Nigra of young and aged mice injected with PBS or ɑ-syn pff. Fig. S3. Immunohistochemical analysis of proteinase K effects on ɑ-syn aggregates in young and aged mice injected with ɑ-syn pff. Fig. S4. Additional behavioral results in young and aged mice with PBS or ɑ-syn pff injection. Fig S5. Total neuronal cells analysis in young and aged mice with PBS or ɑ-syn pff injection. Fig S6. Dopaminergic fibers and neurons analysis in young and aged mice with PBS or ɑ-syn pff injection. Fig S7. CD4 antibody immunostaining in young and aged mice at with PBS or ɑ-syn pff injection. Fig S8. CD8 antibody immunostaining in young and aged mice with PBS or ɑ-syn pff injection. Fig. S9. Immunohistochemical analysis of microglial and astroglial cells in the Substantia Nigra of young and aged mice injected with PBS or ɑ-syn pff. Fig S10. Analysis of microglial cell branching in young and aged mice with PBS or ɑ-syn pff injection. Fig S11. GFAP antibody immunostaining in young and aged mice with PBS or ɑ-syn pff injection. Fig S12. Principal component (PC) analysis and feature selection of top 1000 PC1 genes. Fig S13. Pathway analysis with functions and diseases along with qRT-PCR validation of age-associated genes. Fig S14. Pathway and molecular characterization of genes associated with ɑ-syn pff treatment along with qPCR validation. Fig S15. Comparison of mRNA expression patterns following ɑ-syn monomer injection or pff injection in young mice. Fig S16. Immunohistochemical analysis of a subset of inflammatory markers identified by the transcriptional studies. Supplementary Table 1. Mouse numbers used in this experiment. Supplementary Table 2. Sequences of primers used for RT-PCR.

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    Authors: Fryland, Tue; Christensen, Jane; Jonatan Pallesen; Mattheisen, Manuel; +14 Authors

    Spatiotemporal co-expression landscapes of BRD1-S and BRD1-L PPIs and PTGs in the human brain. The fraction of co-expressed genes with BRD1 across 32 spatiotemporal intervals. A The fraction of genes co-expressed with BRD1 across all genes (gray) and genes in the BRD1-S and BRD1-L PPI networks (red and orange). None of these were significant at P <0.05 after adjusting for multiple tests. (#) denotes P <0.05 before correcting for multiple testing. B The fraction of genes co-expressed with BRD1 across all genes (gray) and genes in the BRD1-S and BRD1-L PTGsâ +â PPI networks (red and orange). A one-sided binominal test was performed for each BRD1 sub-network and spatiotemporal interval compared to the expected fraction in the background where the asterisk (*) denotes P <0.05 after adjusting for multiple tests. (PDF 322 kb)

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    Authors: Podhorna, Jana; Krahnke, Tillmann; Shear, Michael; Harrison, John;

    P values for comparison of signal-to-noise ratios of ADAS-Cog 11 and ADAS-Cog 5 vs. other variants. Supplementary table providing p values for comparison of signal-to-noise ratios of ADAS-Cog 11 and ADAS-Cog 5 vs. other variants. (DOCX 16 kb)

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    Authors: Solomon, Isaac; Girolami, Umberto De; Sukrutha Chettimada; Misra, Vikas; +2 Authors

    Gene expression profiling of frontal lobe subcortical white matter. Table listing 24 genes profiled using the Nanostring nCounter platform to quantify mRNA transcripts. (DOCX 13 kb)

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    Authors: Ibanez, Kristen R.; McFarland, Karen N.; Phillips, Jennifer; Allen, Mariet; +13 Authors

    Additional file 3: Table S3. Normalized RNA levels (FKPM values) of Abi3 and Gngt2 from rTg4510 mice at various ages.

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    Authors: Bradlee Nelms; Waldron, Levi; Barrera, Luis; Weflen, Andrew; +10 Authors

    Algorithm development, part 1: Performance evaluation of five prospective algorithms using TiGER tissue genes as a gold standard [55], compared to the final algorithm CellMapper. Tukey boxplots show the change in area under the precision recall curve (AUPR) for each tissue, relative to the AUPR achieved by the best-performing prospective algorithm for that tissue. While all five prospective algorithms performed poorly relative to the others in several tissues, CellMapper achieved the highest AUPR in 25 out of 30 tissues and was always within 20Â % AUPR of the best method. This analysis was for algorithm development (see Additional file 1): the prospective algorithms were not originally developed to identify cell type-enriched or tissue-enriched genes, but we tested them in this application because they have been effective using 1â 2 query genes in other contexts, such as finding genes in co-regulated biological pathways (e.g. similar GO terms). MEM multi experiment matrix [44], SPELL Serial Patterns of Expression Levels Locator [45], GR Gene Recommender [56], MI mutual information. (PDF 11 kb)

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    Authors: Xu, Enquan; Boddu, Ravindra; Abdelmotilib, Hisham A.; Sokratian, Arpine; +12 Authors

    Additional file 1.

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    Authors: Zarei, Mahdi; Xie, Dan; Jiang, Fei; Bagirov, Adil; +4 Authors

    Additional file 1. Light-sheet imaging and image processing generate large-scale single neuron activity data.

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    Authors: Liang, Ping; Song, Fei; Srimoyee Ghosh; Morien, Evan; +6 Authors

    Authors’ original file for figure 1

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    Authors: Metrick, Michael; NatáLia Ferreira; Saijo, Eri; Kraus, Allison; +5 Authors

    Additional file 5. K12 RT-QuIC performance in the presence of AD and PiD tau seeds. Sixteen replicate K12 RT-QuIC reactions were performed at the given ratio of AD:PiD seeds.

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