boxplots


Table of Results

*Displayed values are FDR adjusted p-values obtained from limma.

Full Table of Limma Results




Full Table of Limma Results

Guide to using the App

Contacts

The Data

  • GEO: GSE118553
  • cite: Patel, H. et al. (2019) ‘Transcriptomic analysis of probable asymptomatic and symptomatic alzheimer brains’, Brain, Behavior, and Immunity. Elsevier, 80(January), pp. 644–656. doi: 10.1016/j.bbi.2019.05.009.

DE Gene Explorer

Boxplot and Table of Results for selected gene.

Limma DE:Full Table

Use the search tabs to subset the table by Tissue/Brain Region, Experiment, logFC, P-value etc.

Tissues:

  • Entorhinal_Cortex
  • Temporal_Cortex
  • Frontal_Cortex
  • Cerebellum

Experiment:

  • AsympAD vs CO

  • AD vs AsympAD

  • AD v CO

Raw Data Explorer

If your favourite gene did not pass QC, you can look it up here.

We present the raw un-processed data and a basic background correceted, log2 transformed, rsn normalised (Tansformed) data for you to plot. The data was adjusetd for known bacthes using combat, and RIN

Note:

  • Raw data are not background corrected

  • The Transformed log2(Expression) Values will not be directly comparable to the final full quality controled data

  • For Genes with mulitple probes, the probe with the maximin expression value was selected for plotting

Affiliations, Funding and Acknowledgements

  1. Department of Biostatistics and Health Informatics, Institute of Psychiatry, Psychology and Neuroscience, King’s College London, London, UK.
  2. NIHR Biomedical Research Centre at South London and Maudsley NHS Foundation Trust and King’s College London, UK
  3. Farr Institute of Health Informatics Research, UCL Institute of Health Informatics, University College London, London, United Kingdom.

ROSALIND: Rosalind was funded with the following capital equipment grants:GSTT Charity reference: STR130505,Maudsley Charity reference 980

NIHR Biomedical Research Centre support:This paper represents independent research part funded by the National Institute for Health Research (NIHR) Biomedical Research Centre at South London and Maudsley NHS Foundation Trust and King’s College London. The views expressed are those of the author(s) and not necessarily those of the NHS, the NIHR or the Department of Health.

SJN is also supported by the National Institute for Health Research (NIHR) University College London Hospitals Biomedical Research Centre, and by awards establishing the Farr Institute of Health Informatics Research at UCLPartners, from the Medical Research Council, Arthritis Research UK, British Heart Foundation, Cancer Research UK, Chief Scientist Office, Economic and Social Research Council, Engineering and Physical Sciences Research Council, National Institute for Health Research, National Institute for Social Care and Health Research, and Wellcome Trust (grant MR/K006584/1).

Human post-mortem tissue was obtained from MRC London Neurodegenerative Diseases Brain Bank, (a) member(s) of the Brains for Dementia Research Network.