oganm / neuroexpressoapi

api.neuroexpresso.org

Currently the API has two endpoints, nx_plot and nx_data.. nx_plot returns a png plot while nx_data returns a JSON file with the same content. Both share the following arguments

• gene: Symbol of the requrested gene. Defaults to Ogn
• ncbi: Ncbi ID of the requested gene
• ensembl: Ensembl id of the requested gene

Please provide only one type of gene identifier.

• region: Brain region. If provided, only returns samples from the relevant brain region. Possible values are All, Cerebrum, Cortex, BasalForebrain, Striatum, Amygdala, Hippocampus, Subependymal, Thalamus, Brainstem, Midbrain, SubstantiaNigra, LocusCoeruleus, Cerebellum, SpinalCord
• dataset: Which dataset to get the data from. Defaults to GPL339. Possible values are GPL339, GPL1261 and RNAseq. GPL339 also shows the samples from the GPL1261 platform and RNA-seq clusters but has less gene coverage. GPL1261 has more gene coverage and also shows samples from RNA-seq clusters. RNAseq has the most gene coverage but only shows the data from the RNA-seq clusters

The nx_plot endpoint has an additional fixed variable that is true or false. It is false by default. If true the axis of the returned plot will be fixed to be able to show the highest and the lowest expressed genes. Used to create plots that are directly comparable to each other.

Example queries

https://api.neuroexpresso.org/nx_plot?gene=Cox6a2&region=Cortex

https://api.neuroexpresso.org/nx_plot?gene=Cox6a2&region=Cortex&fixed=true

https://api.neuroexpresso.org/nx_plot?ncbi=12862&region=SubstantiaNigra

https://api.neuroexpresso.org/nx_data?ncbi=12862&region=SubstantiaNigra

## [
##   {
##     "Sample": "GSM241912",
##     "Expression": 6.8149,
##     "Cell Type": "Astrocyte",
##     "Reference": "Cahoy et al., 2008",
##     "PMID": 18171944,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM241914",
##     "Expression": 6.7251,
##     "Cell Type": "Astrocyte",
##     "Reference": "Cahoy et al., 2008",
##     "PMID": 18171944,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM241926",
##     "Expression": 6.1443,
##     "Cell Type": "Astrocyte",
##     "Reference": "Cahoy et al., 2008",
##     "PMID": 18171944,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM241915",
##     "Expression": 6.2961,
##     "Cell Type": "Astrocyte",
##     "Reference": "Cahoy et al., 2008",
##     "PMID": 18171944,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM241925",
##     "Expression": 6.751,
##     "Cell Type": "Astrocyte",
##     "Reference": "Cahoy et al., 2008",
##     "PMID": 18171944,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM866327",
##     "Expression": 6.2898,
##     "Cell Type": "Astrocyte",
##     "Reference": "Zamanian et al 2012",
##     "PMID": 22553043,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM866328",
##     "Expression": 6.9384,
##     "Cell Type": "Astrocyte",
##     "Reference": "Zamanian et al 2012",
##     "PMID": 22553043,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM866329",
##     "Expression": 6.7312,
##     "Cell Type": "Astrocyte",
##     "Reference": "Zamanian et al 2012",
##     "PMID": 22553043,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM866330",
##     "Expression": 6.7692,
##     "Cell Type": "Astrocyte",
##     "Reference": "Zamanian et al 2012",
##     "PMID": 22553043,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM741193",
##     "Expression": 7.1372,
##     "Cell Type": "Microglia",
##     "Reference": "Anandasabapathy et al., 2011",
##     "PMID": 21788405,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM741194",
##     "Expression": 7.0278,
##     "Cell Type": "Microglia",
##     "Reference": "Anandasabapathy et al., 2011",
##     "PMID": 21788405,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM741192",
##     "Expression": 6.8612,
##     "Cell Type": "Microglia",
##     "Reference": "Anandasabapathy et al., 2011",
##     "PMID": 21788405,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM241890",
##     "Expression": 7.0671,
##     "Cell Type": "Oligodendrocyte",
##     "Reference": "Cahoy et al., 2008",
##     "PMID": 18171944,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM241893",
##     "Expression": 7.2383,
##     "Cell Type": "Oligodendrocyte",
##     "Reference": "Cahoy et al., 2008",
##     "PMID": 18171944,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM241894",
##     "Expression": 7.09,
##     "Cell Type": "Oligodendrocyte",
##     "Reference": "Cahoy et al., 2008",
##     "PMID": 18171944,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM241918",
##     "Expression": 6.9089,
##     "Cell Type": "Oligodendrocyte",
##     "Reference": "Cahoy et al., 2008",
##     "PMID": 18171944,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM337844",
##     "Expression": 6.8197,
##     "Cell Type": "Oligodendrocyte",
##     "Reference": "Doyle et al., 2008",
##     "PMID": 19013282,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM337845",
##     "Expression": 6.9655,
##     "Cell Type": "Oligodendrocyte",
##     "Reference": "Doyle et al., 2008",
##     "PMID": 19013282,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM337846",
##     "Expression": 6.9327,
##     "Cell Type": "Oligodendrocyte",
##     "Reference": "Doyle et al., 2008",
##     "PMID": 19013282,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM337800",
##     "Expression": 7.1096,
##     "Cell Type": "Oligodendrocyte",
##     "Reference": "Doyle et al., 2008",
##     "PMID": 19013282,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM337801",
##     "Expression": 7.1879,
##     "Cell Type": "Oligodendrocyte",
##     "Reference": "Doyle et al., 2008",
##     "PMID": 19013282,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM337802",
##     "Expression": 7.3349,
##     "Cell Type": "Oligodendrocyte",
##     "Reference": "Doyle et al., 2008",
##     "PMID": 19013282,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM742912",
##     "Expression": 7.0736,
##     "Cell Type": "Oligodendrocyte",
##     "Reference": "Fomchenko et al 2011",
##     "PMID": 21754979,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM742913",
##     "Expression": 6.8512,
##     "Cell Type": "Oligodendrocyte",
##     "Reference": "Fomchenko et al 2011",
##     "PMID": 21754979,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM742914",
##     "Expression": 6.6985,
##     "Cell Type": "Oligodendrocyte",
##     "Reference": "Fomchenko et al 2011",
##     "PMID": 21754979,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A10_15_Chee_S1_M430A",
##     "Expression": 7.4685,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A10_16_Chee_S1_M430A",
##     "Expression": 8.351,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A10_8_Chee_S1_M430A",
##     "Expression": 8.2426,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A10_3_Chee_S1_M430A",
##     "Expression": 7.952,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A10_6_Chee_S1_M430A",
##     "Expression": 6.9435,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A10_17_Chee_S1_M430A",
##     "Expression": 6.9858,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A10_18_Chee_S1_M430A",
##     "Expression": 7.7457,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A10_19_Chee_S1_M430A",
##     "Expression": 6.9483,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A10_13_Chee_S1_M430A",
##     "Expression": 7.5243,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A10_14_Chee_S1_M430A",
##     "Expression": 7.5084,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A10_2_Chee_S1_M430A",
##     "Expression": 8.0091,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A10_20_Chee_S1_M430A",
##     "Expression": 6.8721,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A10_7_Chee_S1_M430A",
##     "Expression": 8.3359,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A9_13_Chee_S1_M430A",
##     "Expression": 8.0053,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A9_15_Chee_S1_M430A",
##     "Expression": 8.1882,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A9_8_Chee_S1_M430A",
##     "Expression": 8.6791,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A9_17_Chee_S1_M430A",
##     "Expression": 7.3433,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A9_14_Chee_S1_M430A",
##     "Expression": 8.1054,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A9_16_Chee_S1_M430A",
##     "Expression": 7.8643,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A9_18_Chee_S1_M430A",
##     "Expression": 7.2695,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A9_19_Chee_S1_M430A",
##     "Expression": 7.1239,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A9_20_Chee_S1_M430A",
##     "Expression": 7.19,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A9_6_Chee_S1_M430A",
##     "Expression": 8.6308,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "A9_7_Chee_S1_M430A",
##     "Expression": 8.8951,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Chung et al., 2005",
##     "PMID": 15888489,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM437382",
##     "Expression": 6.6325,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Phani et al. 2015",
##     "PMID": 20462502,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM437383",
##     "Expression": 7.2223,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Phani et al. 2015",
##     "PMID": 20462502,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM437384",
##     "Expression": 7.1135,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Phani et al. 2015",
##     "PMID": 20462502,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM437391",
##     "Expression": 7.8187,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Phani et al. 2015",
##     "PMID": 20462502,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM437392",
##     "Expression": 7.2838,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Phani et al. 2015",
##     "PMID": 20462502,
##     "Data Source": "Microarray"
##   },
##   {
##     "Sample": "GSM437393",
##     "Expression": 7.7412,
##     "Cell Type": "Dopaminergic",
##     "Reference": "Phani et al. 2015",
##     "PMID": 20462502,
##     "Data Source": "Microarray"
##   }
## ]