Table 6.

Gene expression data in MGI.

GXD assay type	Expression results	Genes	Anatomy terms	Mutant alleles	Images
RNA in situ	1,358,788	13,214	13,954	1,828	274,852
RT-PCR	222,528	9,316	2,479	2,081	16,509
Immunohistochemistry	154,836	3,673	10,944	3,215	69,219
In situ reporter (knock in)	133,750	3,282	6,531	3,930	98,538
Northern blot	52,591	3,377	960	549	2,915
Western blot	46,242	3,017	1,136	1,567	4,781
Classical Expression totals	1,968,735	15,944	17,217	7,849	466,814
RNA-Seq	36,724,708	52,018	178	120	NA

Total numbers of GXD expression results (column 2) are shown distributed by assay type. Except for high-throughput RNA-Seq data (last row), all data are curated from published literature or from contributed datasets. The numbers of associated genes, stage-specific anatomical structures (EMAPS terms), mutant alleles, and images are also shown for each assay type. Counts include positive and negative expression results in the structures assayed. Classical gene expression assay types separated from RNA-Seq. Total distinct counts for all classical gene expression assay types are shown in the second to last row. RNA-Seq results represent average quantile-normalized TPM values for each gene from combined technical and biological replicate samples (Baldarelli et al. 2021) (image counts not applicable for RNA-Seq experiments). Classical types of expression data are currently annotated to over 17,000 distinct stage-specific anatomical structures whereas the RNA-Seq experiments include 178 distinct anatomical structures. This nicely illustrates the complementary value of classical and RNA-Seq experiments. While RNA-Seq experiments cover the entire genome and generate large volumes of expression results per experiment, classical types of expression experiments, in particular RNA in situ hybridization and immunohistochemistry, yield more detailed spatial expression information.