DBTMEE
Database of Transcriptome in Mouse Early Embryos


Statistics of DBTMEE

  • Species: Mus_musculus
  • Reference: mm9, UCSC Genome Browser, Oct. 2012, Build 37.1
  • Number of tables: 47
  • Data size: 235.08 MB
  • Storage size: 401.15 MB
  • Updated: 2014/08/05 20:24:07


  • Table name (Collection)Number of recordsData sizeStorage sizeDescription
    TMEE_GENE 131375[HTML]  [FLASH] 55.62 MB 73.87 MB Gene information compiled from RefSeq, MGI and NCBI
    Ver2_FPKM 21206 5.81 MB 10.73 MB RNA-seq: updated RNA profile (Version 2.0, RefSeq annotation-guided coding and non-coding gene levels).
    This contains ES-cells and iPS-cells ([PMID:24527385])
    Ver2_REPLICA_MappedRead 21093 7.48 MB 7.99 MB RNA-seq: updated Mapped reads in replicates (Version 2.0, RefSeq annotation-guided coding and non-coding gene levels)
    Ver2_REPLICA_FPKM 21093 8.81 MB 9.32 MB RNA-seq: updated FPKMs in replicates (Version 2.0, RefSeq annotation-guided coding and non-coding gene levels)
    SPR_Histone_Erkek_+-5KfromTSS 19974 8.84 MB 9.32 MB Histone Enrichments +/-5Kbp from TSS in sperm [PMID:23770822]
    SPR_Histone_Erkek_+-2KfromTSS 19965 8.83 MB 9.32 MB Histone Enrichments +/-2Kbp from TSS in sperm [PMID:23770822]
    SPR_Methy_Kobayashi_+-5KfromTSS 20488 3.15 MB 4.00 MB Methylation levels +/-5Kbp from TSS in sperm [PMID:22242016]
    SPR_Methy_Kobayashi_+-2KfromTSS 20466 3.15 MB 4.00 MB Methylation levels +/-2Kbp from TSS in sperm [PMID:22242016]
    SOLiD_Cluster_gene_guided 34369[HTML]  [FLASH] 4.16 MB 10.66 MB Expression patterns in RNA-seq profile
    SOLiD_Oo-4C_FPKM_gene_guided 17927 3.31 MB 4.00 MB RNA-seq: mRNA profile in Oocyte, 1-cell, 2-cell, 4-cell and MEF (RefSeq annotation-guided gene level expression)
    SOLiD_Oo-4C_REPLICA_MappedRead_gene_guided 18004 3.75 MB 16.00 MB RNA-seq: Mapped reads in replicates (RefSeq annotation-guided gene level)
    SOLiD_Oo-4C_REPLICA_FPKM_gene_guided 18004 4.56 MB 5.33 MB RNA-seq: FPKMs in replicates (RefSeq annotation-guided gene level)
    SOLiD_NMNR_Oo-4C_FPKM_gene_guided 26086 4.69 MB 16.00 MB RNA-seq: Coding and non-coding RNA profile in Oocyte, 1-cell, 2-cell, 4-cell stages (annotation-guided gene level)
    SOLiD_NMNR_Oo-4C_REPLICA_MappedRead_gene_guided 26193 5.47 MB 16.00 MB RNA-seq: Mapped reads in replicates (annotation-guided gene level)
    SOLiD_NMNR_Oo-4C_REPLICA_FPKM_gene_guided 26193 6.37 MB 10.73 MB RNA-seq: FPKMs in replicates (annotation-guided gene level)
    SOLiD_Illumina_Oo-1C-Sperm_FPKM_gene_guided 17982 2.76 MB 10.66 MB RNA-seq: mRNA profile in Oocyte, Sperm, and 1-cell stage (RefSeq annotation-guided gene level) [PMID:22242016]
    SOLiD_Illumina_Oo-1C-Sperm_REPLICA_MappedRead_gene_guided 18035 2.87 MB 4.00 MB RNA-seq: Mapped reads in replicates (RefSeq annotation-guided gene level)
    SOLiD_Illumina_Oo-1C-Sperm_REPLICA_FPKM_gene_guided 18035 3.29 MB 4.00 MB RNA-seq: FPKMs in replicates (RefSeq annotation-guided gene level)
    SOLiD_Illumina_Oo-p1C-Sperm_FPKM_gene_guided 17876 2.76 MB 4.00 MB RNA-seq: mRNA profile in Oocyte, Sperm, and parthenogenetic 1-cell stage (RefSeq annotation-guided gene level) [PMID:22242016]
    SOLiD_Illumina_Oo-p1C-Sperm_REPLICA_MappedRead_gene_guided 18035 2.87 MB 4.00 MB RNA-seq: Mapped reads in replicates (RefSeq annotation-guided gene level)
    SOLiD_Illumina_Oo-p1C-Sperm_REPLICA_FPKM_gene_guided 18035 3.29 MB 4.00 MB RNA-seq: FPKMs in replicates (RefSeq annotation-guided gene level)
    SOLiD_Partheno1C_FPKM_gene_guided 17178 2.65 MB 10.66 MB RNA-seq: mRNA profile in Oocyte, 1-cell, parthenogenetic 1-cell stages (RefSeq annotation-guided gene level)
    SOLiD_Partheno1C_REPLICA_MappedRead_gene_guided 17221 2.98 MB 4.00 MB RNA-seq: Mapped reads in replicates (RefSeq annotation-guided gene level)
    SOLiD_Partheno4C_FPKM_gene_guided 16939 2.61 MB 10.66 MB RNA-seq: mRNA profile in Oocyte, 1-cell, parthenogenetic 1-cell stages (RefSeq annotation-guided gene level)
    SOLiD_Partheno1C_REPLICA_FPKM_gene_guided 17221 3.40 MB 4.00 MB RNA-seq: FPKMs in replicates (RefSeq annotation-guided gene level)
    SOLiD_NMNR_Partheno1C_FPKM_gene_guided 21525 2.95 MB 10.66 MB RNA-seq: Coding and non-coding RNA profile in Oocyte, 1-cell, parthenogenetic 1-cell stages (annotation-guided gene level)
    SOLiD_NMNR_Partheno1C_REPLICA_MappedRead_gene_guided 21556 3.08 MB 10.66 MB RNA-seq: Mapped reads in replicates (RefSeq annotation-guided gene level)
    SOLiD_NMNR_Partheno1C_REPLICA_FPKM_gene_guided 21556 3.32 MB 4.00 MB RNA-seq: FPKMs in replicates (annotation-guided gene level)
    SOLiD_Partheno4C_REPLICA_MappedRead_gene_guided 16981 2.72 MB 4.00 MB RNA-seq: Mapped reads in replicates (RefSeq annotation-guided gene level)
    SOLiD_Partheno4C_REPLICA_FPKM_gene_guided 16981 3.13 MB 4.00 MB RNA-seq: FPKMs in replicates (RefSeq annotation-guided gene level)
    SOLiD_NMNR_Partheno4C_FPKM_gene_guided 21787 2.98 MB 10.66 MB RNA-seq: Coding and non-coding RNA profile in Oocyte, 1-cell, parthenogenetic 1-cell stages (annotation-guided gene level)
    SOLiD_NMNR_Partheno4C_REPLICA_MappedRead_gene_guided 21785 3.11 MB 10.66 MB RNA-seq: Mapped reads in replicates (annotation-guided gene level)
    SOLiD_NMNR_Partheno4C_REPLICA_FPKM_gene_guided 21785 3.36 MB 4.00 MB RNA-seq: FPKMs in replicates (annotation-guided gene level)
    Illumina_Oo-2C_FPKM_gene_guided 15394 2.10 MB 2.66 MB RNA-seq: Profile in Oocyte and 2-cell stage (RefSeq annotation-guided gene level) [PMID:22722858]
    Illumina_Oo-2C_REPLICA_MappedRead_gene_guided 15422 2.47 MB 4.00 MB RNA-seq: Mapped reads in replicates (RefSeq annotation-guided gene level)
    Illumina_Oo-2C_REPLICA_FPKM_gene_guided 15422 2.78 MB 4.00 MB RNA-seq: FPKMs in replicates (RefSeq annotation-guided gene level)
    SOLiD_SC_Oo_REPLICA_MappedRead_gene_guided 12555 1.60 MB 2.66 MB Single Cell RNA-seq: Mapped reads in oocyte replicates (RefSeq annotation-guided gene level)
    SOLiD_SC_Oo_REPLICA_FPKM_gene_guided 12555 1.65 MB 2.66 MB Single Cell RNA-seq: FPKMs in oocyte replicates (RefSeq annotation-guided gene level) [PMID:19349980]
    NIA60mer 21939 7.96 MB 13.41 MB Microarray profile [PMID:14723852]
    MOE430 14334 3.04 MB 5.33 MB Microarray profile [PMID:15282163]
    Agilent44K 15476 3.94 MB 5.33 MB Microarray profile [PMID:21344949]
    Proteome 3251 711.27 KB 1.33 MB Proteome by semiquantitative MS analysis [PMID:20876089]
    Oo_absent_genes 1909 510.73 KB 1.66 MB Genes that are not expressed at Oocytes and first detected after fertilization.
    Category: NscXX (Nascent at stage XX), SprYY (Present at Sperm and stage YY), AAA-BBB (Present at AAA category and BBB category)
    Oo_absent_genes_bound-TFs 55694 6.73 MB 10.66 MB TFs bound to enriched motifs within +-5 kbp from TSSs
    Oo_absent_genes_bound-TFs_interconnet 110725 8.17 MB 10.73 MB n/a (internal use)
    108_TFs_targeting_Oo_absent_genes 108 48.94 KB 140.00 KB 108 TFs targeting genes that are not expressed at Oocytes and first detected after fertilization [PMID:24352427]

    Nsc1C (Nascent-1C):
    genes expressed at 1C only (not expressed at Oocyte and p1C).

    Spr1C (Sperm-1C):
    genes expressed at Sperm and 1C (not expressed at Oocyte and p1C).

    Nsc1C-NscP1C (Nascent-Common):
    genes expressed at both 1C and p1C. Common represents 1C and p1C (not expressed at Oocyte and Sperm).

    NscP1C (Nascent-p1C):
    genes expressed at p1C only (not expressed at Oocyte and 1C and Sperm).

    Spr1C-NscP1C (Sperm-Common):
    genes expressed at Sperm and 1C and p1C (not expressed at Oocyte).

    SprP1C (Sperm-p1C):
    genes expressed at Sperm and p1C (not expressed at Oocyte and 1C).

    108_TFs_targeting_genelist 53229 5.28 MB 10.66 MB n/a (internal use)