Processed Data:
TS_1.0 short-read assembly
  • Tree shrew genome sequences
  • Tree shrew CDS sequences
  • Tree shrew protein sequences
  • Tree shrew function annotation information
  • Tree shrew gtf file
  • NCBI annotation information
  • TS_2.0 long-read assembly
  • Tree shrew genome sequences
  • Tree shrew CDS sequences
  • Tree shrew protein sequences
  • Tree shrew function annotation information
  • Tree shrew annotation file (GTF format)
  • TS_3.0 genome annotation  
  • Tree shrew genome sequences
  • Tree shrew CDS sequences
  • Tree shrew protein sequences
  • Tree shrew transcript sequences (mRNA and lncRNA)
  • Tree shrew function annotation information (R package)
  • Tree shrew genome annotation file (mRNA and lncRNA)
  • Expression level (TPM) of RNA-seq datasets
  • Sample information regarding RNA-seq datasets
  • Other data  
  • NUMTs information
  • NUMTs sequences
  • CircRNA information
  • CircRNA sequences
  • Raw Genome Data:
    TS_1.0 short-read assembly
  • Raw sequencing reads of tree shrew genome
  • Gene list:
  • Tree shrew pseudogene information
  • Raw RNA-seq Data (Updated in TreeshrewDB V3.0) :
    Sample NameSubmissionGEO_IDTSDB_ID ReferenceDescription
    Brain 1KIZSRX157964Fan Y et al, 2013Brain tissue RNA-seq
    Brain 2KIZSRX3358316Fan Y et al, 2018Brain tissue RNA-seq
    Brain 3KIZSRX3358319Fan Y et al, 2018Brain tissue RNA-seq
    Cortex 1KIZSRX3341772Fan Y et al, 2018Cortex tissue RNA-seq
    Cortex 2KIZSRX3358317Fan Y et al, 2018Cortex tissue RNA-seq
    Hippocampus 1KIZSRX3358315Fan Y et al, 2018Hippocampus tissue RNA-seq
    Hippocampus 2KIZSRX3358318Fan Y et al, 2018Hippocampus tissue RNA-seq
    HeartKIZSRX157962Fan Y et al, 2013Heart tissue RNA-seq
    PancreasKIZSRX157961Fan Y et al, 2013Pancreas tissue RNA-seq
    KidneyKIZSRX157960Fan Y et al, 2013Kidney tissue RNA-seq
    OvaryKIZSRX157966Fan Y et al, 2013Ovary tissue RNA-seq
    TestisKIZSRX157965Fan Y et al, 2013Testis tissue RNA-seq
    LiverKIZSRX157963Fan Y et al, 2013Liver tissue RNA-seq
    Liver (control)KIZSRX1017387RNA-seq reveal liver changes in the early stage of diabetes in tree shrew, control
    Liver (diabetes)KIZSRX1009946RNA-seq reveal liver changes in the early stage of diabetes in tree shrew
    HepatocyteNIBSSRX125163Yan H et al, 2012Hepatocyte RNA-seq
    DGC-enriched Thy1- cells 1KIZTSDB2017R01Li C-H et al, 2017differentiating germ cell (DGC) -enriched Thy1? cells
    DGC-enriched Thy1- cells 2KIZTSDB2017R02Li C-H et al, 2017differentiating germ cell (DGC) -enriched Thy1? cells
    SSC-enriched Thy1+ cells 1KIZTSDB2017R03Li C-H et al, 2017spermatogonial stem cells (SSC) -enriched Thy1+ cells
    SSC-enriched Thy1+ cells 2KIZTSDB2017R04Li C-H et al, 2017spermatogonial stem cells (SSC) -enriched Thy1+ cells
    Thy1+ cells P0 1KIZTSDB2017R05Li C-H et al, 2017Thy1+ cells cultured for passages 0 (P0), 1 week for each passage
    Thy1+ cells P0 2KIZTSDB2017R07Li C-H et al, 2017Thy1+ cells cultured for passages 0 (P0), 1 week for each passage
    Thy1+ cells P1 1KIZTSDB2017R09Li C-H et al, 2017Thy1+ cells cultured for passages 1 (P1), 1 week for each passage
    Thy1+ cells P1 2KIZTSDB2017R11Li C-H et al, 2017Thy1+ cells cultured for passages 1 (P1), 1 week for each passage
    Thy1+ cells P2 1KIZTSDB2017R13Li C-H et al, 2017Thy1+ cells cultured for passages 2 (P2), 1 week for each passage
    Thy1+ cells P2 2KIZTSDB2017R15Li C-H et al, 2017Thy1+ cells cultured for passages 2 (P2), 1 week for each passage
    PTHI-1KIZCRR129069 Zhang X et al, 2020Primary tree shrew hepatocytes-I
    PTHI-2KIZCRR129070 Zhang X et al, 2020Primary tree shrew hepatocytes-I
    PTHI-3KIZCRR129071 Zhang X et al, 2020Primary tree shrew hepatocytes-I
    PTHII-1KIZCRR129072 Zhang X et al, 2020Primary tree shrew hepatocytes-II
    PTHII-2KIZCRR129073 Zhang X et al, 2020Primary tree shrew hepatocytes-II
    PTHII-3KIZCRR129074 Zhang X et al, 2020Primary tree shrew hepatocytes-II
    ITH61-P9-1KIZCRR129063 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 9
    ITH6-1-P9-2KIZCRR129064 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 9
    ITH6-1-P9-3KIZCRR129065 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 9
    ITH6-1-P17-1KIZCRR129054 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 17
    ITH6-1-P17-2KIZCRR129055 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 17
    ITH6-1-P17-3KIZCRR129056 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 17
    ITH6-1-P24-1KIZCRR129057 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 24
    ITH6-1-P24-2KIZCRR129058 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 24
    ITH6-1-P24-3KIZCRR129059 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 24
    ITH6-1-P33-1KIZCRR129060 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 33
    ITH6-1-P33-2KIZCRR129061 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 33
    ITH6-1-P33-3KIZCRR129062 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 33
    ITH6-P47-1KIZCRR129066 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 47
    ITH6-P47-2KIZCRR129067 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 47
    ITH6-P47-3KIZCRR129068 Zhang X et al, 2020immortalized tree shrew hepatocytes passage 47
    27d2BrainKIZCRR317946Ye M et al, 2021Tree shrew Brain RNA-seq
    27d2HippocampusKIZCRR317947Ye M et al, 2021Tree shrew Hippocampus RNA-seq
    27d2CortexKIZCRR317948Ye M et al, 2021Tree shrew Cortex RNA-seq
    27d2HeartKIZCRR317949Ye M et al, 2021Tree shrew Heart RNA-seq
    27d2LiverKIZCRR317950Ye M et al, 2021Tree shrew Liver RNA-seq
    27d2LungKIZCRR317951Ye M et al, 2021Tree shrew Lung RNA-seq
    27d2SpleenKIZCRR317952Ye M et al, 2021Tree shrew Spleen RNA-seq
    27d2MuscleKIZCRR317953Ye M et al, 2021Tree shrew Muscle RNA-seq
    27d2small intestineKIZCRR317954Ye M et al, 2021Tree shrew small intestine RNA-seq
    U22BrainKIZCRR317955Ye M et al, 2021Tree shrew Brain RNA-seq
    U22LungKIZCRR317956Ye M et al, 2021Tree shrew Lung RNA-seq
    U22CortexKIZCRR317957Ye M et al, 2021Tree shrew Cortex RNA-seq
    U22HippocampusKIZCRR317958Ye M et al, 2021Tree shrew Hippocampus RNA-seq
    U22HeartKIZCRR317959Ye M et al, 2021Tree shrew Heart RNA-seq
    U22LiverKIZCRR317960Ye M et al, 2021Tree shrew Liver RNA-seq
    U22SpleenKIZCRR317961Ye M et al, 2021Tree shrew Spleen RNA-seq
    U22KidneyKIZCRR317962Ye M et al, 2021Tree shrew Kidney RNA-seq
    U22small intestineKIZCRR317963Ye M et al, 2021Tree shrew small intestine RNA-seq
    U22TestisKIZCRR317964Ye M et al, 2021Tree shrew Testis RNA-seq
    U22MuscleKIZCRR317965Ye M et al, 2021Tree shrew Muscle RNA-seq
    16c7BrainKIZCRR317966Ye M et al, 2021Tree shrew Brain RNA-seq
    16c7CortexKIZCRR317967Ye M et al, 2021Tree shrew Cortex RNA-seq
    16c7HippocampusKIZCRR317968Ye M et al, 2021Tree shrew Hippocampus RNA-seq
    16c7HeartKIZCRR317969Ye M et al, 2021Tree shrew Heart RNA-seq
    16c7LiverKIZCRR317970Ye M et al, 2021Tree shrew Liver RNA-seq
    16c7LungKIZCRR317971Ye M et al, 2021Tree shrew Lung RNA-seq
    16c7SpleenKIZCRR317972Ye M et al, 2021Tree shrew Spleen RNA-seq
    16c7KidneyKIZCRR317973Ye M et al, 2021Tree shrew Kidney RNA-seq
    16c7small intestineKIZCRR317974Ye M et al, 2021Tree shrew small intestine RNA-seq
    16c7MuscleKIZCRR317975Ye M et al, 2021Tree shrew Muscle RNA-seq
    16c7OvaryKIZCRR317976Ye M et al, 2021Tree shrew Ovary RNA-seq
    16c9BrainKIZCRR317977Ye M et al, 2021Tree shrew Brain RNA-seq
    16c9CortexKIZCRR317978Ye M et al, 2021Tree shrew Cortex RNA-seq
    16c9HippocampusKIZCRR317979Ye M et al, 2021Tree shrew Hippocampus RNA-seq
    16c9HeartKIZCRR317980Ye M et al, 2021Tree shrew Heart RNA-seq
    16c9LungKIZCRR317981Ye M et al, 2021Tree shrew Lung RNA-seq
    16c9LiverKIZCRR317982Ye M et al, 2021Tree shrew Liver RNA-seq
    16c9SpleenKIZCRR317983Ye M et al, 2021Tree shrew Spleen RNA-seq
    16c9KidneyKIZCRR317984Ye M et al, 2021Tree shrew Kidney RNA-seq
    16c9small intestineKIZCRR317985Ye M et al, 2021Tree shrew small intestine RNA-seq
    16c9TestisKIZCRR317986Ye M et al, 2021Tree shrew Testis RNA-seq
    16c9MuscleKIZCRR317987Ye M et al, 2021Tree shrew Muscle RNA-seq
    03a1LiverKIZCRR317988Ye M et al, 2021Tree shrew Liver RNA-seq
    28a4LiverKIZCRR317989Ye M et al, 2021Tree shrew Liver RNA-seq
    U31LiverKIZCRR317990Ye M et al, 2021Tree shrew Liver RNA-seq
    U32LiverKIZCRR317991Ye M et al, 2021Tree shrew Liver RNA-seq
    EMCV12h-1KIZCRR317994Ye M et al, 2021TSPRC infected with EMCV (12hpi) RNA-seq
    EMCV12h-2KIZCRR317995Ye M et al, 2021TSPRC infected with EMCV (12hpi) RNA-seq
    EMCV12h-3KIZCRR317996Ye M et al, 2021TSPRC infected with EMCV (12hpi) RNA-seq
    EMCV3h-1KIZCRR317997Ye M et al, 2021TSPRC infected with EMCV (3hpi) RNA-seq
    EMCV3h-2KIZCRR317998Ye M et al, 2021TSPRC infected with EMCV (3hpi) RNA-seq
    EMCV3h-3KIZCRR317999Ye M et al, 2021TSPRC infected with EMCV (3hpi) RNA-seq
    EMCV9h-1KIZCRR318000Ye M et al, 2021TSPRC infected with EMCV (9hpi) RNA-seq
    EMCV9h-2KIZCRR318001Ye M et al, 2021TSPRC infected with EMCV (9hpi) RNA-seq
    EMCV9h-3KIZCRR318002Ye M et al, 2021TSPRC infected with EMCV (9hpi) RNA-seq
    NC12h-1KIZCRR318003Ye M et al, 2021TSPRC (cultured for 12 hours) RNA-seq
    NC12h-2KIZCRR318004Ye M et al, 2021TSPRC (cultured for 12 hours) RNA-seq
    NC12h-3KIZCRR318005Ye M et al, 2021TSPRC (cultured for 12 hours) RNA-seq
    NC3h-1KIZCRR318006Ye M et al, 2021TSPRC (cultured for 3 hours) RNA-seq
    NC3h-2KIZCRR318007Ye M et al, 2021TSPRC (cultured for 3 hours) RNA-seq
    NC3h-3KIZCRR318008Ye M et al, 2021TSPRC (cultured for 3 hours) RNA-seq
    NC9h-1KIZCRR318009Ye M et al, 2021TSPRC (cultured for 9 hours) RNA-seq
    NC9h-2KIZCRR318010Ye M et al, 2021TSPRC (cultured for 9 hours) RNA-seq
    NC9h-3KIZCRR318011Ye M et al, 2021TSPRC (cultured for 9 hours) RNA-seq
    NDV12h-1KIZCRR318012Ye M et al, 2021TSPRC infected with NDV (12hpi) RNA-seq
    NDV12h-2KIZCRR318013Ye M et al, 2021TSPRC infected with NDV (12hpi) RNA-seq
    NDV12h-3KIZCRR318014Ye M et al, 2021TSPRC infected with NDV (12hpi) RNA-seq
    NDV3h-1KIZCRR318015Ye M et al, 2021TSPRC infected with NDV (3hpi) RNA-seq
    NDV3h-2KIZCRR318016Ye M et al, 2021TSPRC infected with NDV (3hpi) RNA-seq
    NDV3h-3KIZCRR318017Ye M et al, 2021TSPRC infected with NDV (3hpi) RNA-seq
    NDV9h-1KIZCRR318018Ye M et al, 2021TSPRC infected with NDV (9hpi) RNA-seq
    NDV9h-2KIZCRR318019Ye M et al, 2021TSPRC infected with NDV (9hpi) RNA-seq
    NDV9h-3KIZCRR318020Ye M et al, 2021TSPRC infected with NDV (9hpi) RNA-seq
    SeV12h-1KIZCRR318021Ye M et al, 2021TSPRC infected with SeV (12hpi) RNA-seq
    SeV12h-2KIZCRR318022Ye M et al, 2021TSPRC infected with SeV (12hpi) RNA-seq
    SeV12h-3KIZCRR318023Ye M et al, 2021TSPRC infected with SeV (12hpi) RNA-seq
    SeV3h-1KIZCRR318024Ye M et al, 2021TSPRC infected with SeV (3hpi) RNA-seq
    SeV3h-2KIZCRR318025Ye M et al, 2021TSPRC infected with SeV (3hpi) RNA-seq
    SeV3h-3KIZCRR318026Ye M et al, 2021TSPRC infected with SeV (3hpi) RNA-seq
    SeV9h-1KIZCRR318027Ye M et al, 2021TSPRC infected with SeV (9hpi) RNA-seq
    SeV9h-2KIZCRR318028Ye M et al, 2021TSPRC infected with SeV (9hpi) RNA-seq
    SeV9h-3KIZCRR318029Ye M et al, 2021TSPRC infected with SeV (9hpi) RNA-seq
    ts12hP_HSV1225KIZCRR318030Ye M et al, 2021TPH infected with HCV (12hpi) RNA-seq
    12hadd12_8KIZCRR318031Ye M et al, 2021TPH cultured for 12 hours RNA-seq
    ts12hN_HSV1225KIZCRR318032Ye M et al, 2021TPH infected with HCV (12hpi) RNA-seq
    12h-12_8KIZCRR318033Ye M et al, 2021TPH cultured for 12 hours RNA-seq
    6hadd12_8KIZCRR318034Ye M et al, 2021TPH infected with HCV (6hpi) RNA-seq
    ts6hP_HSV1225KIZCRR318035Ye M et al, 2021TPH cultured for 6 hours RNA-seq
    6h-12_8KIZCRR318036Ye M et al, 2021TPH infected with HCV (6hpi) RNA-seq
    ts6hN_HSV1225KIZCRR318037Ye M et al, 2021TPH cultured for 6 hours RNA-seq

    ICP05000723-4