The Schmidtea mediterranea database as a molecular resource for studying platyhelminthes, stem cells and regeneration

SmedDb Flowchart

Library Complexity

Assume that the distribution of samples follows a Poisson function

P(k)=e-m mk/k! where m=expected occurances per trial (<=1) and k=number of events(1)
P(1)=0.367879441 P(0+1)=0.735758882

Therefore in 5561 trials (number of clones sequenced) expect 4092 unique clones.Since we obtained 2979 unique clones, we covered about 73{8d268aa641ecff601d4b5a63c15a5c2cf38663bc49e45b05fc4a17464d1bf686} of the library.


Functional Distribution

ADD Antibodies

Antibody Screen Results

Positive Antibodies

This table contains antibodies which cross-reacted reproducibly with planarian tissues. The source of the antibody, the dilutions, and the secondary antibody used are also listed. 

Negative Antibodies

This table contains a list of reagents which failed to identify epitopes in planarians. The source of the antibody, the dilutions, and the secondary antibody used are also listed.

Stem Cell Lines

Category 1

H.2.12c Piwi-like protein 1 (Smedwi-1)
H.39.11e Ribonucleoside-diphosphate reductase subunit M2 (RRM2)
H.56.5g Bruno-like protein 1 (Brunol-1)
NB.19.5f(T3) Sam68-like mammalian protein 1 (SLM-1)
H.48.9h Acidic leucine-rich nuclear phosphoprotein 32 family member A (pp32a)
H.22.5f High mobility group protein B1 (HMGB1)
H.50.4d(T3) High mobility group protein (HMGB)
NB.15.8c(T3) Chromobox protein homolog (Cbx)
H.9.4h(T3) Histone deacetylase 1 (HD1)
NB.32.8d Prohibitin (PHB)
H.8.11d mRNA export factor THO complex subunit 4 (THOC4)
H.33.12d Plasminogen activator inhibitor 1 mRNA binding protein (PAI-RBP1)
NB.10.4b Elongation factor Tu (EF-TU)

Category 2

NB.21.11e(T3) Novel
NB.32.1g Novel

Category 3

NB.8.8b(T3) L-arginine:glycine amidinotransferase (AGAT-1)
H.56.4h L-arginine:glycine amidinotransferase (AGAT-2)
NB.2.5d L-arginine:glycine amidinotransferase (AGAT-3)
H.18.4a Ras-related protein family member 10B (Ras-related)
H.45.8g Mitochondrial carrier protein (MCP)
H.63.4c Ornithine decarboxylase (ODC)
H.49.9f Cytochrome p450 1A1 (CYP1A1)
NB.52.12f Novel