Publications - Supplemental material

Please find below supplemental material corresponding to publications of our group. Currently, we list 132 supplements. If you have problems accessing electronic information, please let us know:

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BIOINF 09-009: Temperature-Dependent Structural Variability of RNAs: Spliced Leader RNAs and their Evolutionary History

Manja Marz, Nathalie Vanzo, Peter F. Stadler

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SL RNAs from literatures rewritten by the IUPAC code

IUPAC NT code Base SL-RNAs Dinucleotid shuffling of S. mansoni (300)
R A, G R.txt sma.R.txt
Y C, U Y.txt sma.Y.txt
S C, G S.txt sma.S.txt
W A, U W.txt sma.W.txt
K G, U K.txt sma.K.txt
M A, C M.txt sma.M.txt
B C, G, U B.txt sma.B.txt
D A, G, U D.txt sma.D.txt
H A, C, U H.txt sma.H.txt
V A, C, G V.txt sma.V.txt

SL RNA Alignments

Organism Group ClustalW RNAalifold Locarnate
Euglenida all exon all.stk
Kinetoplastida all exon all.stk
Dinophyceae all exon all.stk
Cnidaria all exon all.stk
Rotifera all exon all.stk
Nematoda all exon all.stk
Platyhelminthes all exon all.stk
Tunicates all exon all.stk
all exon all.stk
all exon all.stk
all exon all.stk SL1.stk SL2.stk
all exon all.stk SL1.stk

SL RNA Secondary structures (done by RNAsubopt -T -C)

Organism Constraints and Structures
E. gracilis TXT
P. curvicauda TXT
C. acus TXT
R. costata TXT
M. pellucidum TXT
E. sulcatum TXT
T. cruzi TXT
T. vivax TXT
T. brucei TXT
L. collosoma TXT
C. fasciculata TXT
L. enriettii TXT
K. brevis TXT
K. micrum TXT
P. piscicida TXT
P. minimum TXT
Hydra TXT
A. ricciae TXT
Philodina sp. TXT
C. elegans TXT
T. spiralis TXT
P. pacificus TXT
H. contortus TXT
S. mansoni TXT
F. hepatica TXT
S. mediterranea TXT
E. multilocularis TXT
C. intestinalis TXT
O. dioica TXT

SL RNA Secondary structures of Stem I


RNAdistance -Dw -Xm

Structures Input Output
Literature SL_LIT.txt SL_LIT.dist.txt
37 degree SL_37.txt SL_37.dist.txt
Environmental temperature SL_XX.txt SL_XX.dist.txt