quadgram

This is a table of type quadgram and their frequencies. Use it to search & browse the list to learn more about your study carrel.

quadgram	frequency
in the presence of	124
nucleic acids res doi	62
in the absence of	58
human immunodeficiency virus type	57
figure a and b	55
and supplementary figure s	50
severe acute respiratory syndrome	47
supplementary figure s a	45
on the other hand	44
as shown in figure	43
conflict of interest statement	37
available at nar online	36
the end of the	35
figure b and c	34
data are available at	33
are available at nar	33
supplementary data are available	33
in the human genome	32
supplementary figure s b	32
in the case of	32
in supplementary table s	31
the human immunodeficiency virus	29
in the context of	29
at c for min	28
at the end of	27
the size of the	26
the role of the	26
can be used to	26
surface of the protein	24
was used as a	23
the presence of a	23
acute respiratory syndrome coronavirus	22
as well as the	22
as a function of	22
of g s in	22
shown in figure a	22
the structure of the	22
of the sukh superfamily	21
of human immunodeficiency virus	20
coronavirus ribosomal frameshifting signal	19
has been shown to	19
listed in supplementary table	18
crystal structure of the	18
the presence of the	18
it is possible that	17
at room temperature for	17
supplementary figure s c	17
in vitro and in	17
of the stop codon	17
a wide range of	17
was added to the	17
as a negative control	17
in addition to the	17
the base of the	16
the context of the	16
the length of the	16
figure c and d	16
figure e and f	16
play a role in	16
were carried out in	15
one of the most	15
exterior surface of the	15
is consistent with the	15
mutational analysis of the	15
the exterior surface of	15
the unfolded protein response	15
have been shown to	15
the position of the	15
the importance of the	14
is one of the	14
lys mcm s uuu	14
pay the open access	14
is shown in figure	14
presence or absence of	14
the identity of the	14
an important role in	14
funding to pay the	14
of a coronavirus ribosomal	14
we were able to	14
a large number of	14
vitro and in vivo	14
cells were transfected with	14
trna lys mcm s	14
fraction of fs m	14
national center for biotechnology	14
to pay the open	14
shown in figure b	14
the use of a	14
the open access publication	14
structure of the rna	14
g s in the	14
a u a u	14
a final concentration of	14
cells were treated with	14
publication charges for this	13
center for biotechnology information	13
charges for this article	13
of hepatitis c virus	13
the majority of the	13
for an rna pseudoknot	13
access publication charges for	13
open access publication charges	13
of the s rrna	13
used in this study	13
c for min and	13
the presence of template	13
the terminal loop of	12
the specificity of the	12
cell leukemia virus type	12
of the human immunodeficiency	12
programmed ribosomal frameshifting in	12
studies have shown that	12
these data indicate that	12
was carried out using	12
was found to be	12
component of a coronavirus	12
this article was provided	12
for min at c	12
structure and function of	12
a coronavirus ribosomal frameshifting	12
correspondence should be addressed	12
at the exterior surface	12
whom correspondence should be	12
the presence or absence	12
the stability of the	12
the hepatitis c virus	12
article was provided by	12
identification and characterization of	12
in contrast to the	12
the total number of	12
it has been shown	12
the surface of the	12
in reading frame maintenance	12
by the presence of	12
to whom correspondence should	12
the secondary structure of	12
for this article was	12
the virus variation resource	12
supplementary figure s e	11
to that of the	11
in supplementary figure s	11
at the base of	11
were performed as described	11
our results showed that	11
the ability of the	11
the presence of g	11
the ese in exon	11
for the detection of	11
thermodynamic stability of the	11
secondary structure of the	11
incubated for min at	11
been shown to be	11
the fraction of fs	11
of ribosomal frameshifting in	11
coronavirus infectious bronchitis virus	11
of the shift site	11
the crystal structure of	11
plays an important role	11
mechanical explanation of rna	10
state abundance of the	10
c for s and	10
the u a heptamer	10
the presence of increasing	10
ribosomal frameshifting in hiv	10
in the vicinity of	10
we would like to	10
the national center for	10
it is important to	10
the severe acute respiratory	10
rna pseudoknot function in	10
that can be used	10
of the viral genome	10
majority of fs z	10
the majority of fs	10
bip and chop genes	10
of severe acute respiratory	10
performed as previously described	10
of the homomorph is	10
explanation of rna pseudoknot	10
terminal segment of the	10
used as a template	10
crystal structure of a	10
a mechanical explanation of	10
is the number of	10
the yeast saccharomyces cerevisiae	10
of rna pseudoknot function	10
base of the stem	10
the presence of mm	10
in programmed ribosomal frameshifting	10
for h at c	10
these results indicate that	10
function in programmed ribosomal	10
would like to thank	10
for min at room	10
min at room temperature	10
pseudoknot function in programmed	10
these results suggest that	9
in the yeast saccharomyces	9
performed as described previously	9
nt downstream of the	9
shown in figure d	9
we have developed a	9
the firefly luciferase gene	9
has been shown that	9
the ntd of dnag	9
presence of g s	9
expansion of decoding rules	9
are shown in supplementary	9
of the slippery sequence	9
shown in supplementary table	9
it is likely that	9
table and supplementary figure	9
on ice for min	9
the fact that the	9
interaction between madp and	9
as described in the	9
by the addition of	9
in agreement with the	9
variation in the human	9
at c for s	9
are listed in supplementary	9
and function of the	9
the location of the	9
role of g s	9
for the presence of	9
this is consistent with	9
we have shown that	9
the thermodynamic stability of	9
mutation of the ese	9
stimulation of ribosomal frameshifting	9
incubated at c for	9
be used as a	9
downstream of the slippery	9
and supplementary table s	9
destabilizing activity of vp	8
we observed that the	8
hepatitis c virus rna	8
see also supplementary figure	8
the sequences of the	8
we found that the	8
could be due to	8
not included in the	8
stop codon in the	8
immediately downstream of the	8
a part of the	8
we conclude that the	8
incubated for h at	8
when compared to the	8
as a result of	8
for the development of	8
was performed as described	8
ribosomal pausing during translation	8
these data suggest that	8
the interaction between madp	8
may be involved in	8
have shown that the	8
end of the genome	8
are shown in figure	8
these observations suggest that	8
in exon of cd	8
of an rna pseudoknot	8
room temperature for min	8
a limited number of	8
of the frameshift site	8
the s rrna transcript	8
expression of sf asf	8
on the basis of	8
are listed in table	8
the highly conserved residues	8
figure s a and	8
for human immunodeficiency virus	8
of the uga codon	8
appear to have been	8
g s have been	8
the vicinity of the	8
alternative splicing of cd	8
is responsible for the	8
of the genetic code	8
as a template for	8
a u and a	8
as well as a	8
plays a role in	8
also supplementary figure s	8
at the surface of	8
in the cytoplasm of	8
figure c and supplementary	8
moloney murine leukemia virus	8
conservation at synonymous sites	8
the nature of the	8
it is possible to	8
used as a negative	8
room temperature for h	8
the mcm side chain	8
was observed in the	8
in a number of	8
in the a site	8
the effect of the	8
are likely to be	8
previous studies have shown	8
to determine whether the	8
the ratio of the	8
may play a role	8
of the cyp d	8
than that of the	8
have been found in	8
s a and s	8
of decoding rules enriches	8
the absence of the	8
in the final assay	8
the cyp d gene	8
supplementary figure s d	8
segment of the homomorph	7
figure d and supplementary	7
translation of an rna	7
the interaction with the	7
figure a and supplementary	7
of the human genome	7
quadruplex structures in the	7
the number of methionines	7
downstream of the frameshift	7
translocational ribosome aligning with	7
of the slippery site	7
mechanisms by which coronaviruses	7
see materials and methods	7
at a frameshifter rna	7
the expression of the	7
of the ese in	7
ensure synthesis of the	7
to reading phase but	7
pausing at a frameshifter	7
which coronaviruses ensure synthesis	7
in the synthesis of	7
structural basis for the	7
phase but shows little	7
terminal edge of the	7
supplementary table s and	7
by which coronaviruses ensure	7
the esterified methyl group	7
of an efficient coronavirus	7
solution structure of the	7
substrate was annealed with	7
for translational frameshifting in	7
in the genome of	7
in the regulation of	7
we sought to determine	7
achieving a golden mean	7
synthesis of the correct	7
for each of the	7
frameshifter rna pseudoknot is	7
the slippery site and	7
in an elp mutant	7
the hypothesis that the	7
translational frameshifting in hiv	7
stability of the first	7
cells treated with mm	7
little correlation with frameshift	7
rules enriches gene expression	7
ribosomal frameshifting in the	7
reading phase but shows	7
a subset of the	7
pausing during translation of	7
rna chaperone activity of	7
has been reported to	7
a frameshifter rna pseudoknot	7
splicing pattern of cd	7
of the effects of	7
remains to be determined	7
decoding rules enriches gene	7
but shows little correlation	7
is consistent with our	7
of the sars coronavirus	7
ratios of viral proteins	7
the formation of the	7
results showed that the	7
structurally aligned sequences that	7
region of the hiv	7
correct stoichiometric ratios of	7
bovine viral diarrhea virus	7
efficient coronavirus ribosomal frameshifting	7
of programmed ribosomal frameshifting	7
stoichiometric ratios of viral	7
have been identified in	7
the pestivirus ns b	7
and incubated at c	7
the sequence of the	7
it is known that	7
to the reference genome	7
c and supplementary figure	7
to interact with the	7
the vast majority of	7
that the majority of	7
requirement for an rna	7
characterization of ribosomal frameshifting	7
ge healthcare life sciences	7
this suggests that the	7
to the stop codon	7
is possible that the	7
is sensitive to reading	7
coronaviruses ensure synthesis of	7
rna pseudoknot is sensitive	7
ribosomal pausing at a	7
the rous sarcoma virus	7
during translation of an	7
of ribosomal frameshifting by	7
the possibility that the	7
the case of the	7
the correct stoichiometric ratios	7
edge of the motif	7
of the correct stoichiometric	7
trna arg mcm ucu	7
for the prediction of	7
is required for efficient	7
the structurally aligned sequences	7
binding of ncl to	7
are consistent with the	7
a member of the	7
a function of time	7
degradation of the s	7
the t m of	7
the activity of the	7
middle east respiratory syndrome	7
to the s rrna	7
correlation with frameshift efficiency	7
in the presence or	7
in the expression of	7
supplementary figure s and	7
shows little correlation with	7
be due to the	7
shown in figure c	7
and a u a	7
the results of the	7
the distance between the	7
as well as in	7
supplementary tables s and	7
were used in the	7
sensitive to reading phase	7
an efficient coronavirus ribosomal	7
tables s and s	7
pseudoknot is sensitive to	7
in the sample set	6
in a viral rna	6
luciferase reporter system for	6
between mechanical strength of	6
the occupancy status of	6
in a j mice	6
with respect to the	6
is important to note	6
of fs z is	6
of the mcm side	6
identification of a novel	6
the number of sequences	6
the c and c	6
the ntd and the	6
to a set of	6
pseudoknots and ribosomal frameshifting	6
is separated from the	6
it has been reported	6
movement impeded at a	6
not affected by the	6
between frameshift efficiency and	6
pseudoknot enhance mechanical stability	6
ifn induction by sh	6
the viral g s	6
at a pseudoknot required	6
for frameshifting ribosomal pausing	6
a wide variety of	6
impeded at a pseudoknot	6
was added to each	6
can be found in	6
of the u a	6
characterization of an efficient	6
stability and increase efficiency	6
used to assess the	6
a pseudoknot required for	6
in each of the	6
u and a u	6
the formation of a	6
stability and frameshift efficiency	6
it should be noted	6
a result of the	6
a broad range of	6
in support of this	6
of the ebov trailer	6
mrna pseudoknots promote efficient	6
we propose that the	6
d and supplementary figure	6
position of the mutation	6
stability of the stem	6
was performed using the	6
to verify that the	6
the influence of the	6
the slippery sequence and	6
reporter system for studying	6
required for frameshifting ribosomal	6
the as rs interaction	6
of the antisense strand	6
correlation between mechanical strength	6
that the presence of	6
in the ltr promoter	6
the first time that	6
with the exception of	6
b and supplementary figure	6
expression of the full	6
triplex structures in an	6
mechanical stability and increase	6
a final volume of	6
and characterization of the	6
is highly conserved in	6
rna pseudoknots and ribosomal	6
structure downstream of the	6
in an rna pseudoknot	6
time dlamp with hrm	6
in tissue culture cells	6
in the initiation of	6
of the frameshift products	6
s a and b	6
that the structure of	6
at the time of	6
the tertiary structure of	6
pseudoknots promote efficient programmed	6
c bl j mice	6
for the first time	6
supplementary figures s a	6
at the same time	6
is essential for the	6
reactions were incubated at	6
to the reading frame	6
of the template tunnel	6
mechanical strength of messenger	6
the efficiency of frameshifting	6
the beginning of the	6
transcript by the exosome	6
a significant amount of	6
u a slippery sequence	6
tension on the mrna	6
figure b and d	6
buffer containing mm hepes	6
of the de novo	6
were carried out at	6
of bip and chop	6
glu mcm s uuc	6
the copy number of	6
assays were carried out	6
and can be used	6
the expression levels of	6
that the ntd is	6
enhance mechanical stability and	6
buffer containing mm tris	6
it was shown that	6
and increase efficiency of	6
in the mdx mouse	6
viral replication and transcription	6
should be noted that	6
occupancy status of the	6
of the hepatitis c	6
one of the two	6
under the following conditions	6
immunodeficiency virus type rna	6
how mrna pseudoknots promote	6
is the mean of	6
ie heptameric patterns clusters	6
treatment with h o	6
system for studying recoding	6
with high t m	6
for their ability to	6
ribosomal frameshifting in decoding	6
in buffer containing mm	6
at c for h	6
of the lacz gene	6
rna pseudoknot enhance mechanical	6
for studying recoding signals	6
and analysis of the	6
yeast ribosomal protein l	6
the dynamic range of	6
trna glu mcm s	6
the structures of the	6
of duchenne muscular dystrophy	6
may be due to	6
side of the hairpin	6
pseudoknot required for frameshifting	6
using a combination of	6
the rna chaperone activity	6
structures can act as	6
the structural basis for	6
carried out using a	6
a critical role in	6
trna gly mcm ucc	6
probabilistic data structures and	6
the levels of frameshifting	6
the absence of a	6
can be attributed to	6
each end of the	6
be observed in the	6
the hj secondary structure	6
frameshifting ribosomal pausing during	6
lanes to in figure	6
on the u a	6
is important for the	6
the composition of frameshift	6
the results showed that	6
role of sirt in	6
strength of messenger rna	6
has been reported that	6
to a final concentration	6
could be used to	6
messenger rna pseudoknots and	6
for the number of	6
an rna pseudoknot enhance	6
relative copy number of	6
resuspended in lysis buffer	6
and function of rna	6
aligned sequences that comprise	6
figures s a and	6
the local stability of	6
the function of the	6
of messenger rna pseudoknots	6
structures in an rna	6
in an attempt to	6
both in vitro and	6
ribosomal movement impeded at	6
of sf asf in	6
the relative abundance of	6
of the viral rna	6
of the genome and	6
under the control of	6
consistent with the model	6
new insights into the	6
ribosomal frameshifting by antisense	6
see supplementary table s	6
in the kinetic model	6
investigate the role of	6
of and distance between	5
both rna and dna	5
was detected in the	5
can also be used	5
identification and analysis of	5
slippery site and the	5
did not have any	5
figure a and c	5
in the culture supernatant	5
used as templates for	5
in a dna sample	5
the existence of a	5
to the formation of	5
a crucial initiator of	5
type ii in vivo	5
from a set of	5
with mm h o	5
the large ribosomal subunit	5
unfolding of rna pseudoknots	5
in the utr of	5
pol ii occupancy at	5
the interaction of sirt	5
of the rna polymerase	5
and were used for	5
reported in the literature	5
the coronavirus infectious bronchitis	5
nucleotides downstream of the	5
to trigger ifn activation	5
figure and supplementary figure	5
the abundance of the	5
of increasing amounts of	5
data suggest that the	5
the evolution of the	5
to the number of	5
and distance between two	5
database and analysis resource	5
the maximum number of	5
is consistent with a	5
ribosomes stalled at the	5
the relative expression of	5
pseudoknot stem length in	5
carried out in the	5
leukemia virus type ii	5
the degradation of the	5
in materials and methods	5
sequences of and distance	5
the primer extension activity	5
were cloned into the	5
the role of rna	5
as the size of	5
gaba a receptor subunit	5
it appears that the	5
by the number of	5
signals determine the efficiency	5
the rate constant for	5
final volume of ml	5
the side of the	5
east respiratory syndrome coronavirus	5
of two or more	5
this could be due	5
ribosome aligning with dex	5
the efficiency of ribosomal	5
characterization of the frameshift	5
helicase activity of the	5
lower than that of	5
supplementary figure s f	5
codon in the spacer	5
as the amount of	5
interaction between pcaf and	5
was performed as previously	5
mixture was incubated for	5
of the esterified methyl	5
the efficiency of the	5
and supplementary figures s	5
the left of the	5
be used to identify	5
terminal part of sirt	5
end of s rrna	5
the sequences of and	5
codon of the shift	5
line probing analysis of	5
the exterior of the	5
in figure b and	5
to test whether the	5
the a u mutant	5
mm nacl and mm	5
to regulate gene expression	5
by imbert et al	5
initiator of ribosomal frameshifting	5
the development of chemical	5
in the fraction of	5
esterified methyl group of	5
can be used as	5
for the interaction of	5
we also observed a	5
observed in the presence	5
with the hypothesis that	5
with the addition of	5
treated with mm of	5
the silencing activity of	5
long terminal repeat promoter	5
we note that the	5
that the ntd of	5
the conformation of the	5
was provided by the	5
in a similar manner	5
of stop codon readthrough	5
an important target for	5
involved in the interaction	5
by the exosome containing	5
interaction of sirt with	5
role of rna pseudoknot	5
kindly provided by dr	5
of the primers used	5
by incubation on ice	5
are summarized in figure	5
of nucleic acids research	5
atp and utp were	5
the promotion of efficient	5
in the frameshift site	5
that there is a	5
c in the presence	5
to be present in	5
signals in the mrna	5
subgenomic mrna transcription in	5
in the latter case	5
in accordance with the	5
of the role of	5
the interaction between the	5
error of the mean	5
funding for open access	5
exterior of the protein	5
distance between two cis	5
slippery sequence and the	5
between the ntd and	5
which is required for	5
a role for the	5
there was no significant	5
domains a and a	5
the catalytic domain of	5
is similar to the	5
stem length in the	5
we have found that	5
is illustrated in figure	5
at a final concentration	5
has been proposed to	5
between the homomorphs of	5
the cells were harvested	5
of c for s	5
our results suggest that	5
pseudoknots involved in stimulating	5
virus type and human	5
as mrna destabilizing elements	5
a role in the	5
primers and were used	5
hrm in the final	5
at g for min	5
length in the promotion	5
the activity of nsp	5
data structures and algorithms	5
in this study are	5
from pathway ii when	5
rna pseudoknot stem length	5
supplementary figures s and	5
tomato bushy stunt virus	5
conjugates d and d	5
was not able to	5
of the unfolded protein	5
of the number of	5
to induce ribosomal frameshifting	5
a mouse model of	5
in the cell nucleus	5
ranging from to nt	5
in the spacer region	5
been identified in the	5
binding affinity to the	5
type and human t	5
nt in length were	5
e nucleic acids research	5
are required for efficient	5
of the firefly luciferase	5
by the csl exosome	5
located downstream of the	5
can effectively substitute for	5
c for min followed	5
a relative copy number	5
as well as by	5
the model predicts that	5
annealed with rna and	5
the ntp entry tunnel	5
of the mechanical unfolding	5
of protein synthesis in	5
from pathway iii when	5
was annealed with rna	5
between madp and ibv	5
the wt and n	5
tertiary structure of the	5
figure b and supplementary	5
at single nucleotide resolution	5
pellet was resuspended in	5
a new generation of	5
is located at the	5
can act as ribosomal	5
directly adjacent to the	5
cells were harvested h	5
c for s for	5
cycles of c for	5
in supplementary tables s	5
made it possible to	5
renilla and firefly luciferase	5
in the human immunodeficiency	5
for the formation of	5
in the target cells	5
characterization of the mechanical	5
development of chemical probes	5
activation of the ifn	5
was due to the	5
standard error of the	5
shown in figure e	5
we show that the	5
of ribosomal protein l	5
in a variety of	5
u mis and c	5
aligning with dex xxy	5
virus type ii in	5
rna degradation by the	5
the absence of theophylline	5
determine the efficiency of	5
true and false positives	5
rna pseudoknots involved in	5
as one of the	5
of the mcm group	5
promoter region of the	5
classical swine fever virus	5
of the cirv genome	5
the uga stop codon	5
important to note that	5
standard rna helix substrate	5
according to manufacturer instructions	5
as a positive control	5
twist on frameshifting pseudoknots	5
were incubated at c	5
in the bloom filter	5
cells were infected with	5
the mechanical unfolding of	5
with the rdrp palm	5
the interaction of the	5
consistent with the hypothesis	5
ese in exon of	5
have been used to	5
in the crystal structure	5
an equal volume of	5
terminal loop of helix	5
act as ribosomal roadblocks	5
comparable to that of	5
institute of allergy and	5
crucial initiator of ribosomal	5
into the mechanism of	5
over the past decade	5
figure s and table	5
the distribution of the	5
of csfv ns b	5
we find that the	5
of rna pseudoknots involved	5
this is the first	5
and the ability to	5
analysis of the rna	5
responsible for the interaction	5
kinase activity of cdk	5
incubation on ice for	5
a small number of	5
lack of the mcm	5
the past few years	5
segment of the dpo	5
multiple sequence alignment with	5
the mrna entrance channel	5
a u u a	5
sequences of the primers	5
of the mature s	5
function of rna pseudoknots	5
takes into account the	5
section of figure a	5
end of the homomorph	5
in the recoding site	5
was observed when the	5
of the interaction between	5
barr virus nuclear antigen	5
in human immunodeficiency virus	5
virus type rna dimerization	5
of the large ribosomal	5
figure e and supplementary	5
the start of the	5
sf asf expression vector	5
stability and function of	5
a potential target for	5
in stimulating ribosomal frameshifting	5
specific amplification in the	5
from the beginning of	5
were performed as previously	5
the u a slippery	5
in the promotion of	5
both daudi and sk	5
the gene of interest	5
of rna pseudoknot stem	5
diploid copy number of	5
of the nucleocapsid protein	5
similar to that of	5
new twist on frameshifting	5
motifs a and d	5
activity of the ribosome	5
be explained by the	5
with rna and rna	5
to the end of	5
studies have demonstrated that	5
exclude the possibility that	5
not present in the	5
of the sukh domain	5
our data show that	5
creb atf family proteins	5
in the structure of	5
d exd e motif	5
the rest of the	5
hydroxyl acylation analyzed by	5
the viral life cycle	5
was normalized to the	5
mechanical unfolding of rna	5
in a subset of	5
involved in stimulating ribosomal	5
by agarose gel electrophoresis	5
s rrna transcript by	5
of the wt and	5
in dmem supplemented with	5
of ribosomal frameshifting for	5
to the ribosomal a	5
followed by incubation on	5
the presence of mg	5
a new twist on	5
rna secondary structure prediction	5
and the number of	5
in a mouse model	5
ribosomal frameshifting in human	5
to the cleavage site	5
assays were performed as	5
american type culture collection	5
for a variety of	5
copy number of the	5
dimerization of human immunodeficiency	5
the uaa stop codon	5
the number of non	5
for open access charge	5
for min followed by	5
performed as described earlier	5
one of the three	5
of the s group	5
with the csl exosome	5
the mixture was incubated	5
was incubated for min	5
the assumption that the	5
efficiency of ribosomal frameshifting	5
acting signals determine the	5
a volume of ml	4
the closing stem of	4
for the mechanism of	4
stopped by addition of	4
of the third stem	4
rna interference in mammalian	4
by the fact that	4
efficient in inducing frameshifting	4
is based on the	4
and mutagenic analysis of	4
in the first step	4
potential target for anti	4
was kindly provided by	4
in order to maintain	4
ntd interacts with the	4
contain at least one	4
our data suggest that	4
while the majority of	4
bioinformatics database and analysis	4
coupled transcription and translation	4
t rnap and n	4
the acvr b gene	4
were incubated in the	4
and analysis resource for	4
frameshifting site is an	4
and an important target	4
small molecules that target	4
sought to determine whether	4
with fetal bovine serum	4
deletion of the ese	4
to bind to the	4
the response of the	4
false positives in the	4
in the rous sarcoma	4
role for g s	4
confirmed by western blotting	4
is composed of a	4
used in the assays	4
to test this hypothesis	4
may contribute to the	4
stability of base pairs	4
each bar is the	4
summarized in figure a	4
in the u region	4
the presence of theophylline	4
the accuracy of the	4
messenger rna during translation	4
in decoding the sars	4
two types of frameshift	4
as the ratio of	4
sequence determinant and an	4
the amino acid sequence	4
in bacteriophages and bacterial	4
to the untranslated region	4
was chosen as the	4
was confirmed by western	4
plus sf asf expression	4
it is noteworthy that	4
b and az c	4
sequence database of genomes	4
in agreement with previous	4
when r t is	4
of allergy and infectious	4
and western blot analysis	4
cells were harvested by	4
that sf asf regulates	4
trna gln mcm s	4
g s in viruses	4
of termination codons in	4
have been reported in	4
were obtained from the	4
exogenous expression of the	4
the members of the	4
interacts with the exosome	4
important target for antiviral	4
of each of the	4
a subset of these	4
in the present study	4
a version of the	4
pseudoknot structures can act	4
that is important for	4
the homomorphs of motif	4
in trna gln mcm	4
the luciferase activity of	4
both dna and rna	4
it has been proposed	4
translational recoding in the	4
nucleotide and protein sequences	4
flock house virus rna	4
both specific and non	4
using t rna polymerase	4
reactions were terminated by	4
regulatory protein sf asf	4
as can be seen	4
structures can effectively substitute	4
the effects of the	4
to see whether the	4
sequences are listed in	4
an in vivo dual	4
protein database search programs	4
in the wobble position	4
the presence of mn	4
the third stem of	4
vascular endothelial growth factor	4
the de novo initiation	4
unwinding activity of vp	4
end of the read	4
total rna was isolated	4
results indicate that a	4
is close to the	4
mapping cannot be found	4
the rna recognition motif	4
pro ribosomal frameshift signal	4
in the previous section	4
in gibbs free energy	4
and evolution of the	4
fs on the u	4
alignment with high accuracy	4
of the ncm group	4
rx or rb repeats	4
gln mcm s uug	4
the large number of	4
by gong and peersen	4
to the use of	4
of true and false	4
show that the ntd	4
the helix of the	4
coli dnax ribosomal frameshifting	4
were identified in the	4
the mechanical strength of	4
analysis of the stem	4
pathosystems resource integration center	4
emsa analysis of the	4
of fs m was	4
the presence of atp	4
required for escherichia coli	4
cov and s l	4
overexpression of sf asf	4
programmed ribosomal frameshifting the	4
gene expression and replication	4
were found to be	4
the maximum rate of	4
recoding in bacteriophages and	4
rna binding activity of	4
of a dna g	4
were prepared as described	4
were cloned into a	4
coronavirus genes and genomes	4
a greater number of	4
dnag is important for	4
part of the stem	4
control of gene expression	4
to be important for	4
the component of the	4
the frameshift stimulatory signal	4
is known about the	4
database of experimentally validated	4
by in vitro transcription	4
the ribosome is paused	4
secondary structure prediction and	4
see material and methods	4
the shift site and	4
prf activity of switch	4
critical reading of the	4
the protein data bank	4
affected by the elp	4
were added to the	4
referred to as the	4
frameshifting triplex structures in	4
frameshifting by antisense oligonucleotides	4
lysate was incubated with	4
denaturation at c for	4
the number of true	4
of the est mrna	4
of specific and non	4
leukemia virus type i	4
involved in rna metabolism	4
is due to the	4
a dual fluorescence reporter	4
and the position of	4
of a j mice	4
that sirt interacts with	4
b and b c	4
the relative expression levels	4
role of the downstream	4
local stability of the	4
differential melting curve analysis	4
de competent cells and	4
frequent presence of an	4
using t polynucleotide kinase	4
and trna glu mcm	4
carried out at room	4
purchased from new england	4
figure k and l	4
subunit of dna polymerase	4
of the infected cells	4
can be used for	4
as shown in figures	4
involved in ribosomal frameshifting	4
amount of fs m	4
it would be interesting	4
with a nt asymmetric	4
with high accuracy and	4
and functional analysis of	4
in the formation of	4
site trna is a	4
tested the ability of	4
primer extension activity of	4
the active site closure	4
templates for in vitro	4
with the number of	4
the utr of the	4
of sirna and silna	4
the downstream firefly luciferase	4
acting rna signals for	4
in the terminal loop	4
amplification in the presence	4
compared to the other	4
decrease in frameshift efficiency	4
dna polymerase iii holoenzyme	4
virus type ribosomal frameshifting	4
guide strand from the	4
of protein database search	4
value for each bar	4
rna signals for translational	4
the long terminal repeat	4
resulted in a reduction	4
both nsp and nsp	4
is not restricted to	4
as a potential target	4
in the form of	4
experiments were carried out	4
acts as a linchpin	4
active mechanisms to unwind	4
figure d and e	4
adjacent to the uga	4
frameshifting during translation of	4
s and c for	4
with increasing concentrations of	4
the degree of conservation	4
of the large subunit	4
sequence upstream of the	4
on the same genomes	4
freely available at http	4
the rt stop codon	4
frameshifting in decoding the	4
the uga codon of	4
in pol ii transcription	4
that is complementary to	4
a significant decrease in	4
gamma subunit of dna	4
are presented in figure	4
the first base of	4
is composed of an	4
only a subset of	4
is known to be	4
internal ribosome entry site	4
base following the stop	4
trna is a crucial	4
to the fact that	4
gapped blast and psi	4
at the national center	4
relative to that of	4
is thought to be	4
assay was performed as	4
treatment of duchenne muscular	4
high accuracy and high	4
available online at http	4
in histone h b	4
mutagenic analysis of the	4
and the role of	4
accuracy and high throughput	4
with the observation that	4
in the number of	4
generation of protein database	4
the base following the	4
ribosome aligning with xxy	4
was used as the	4
we find that positional	4
in the input set	4
added to the reaction	4
at the level of	4
an invariant sequence determinant	4
interference in mammalian cells	4
proteins were eluted with	4
mrna destabilizing elements through	4
activities of the wt	4
levels of frameshifting are	4
to the sukh superfamily	4
that the ability of	4
efficient stimulation of site	4
the integrity of the	4
b cell line daudi	4
that the l p	4
the innate immune response	4
the wobble position of	4
through the use of	4
as the only ntp	4
nucleotide sequence of the	4
novel application of srna	4
ns b and the	4
are given in table	4
shown that sirt is	4
a complete loss of	4
of fs m is	4
was carried out in	4
gels were dried and	4
az b and az	4
immunodeficiency virus type ribosomal	4
also been shown to	4
luciferase assay system for	4
is required for the	4
this work was supported	4
binding site for a	4
a high level of	4
the second type of	4
with the ese site	4
in coronavirus rna synthesis	4
type ribosomal frameshifting site	4
to a lesser extent	4
of the pip a	4
with severe acute respiratory	4
version of this article	4
the number of false	4
z and fs m	4
it was noted that	4
in comparison to the	4
possible explanation for this	4
the target gene and	4
nuclease toxins of the	4
would lead to a	4
has been implicated in	4
is an invariant sequence	4
is also supported by	4
translational frameshifting in the	4
for each bar is	4
the frequency of frameshifting	4
a new read segment	4
of rna polymerase ii	4
of pcaf in the	4
confirmed by dna sequencing	4
assay system for studying	4
to better understand the	4
and exogenous expression of	4
results suggest that the	4
mcm s uuu and	4
referred to as n	4
a heptamer supports a	4
fold higher than the	4
study of the effects	4
the number of unique	4
accepted to the a	4
formed by domains a	4
length dependence of programmed	4
with standard error of	4
the role of g	4
to in figure a	4
pseudoknot is required for	4
specific ribosome frameshifting by	4
escherichia coli dnax ribosomal	4
interaction with the exosome	4
in the first place	4
be found in the	4
prf occurs during translocation	4
bacteriophages and bacterial is	4
in the viral life	4
level of exon skipping	4
ribosomal frameshift in the	4
ribosomal frameshifting triplex structures	4
for studying translational recoding	4
hek t cells were	4
it has been hypothesized	4
of gaba a receptor	4
position of x residues	4
ii iii iv and	4
the only ntp substrates	4
invariant sequence determinant and	4
studying translational recoding in	4
d exd e motifs	4
a and supplementary figure	4
the mdx mouse model	4
intensity of fs product	4
in a manner that	4
of chemical probes for	4
on the same genome	4
our result showed that	4
using a cocktail of	4
binding mutant k a	4
proteolytic processing in the	4
of the in vitro	4
ribosomal frameshift signal in	4
is defined as the	4
the west nile virus	4
on the amount of	4
is a crucial initiator	4
can be explained by	4
the ncbi virus variation	4
the translation elongation cycle	4
as a proof of	4
with the hhpred program	4
programmed ribosomal frameshifting by	4
similar results were obtained	4
of the rna pseudoknot	4
the synthesis of the	4
sequences based on standardized	4
fs product intensity of	4
end of the mrna	4
nt upstream of the	4
b b and b	4
mouse hepatitis virus rna	4
mechanisms to unwind messenger	4
fs z and fs	4
was replaced by a	4
the csl exosome and	4
a d and i	4
cell growth and proliferation	4
used to identify the	4
were also used to	4
analyzed by primer extension	4
the kinase activity of	4
figure f and supplementary	4
a receptor subunit genes	4
the ncbi taxonomy database	4
probabilistic and signal processing	4
the mrna in the	4
in the production of	4
sequences listed in supplementary	4
new generation of protein	4
is present in the	4
of increasing concentrations of	4
of dna polymerase iii	4
of the sense strand	4
the first base pair	4
by western blot analysis	4
between the slippery site	4
activity of the g	4
the removal of the	4
were resolved by sds	4
be involved in the	4
samples were separated on	4
significant levels of frameshifting	4
expression levels of the	4
in figure a and	4
heterogeneous nuclear ribonucleoprotein a	4
were grown in sc	4
a function of the	4
the primers used for	4
rrna transcript by the	4
able to interact with	4
consistent with our previous	4
and is consistent with	4
to the shift site	4
of rna polymerase i	4
gov genome viruses variation	4
to the unmodified sirna	4
of the cleavage site	4
like to thank dr	4
to include more viruses	4
between in vitro and	4
represented by r t	4
these results demonstrate that	4
reading frame relative to	4
is supported by the	4
of two types of	4
a lack of correlation	4
cells were seeded in	4
has been suggested to	4
the lack of a	4
total rna was extracted	4
linked to the sukh	4
of the moloney murine	4
competent cells and grown	4
for escherichia coli dnax	4
reading frame of the	4
of s rrna and	4
can be seen in	4
extension activity of nsp	4
ncbi virus variation resource	4
international nucleotide sequence database	4
inhibitory activity of the	4
the possible role of	4
to unwind messenger rna	4
and incubated for h	4
copy number of a	4
c c of the	4
and bacterial is elements	4
ribosomal frameshifting characterization of	4
the predicted cleavage site	4
a correlation between the	4
selective amplification of the	4
system for studying translational	4
the comparative rna web	4
for the interaction with	4
luciferase bicistronic reporter system	4
consistent with previous studies	4
the role of sirt	4
at the frameshift site	4
on the ribosome are	4
and incubated for min	4
sirt is associated with	4
the promoter region of	4
did not change the	4
frameshifting in human immunodeficiency	4
presence of increasing amounts	4
presence of increasing concentrations	4
was observed with the	4
resolution structure of the	4
signals for translational frameshifting	4
of the x xx	4
recoding in the yeast	4
as part of the	4
tested the effect of	4
a component of the	4
as described in supplementary	4
firefly luciferase bicistronic reporter	4
pea enation mosaic virus	4
renilla firefly luciferase bicistronic	4
uses two active mechanisms	4
on the surface of	4
the native s rrna	4
the wt ns b	4
computational tools for the	4
on the slippery sequence	4
by the viral rdrp	4
ntd and the rdrp	4
ribosome uses two active	4
ns x denotes the	4
figure and supplementary data	4
amount of frameshifted ribosomes	4
the production of two	4
frame codons in the	4
rna was extracted from	4
a splicing regulatory protein	4
the csfv ns b	4
the part of the	4
values were determined by	4
the specific binding of	4
the average of the	4
two active mechanisms to	4
the structure of motif	4
in a volume of	4
frameshifting characterization of the	4
the interaction between pcaf	4
were translated in rrl	4
as a means to	4
in the s rrna	4
by one of the	4
that the expression of	4
transcription and translation reactions	4
dependent rna polymerase and	4
of a ribosomal frameshifting	4
abundance of the est	4
cells were grown overnight	4
we also show that	4
mrna helicase activity of	4
the digital array is	4
that most of the	4
over a wide range	4
when atp and utp	4
by sox in cells	4
analysis at single nucleotide	4
of the ntd and	4
effect by modification deficiency	4
length and truncated cd	4
of antisense morpholino oligomers	4
then used as the	4
bar is the mean	4
step at c for	4
w c p s	4
frameshifting by antisense lna	4
unwind messenger rna during	4
the same as the	4
the mrna and the	4
in lithium cacodylate buffer	4
from new england biolabs	4
interacts with the rdrp	4
the entrance of the	4
been found in the	4
are located in the	4
acylation analyzed by primer	4
in the elution fraction	4
between wild type and	4
in the central region	4
these results show that	4
terminal d exd e	4
dependent rna polymerase from	4
the a u a	4
for the discovery of	4
determinant and an important	4
cognate or near cognate	4
redundant sequence database of	4
the alternative splicing pattern	4
the use of g	4
these data support the	4
was referred to as	4
for each set of	4
the presence of mbp	4
the rate of a	4
indicates that the structure	4
in the supplementary materials	4
is not affected by	4
the international nucleotide sequence	4
independent experiments with standard	4
in a wild type	4
the moloney murine leukemia	4
were not present in	4
of the rna complex	4
reactions were carried out	4
resulted in a significant	4
in the nef coding	4
rna structure analysis at	4
for the binding to	4
has been proposed that	4
of the ternary complex	4
the s ribosomal subunit	4
r t is s	4
the mechanism by which	4
min at c and	4
out at room temperature	4
change in gibbs free	4
to be able to	4
of bovine viral diarrhea	4
for in vitro transcription	4
rna polymerase structural basis	4
splicing regulatory protein sf	4
mutational analysis of cis	4
neuronal cell line sk	4
in coding regions of	4
u mis assays were	4
in the reading frame	4
of viral g s	4
been shown to stimulate	4
the s and s	4
each of the three	4
national institute of allergy	4
a portion of the	4
the amount of frameshifted	4
all constructs were verified	4
in most of the	4
is predicted to be	4
aligning with xxy yyz	4
of the rna structure	4
stimulation of stop codon	4
the same sequence as	4
frameshifting on a u	4
s target genes in	4
of flock house virus	4
the mcm group of	4
reading of the manuscript	4
that there is no	4
it is believed that	4
binding to the exosome	4
following the stop codon	4
e and supplementary figure	4
have a role in	4
structure of the eukaryotic	4
the homomorphs of motifs	4
the rna binding activity	4
that the vast majority	4
in the second step	4
s and s ribosomal	4
at the slippery site	4
the p luc vector	4
are in agreement with	4
ribosomal frameshifting on a	4
with the end of	4
assays were performed with	4
was shown to be	4
ribosome frameshifting by antisense	4
structure of the hiv	4
crystal structures of the	4
the structure and function	4
gene and protein annotation	4
ucc uga shift site	4
to determine whether this	4
the molecular biology of	4
the main body of	4
see supplementary table online	4
cells and grown in	4
was carried out at	4
heptamer supports a role	4
of mutations in the	4
x denotes the orfs	4
structural probing and mutagenic	4
of trna lys mcm	4
yeast saccharomyces cerevisiae the	4
composition of frameshift products	4
through the nmd pathway	4
comparative mutational analysis of	4
and in the presence	4
mrna pseudoknot structures can	4
in light of the	4
proteins involved in rna	4
the b b and	4
k ay a mutant	4
in the course of	4
taq and t dnap	4
the gamma subunit of	4
through the interaction with	4
avian infectious bronchitis virus	4
the untranslated region of	4
results are consistent with	4
essential for the interaction	4
sequence alignment with high	4
after mutation of the	4
involvement of pcaf in	4
in both daudi and	4
the role of this	4
structure analysis at single	4
terminus of pip a	4
for s and c	4
loop required for escherichia	4
important for human immunodeficiency	4
an increase in fs	4
in binding of rna	4
figures a and a	4
be noted that the	4
cells were maintained in	4
level of sf asf	4
the progression of the	4
k ay a was	4
transcriptional quality control of	4
ribosomal frameshifting site is	4
barley yellow dwarf virus	4
find that positional clustering	4
in bacteria and archaea	4
to determine whether vp	4
the ribosome uses two	4
of the cpv capsid	4
cell death in yeast	4
immunodeficiency virus type and	4
target for antiviral therapy	4
rosetta de competent cells	4
to play a role	4
a component of a	4
experiments with standard error	4
in the elp mutant	4
that sirt is associated	4
a nt asymmetric bulge	4
the number of nucleotides	4
were harvested by centrifugation	4
site is an invariant	4
we found that a	4
the wall of the	4
at different time points	4
s and table s	4
presence of an extended	4
site of the ribosome	4
there appears to be	4
trna pro ncm ugg	4
r t and r	4
of the second pmo	4
supports a role for	4
as well as other	4
this is an open	4
the observation that the	4
probing and mutagenic analysis	4
main body of zbd	4
has been hypothesized that	4
singly conjugated pip a	4
frameshifting on viral rnas	3
of ribosomal pausing during	3
in the protein data	3
slippery site composition on	3
are separated by a	3
how to make sense	3
polyadenylation of the s	3
the length of each	3
is derived from the	3
we suggest that the	3
translocation to the p	3
at a frequency higher	3
h d class ii	3
hepatitis c virus infection	3
were grown overnight in	3
at a significant level	3
of coronavirus infectious bronchitis	3
of the s and	3
by centrifugation at r	3
the top of the	3
for the production of	3
polyprotein encoded by orf	3
decoding in cellular gene	3
frameshift in the human	3
were made on the	3
of the digital array	3
and proteolytic processing in	3
the original work is	3
is involved in the	3
readthrough of a uga	3
insertion and substitution events	3
position of the anticodon	3
involved in viral programmed	3
appears to be a	3
of the mrna and	3
to mg ml and	3
is based on a	3
sequences have been identified	3
site for a splicing	3
gene by ribosomal frameshifting	3
model has been proposed	3
transcripts by the exosome	3
completed with a final	3
frameshift efficiency and the	3
of sox bound to	3
was analyzed as described	3
motif c precedes motif	3
examples of frameshifter hairpins	3
in a single transcript	3
from a single polycistronic	3
attenuation structure for sg	3
as a consequence of	3
role of the rna	3
nt of the uga	3
distributed under the terms	3
it is plausible that	3
it will be interesting	3
q and y f	3
are one of the	3
structure of the ebov	3
of recombination events in	3
unique cluster of g	3
with two tm segments	3
the root of the	3
determined by taking the	3
in cultured mammalian cells	3
two macrodomains that bind	3
function analysis of the	3
interactions in plant virus	3
dmd and acvr b	3
and firefly luciferase genes	3
the ability of this	3
the stop codon in	3
figures c and d	3
rrna by the exosome	3
studies have focused on	3
incomplete translocation in pathway	3
for yeast m double	3
which are likely to	3
present in each product	3
agg cca ggg aat	3
conserved features of genome	3
has been studied extensively	3
associated with severe acute	3
by their ability to	3
the role of wobble	3
different groups of coronaviruses	3
products analysed and quantified	3
a frequency higher than	3
reading the slippery codon	3
is available at nar	3
at the entrance of	3
were purchased from sigma	3
is independent of the	3
by the archaeal exosome	3
extension at c for	3
on taxonomy of viruses	3
the involvement of pcaf	3
the stop codon on	3
the presence of both	3
the most frequently recurring	3
were used as templates	3
sarcoma virus pol gene	3
of herpes simplex virus	3
peptides experimentally tested for	3
tcc tac aag gga	3
to the ntc or	3
washed with ml of	3
k ay a protein	3
be used as an	3
a template for the	3
a stop codon in	3
of the target gene	3
proteins encoded by orfs	3
calculated by dividing the	3
the genome sequence of	3
to a single cpp	3
base pairs in the	3
the most efficient motifs	3
investigated in a wild	3
in the supplementary data	3
and mechanism a mechanical	3
in the p site	3
is induced by a	3
and the antisense primer	3
reduction between and of	3
involved in the regulation	3
addition of serum to	3
of a recombination junction	3
frameshifting are frequent in	3
the sukh superfamily gene	3
ttt tta ggg aag	3
be used to reduce	3
site trna ggg pro	3
downstream of the motif	3
data are consistent with	3
component of a larger	3
to premature termination codons	3
ctt gga taa ag	3
the digital pcr analysis	3
of the barley yellow	3
and compared to the	3
the wt and mutant	3
by imagequant tl software	3
with a mixture of	3
rna was extracted with	3
at the first position	3
ltr g complex bands	3
we demonstrated that the	3
phosphorylated ends of rna	3
proper reading frame maintenance	3
interaction essential for efficient	3
heptanucleotide sequence x xxy	3
expression of cd in	3
sequence identity of the	3
the structure and dynamics	3
a mismatch is found	3
ribosomal frameshifting in coronavirus	3
and c bl j	3
group of the mcm	3
a reduction between and	3
a uga stop codon	3
ribosomal frameshifting for human	3
of a series of	3
is the value of	3
as well as for	3
in the polyprotein encoded	3
or rtsl rna samples	3
the prediction of peptides	3
of the protein in	3
physicochemical properties and predicted	3
wt ns b and	3
in the toprim domain	3
play a critical role	3
nucleic acid folding and	3
from two independent experiments	3
products of human t	3
sequences in saccharomyces cerevisiae	3
dependent activation of the	3
remains identical to the	3
quadruplexes in the human	3
genome and proteome of	3
destabilizing elements through at	3
its entirety but only	3
the central region of	3
structure of the pseudoknot	3
h o and menadione	3
that the specific binding	3
of a small molecule	3
presence of mbp alone	3
and quantified by imagequant	3
media supplemented with kanamycin	3
part or as a	3
were determined by a	3
identification of a new	3
and end of the	3
a significant fraction of	3
schematic representation of the	3
out as previously described	3
binds to the ese	3
number of recombination events	3
the hcv ns b	3
western blot analysis with	3
were separated on a	3
least two molecular pathways	3
under the terms of	3
ltr promoter activity was	3
wobble uridine modifications in	3
a single copy gene	3
derive from ribosomal frameshifting	3
base pairs at the	3
terminal domain of the	3
proteins have been identified	3
a j and c	3
ncbi viral genomes resource	3
analysis of bicistronic reporter	3
as well as with	3
grown for h at	3
positions with real mutations	3
the alternative splicing construct	3
by the wellcome trust	3
effects of heptameric slippery	3
of sars coronavirus contains	3
page for retrieval of	3
and merged bloom filter	3
a complete set of	3
the relationship between the	3
compared to the wild	3
using the blastclust program	3
aag atc tgg cct	3
is encoded by the	3
sars coronavirus genome expression	3
and the requirement of	3
data support the notion	3
to daudi or sk	3
codon at a time	3
results indicate that the	3
three transfer rnas occupying	3
of comparative sequence and	3
pathway ii when r	3
end of the oligonucleotide	3
ability of the sukh	3
the mechanism of frameshifting	3
efficiency was calculated by	3
cell lysates prepared from	3
rnas derived from nco	3
the regulation of the	3
that a downstream pseudoknot	3
the affinity of the	3
immunodeficiency virus type particle	3
specificity of the interaction	3
u containing trna gly	3
prediction of peptides binding	3
is crucial for the	3
mm mn was supplemented	3
destabilizes rna helices and	3
were separated by sds	3
the intensity of the	3
our in vitro assay	3
did not result in	3
first base of the	3
as an anchor for	3
may arise from a	3
shift site and the	3
in which the first	3
signal beginning at nucleotide	3
in the analysis of	3
set of rna samples	3
increase in fs exp	3
of sf asf increased	3
as the number of	3
of sf asf was	3
using the primers listed	3
the modified wobble nucleoside	3
in both bacteria and	3
a pt in the	3
unable to form the	3
containing trna gly mcm	3
pluc cells were treated	3
we decided to use	3
ii iii iv g	3
two molecular pathways in	3
from ft cells transfected	3
significant fraction of the	3
in vitro transcribed s	3
the p and a	3
a common feature of	3
beet western yellows virus	3
the core of the	3
structure of the nsp	3
the genome of saccharomyces	3
compared to wild type	3
of rna secondary structure	3
effectively substitute for an	3
between the end of	3
repeated at least three	3
the binding to the	3
cca ggg aat ttt	3
for rna quality assessment	3
of the frameshift motif	3
structure of a ribosomal	3
west nile and japanese	3
blot analysis of the	3
importance of ribosomal frameshifting	3
this study was to	3
beet western yellows luteovirus	3
of the rous sarcoma	3
for min and the	3
step in the synthesis	3
secondary structure in the	3
cells were cultured in	3
for rapid mutation scanning	3
genome sequence of the	3
of the conserved heptameric	3
number of probes required	3
a highly structured rna	3
expression of two isoforms	3
methyl group of the	3
is stimulated by a	3
the rate of translation	3
were no significant differences	3
site effect by modification	3
sequences that direct significant	3
a possible explanation for	3
and utp were supplied	3
the ntd is a	3
at the position of	3
uptake by the target	3
cdk and cyclin t	3
mechanisms and enzymes involved	3
hepatitis c virus internal	3
nucleotide sequence database collaboration	3
the ntd and ctd	3
bloom filter for the	3
table and supplementary table	3
rna binding by epstein	3
as well as to	3
integrate results from multiple	3
and then treated with	3
structure information for ribosomal	3
in sequence and structure	3
original work is properly	3
was determined to be	3
as the search model	3
by the amount of	3
molecular pathways in yeast	3
which permits unrestricted non	3
as a derivative work	3
copolymerization of pyrrole and	3
the catalytic subunit of	3
in the escherichia coli	3
have been described earlier	3
end of the sense	3
as a linchpin that	3
of the homomorph and	3
of sequences based on	3
occurs on the phosphate	3
a slight increase in	3
directly involved in the	3
to be encoded by	3
the center of the	3
of the hairpin stem	3
able to distinguish the	3
in the translation of	3
a direct role in	3
the u region of	3
the ribosome characterization of	3
dna replication and metaphase	3
able to trigger ifn	3
d r t is	3
clinically relevant concentrations of	3
in siv is induced	3
interactions between the ntd	3
annotation of recoded genes	3
access article distributed under	3
to the reference sample	3
rous sarcoma virus gag	3
was not present in	3
the mouse hepatitis virus	3
differentiate specific and non	3
mechanism a mechanical explanation	3
of this domain in	3
be interesting to see	3
the rna signal essential	3
is supported by a	3
highly structured rna stem	3
in the zero frame	3
from the sk snrnp	3
a possible role in	3
the frameshift signal of	3
tension in the mrna	3
y can be a	3
may provide insight into	3
direct evidence for a	3
suppresses the innate immune	3
of frameshifting are frequent	3
to investigate the role	3
a vital role in	3
structure and mechanism a	3
and may also be	3
between the slippery sequence	3
that the specificity of	3
error rate of virema	3
helicases and nucleic acid	3
translational termination efficiency in	3
by the degradometer software	3
cells transfected with the	3
h d class i	3
which correspond to the	3
of mouse hepatitis virus	3
conjugation of the second	3
by the rotavirus classification	3
crystal structure of sox	3
is referred to as	3
induced by a highly	3
rotavirus classification working group	3
at the expense of	3
northern blot signal intensity	3
cyclin t from the	3
analysis was performed on	3
the stronger the pseudoknot	3
the northern blot signal	3
of the ring module	3
frameshifting among different eukaryotic	3
rna pseudoknot component of	3
of the rna signal	3
of the location of	3
of heptameric slippery site	3
number of occurrences of	3
from an h promoter	3
of the nature of	3
in t rna polymerase	3
cell and in vivo	3
signals for ribosomal frameshifting	3
site and the beginning	3
firefly and renilla luciferase	3
the coronavirus group lineage	3
shift in reading frame	3
the tree of life	3
reading frame due to	3
for min in the	3
incidence of false positives	3
across the randomized nrmegs	3
and quantified using a	3
that it might be	3
a viral rna pseudoknot	3
the ctd of dnag	3
function as mrna destabilizing	3
pcr reactions were performed	3
to exclude the possibility	3
grown to early exponential	3
is completely conserved in	3
from the slippery site	3
as suggested by the	3
absence of the s	3
the rna secondary structure	3
in a trm mutant	3
the stop codon and	3
at the top of	3
between pcaf and xbp	3
the positive predictive value	3
are characterized by a	3
role of wobble uridine	3
results from multiple sampling	3
number of the gene	3
sequences have been found	3
the mcm s u	3
in the most conserved	3
is likely to have	3
a role for g	3
was measured using a	3
alignment and tree building	3
by rna polymerase ii	3
s and s rrna	3
end of the pip	3
the ncbi influenza virus	3
subtilis detection capture probe	3
virus internal ribosome entry	3
site effect caused by	3
recent crystal structure of	3
is part of the	3
is not included in	3
of the nuclease domain	3
creative commons attribution non	3
base of the motif	3
or between experimental runs	3
that were used as	3
using a typhoon variable	3
ribosomal pausing during programmed	3
messenger rnas derived from	3
of the codon context	3
structural basis for proteolysis	3
the amount of protein	3
which is known to	3
use a combination of	3
stained with ethidium bromide	3
extraction and ethanol precipitation	3
with fetal calf serum	3
that of the wt	3
signal with the ribosome	3
of group a coronaviruses	3
ribosome are involved in	3
subsequently reproduced or disseminated	3
the absence of added	3
sensitivity and error rate	3
the ese site deleted	3
of the frameshift signal	3
in the relative expression	3
a combinatorial rnai approach	3
efficiency measured for each	3
systematic analysis of bicistronic	3
bacterial insertion sequence is	3
of the rease fold	3
pol ii phosphorylated at	3
uga codon of the	3
been deposited in the	3
into the final assay	3
in the past few	3
a comprehensive analysis of	3
in the mrna and	3
strength of a pseudoknot	3
by antonov et al	3
s and s rrnas	3
the renilla and firefly	3
exposed to a phosphorimager	3
ns b and its	3
a and p sites	3
because they are not	3
activation of the poliovirus	3
described in supplementary figure	3
among different eukaryotic systems	3
at the wall of	3
in viral replication and	3
the illumina miseq platform	3
nmr structure of the	3
number of leading zeros	3
is also involved in	3
quadruplex rna binding by	3
of viral rna genomes	3
antigen in dna replication	3
due to the use	3
sufficient to trigger ifn	3
this observation is that	3
and reproduction in any	3
total rna extracted from	3
are known to be	3
downstream mrna secondary structure	3
transformation of intact yeast	3
and error rate of	3
heptameric slippery site composition	3
stem of the sars	3
ay a protein was	3
od and grown overnight	3
virus gene expression and	3
a wild type and	3
region regulates the hiv	3
mechanism to integrate results	3
the stalling of the	3
the sensitivity and error	3
were subjected to a	3
the sukh superfamily that	3
a u a heptamer	3
b expressed from an	3
is located near the	3
were used as positive	3
pluc cells were seeded	3
in veev and sinv	3
we hypothesize that the	3
in rrl and products	3
and e sites on	3
sars coronavirus contains two	3
comes from pathway iii	3
result is consistent with	3
variability at synonymous sites	3
below the relevant lanes	3
and the fitness of	3
of the amino acid	3
determine the level of	3
in a significant decrease	3
sequence was changed to	3
frameshifting is stimulated by	3
to in figure c	3
the slippery codon ggg	3
of the motif is	3
it was suggested that	3
u a heptamer supports	3
at least in vitro	3
products were analyzed using	3
of the pseudoknot to	3
ribosomes to premature termination	3
in its entirety but	3
the beads were washed	3
cysteines of the treble	3
a derivative work this	3
mutation or deletion of	3
of methionines present in	3
the background of the	3
revealed that the ntd	3
of cdk cyclin t	3
systems such as the	3
clinical sensitivity and specificity	3
the renilla firefly luciferase	3
cells were seeded h	3
quantified by imagequant tl	3
in the family reoviridae	3
interesting to note that	3
for nmr studies of	3
the ucc uga shift	3
formation of a unique	3
structure of motif c	3
enhanced synonymous site conservation	3
significantly higher levels of	3
in upf d cells	3
of the human cd	3
a role for messenger	3
were calculated for each	3
to trigger ifn induction	3
a linear relationship between	3
posttranscriptional quality control of	3
the structure of a	3
were used for each	3
identical to the ntc	3
database of comparative sequence	3
beet necrotic yellow vein	3
the ncm group in	3
acid folding and hybridization	3
biotinylated thymidine in the	3
to activate ifn production	3
in out of the	3
can be observed in	3
number of unique k	3
the beginning of a	3
and g w mutant	3
digital pcr analysis software	3
in the input sets	3
illustrated in figure b	3
be caused by the	3
u containing trna pro	3
volume of ml in	3
time pcr reaction was	3
server for nucleic acid	3
is important for human	3
reproduction in any medium	3
of the archaeal exosome	3
the s rrna degradation	3
a slow entry of	3
reading frame maintenance is	3
an rna pseudoknot loop	3
vp in the standard	3
from hek t cells	3
increased expression of sf	3
pelleted by centrifugation at	3
were not able to	3
encountered by the ribosome	3
the serum concentration increased	3
ribosomal frameshifting solution structure	3
to the lack of	3
the use of different	3
replaced by an rna	3
a small set of	3
acids secondary structures that	3
the balb c mouse	3
the expression of xbp	3
bands were quantified using	3
a heptanucleotide slippery sequence	3
from c to c	3
the rna pseudoknot component	3
hrm is not incorporated	3
a t m of	3
on bip and chop	3
of rna by parp	3
used as a control	3
human b cell lines	3
pcr and quantitative chip	3
at room temperature in	3
we show that in	3
have revealed that the	3
of s rrna by	3
pk and theophylline aptamer	3
the transfected cells and	3
is likely due to	3
a linchpin that stabilizes	3
that antisense oligonucleotides can	3
translational accuracy and the	3
figures a and b	3
rna polymerase structure of	3
was performed using a	3
insights into the mechanism	3
of the toprim domain	3
genomes and their genes	3
of cp l template	3
proximal to the quencher	3
a central role in	3
absence of a control	3
for comparative genome analysis	3
s ribosomal rna bands	3
from the coronavirus group	3
association of sirt with	3
ncm u containing trna	3
was transformed into rosetta	3
d r t and	3
is indicated below the	3
rna in caenorhabditis elegans	3
the observation in the	3
particle assembly and replication	3
final extension step at	3
an alternative reading frame	3
were grown for h	3
instead of a cognate	3
encephalitis flaviviruses suggests ns	3
e ldr and acde	3
using the same primers	3
amino acid sequence of	3
expression of the rous	3
ribosomal frameshifting efficiency and	3
through the addition of	3
the relative amount of	3
interactions with the rdrp	3
pt in the kinetic	3
of the trnas in	3
pol gene products of	3
use of g ligands	3
is a prerequisite for	3
of annotated coronavirus genes	3
due to the fact	3
of the arterivirus helicase	3
by the target cell	3
the two components of	3
as the serum concentration	3
encoded by orf ab	3
heater and temperature sensor	3
for the treatment of	3
whether the presence of	3
of the bacterial ribosome	3
and specific genetic interference	3
a role in regulating	3
knockdown of sf asf	3
higher level of misincorporation	3
type rna dimerization and	3
with the formation of	3
article is subsequently reproduced	3
in combination with a	3
are amino acids long	3
online database of comparative	3
form a new segment	3
article distributed under the	3
essential for translational frameshifting	3
the and ends of	3
distinguished from the wild	3