trigram

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

trigram	frequency
supplementary figure s	249
the presence of	240
as well as	142
in the presence	135
the number of	114
structure of the	102
human immunodeficiency virus	91
end of the	89
shown in figure	86
supplementary table s	84
of the rna	83
a and b	82
the role of	81
one of the	79
analysis of the	79
figure a and	73
the absence of	66
c for min	66
based on the	65
data not shown	65
in addition to	64
the use of	63
in this study	63
due to the	63
nucleic acids res	62
acids res doi	62
in order to	62
in the absence	61
of the protein	58
downstream of the	57
immunodeficiency virus type	57
the end of	56
as shown in	55
the amount of	54
dependent rna polymerase	52
hepatitis c virus	52
programmed ribosomal frameshifting	52
can be used	50
and supplementary figure	50
in the human	50
at c for	50
was used to	50
of the two	48
acute respiratory syndrome	47
severe acute respiratory	47
is required for	47
activity of the	47
figure s a	47
in figure a	47
on the other	47
crystal structure of	46
b and c	46
the effect of	46
compared to the	46
the ability of	46
such as the	45
figure b and	45
the efficiency of	45
according to the	45
the other hand	44
consistent with the	44
it has been	44
used as a	44
a set of	44
of the stem	44
the majority of	43
the human genome	43
present in the	43
a number of	43
of the s	42
as previously described	42
stability of the	42
been shown to	42
the stop codon	42
the structure of	42
ribosomal frameshifting in	41
of ribosomal frameshifting	41
the sukh superfamily	40
of the p	40
be used to	40
that of the	40
we found that	40
each of the	40
the expression of	40
the s rrna	39
of the ribosome	39
expression of the	39
part of the	39
in supplementary table	39
at room temperature	38
characterization of the	38
nucleic acids research	37
region of the	37
is consistent with	37
was added to	37
of the human	37
conflict of interest	37
the formation of	37
for h at	37
g s in	37
was used as	37
was carried out	37
of interest statement	37
at nar online	36
the ability to	36
available at nar	36
role of the	36
a role in	36
the importance of	36
the slippery sequence	35
observed in the	35
in the case	35
for min at	35
the development of	35
that can be	34
the case of	34
upstream of the	34
a variety of	34
of the homomorph	34
at the end	34
are available at	34
the context of	33
similar to the	33
s and s	33
supplementary data are	33
data are available	33
in which the	33
of g s	33
has been shown	33
there is a	33
of the sukh	32
the addition of	32
in vitro and	32
to determine the	32
surface of the	32
figure s b	32
as described previously	32
an rna pseudoknot	31
of the hiv	31
of the frameshift	31
suggest that the	31
a series of	31
were used to	31
c for s	31
position of the	31
of the viral	31
added to the	30
a subset of	30
figure c and	30
of sf asf	30
of the genome	30
the size of	30
the activity of	29
structural basis for	29
the human immunodeficiency	29
were carried out	29
in the context	29
rna secondary structure	29
is important for	29
the slippery site	28
the fact that	28
d r t	28
found in the	28
pan et al	28
resulted in a	28
the level of	28
presence of a	28
in figure b	28
of fs m	28
the length of	28
in the same	28
specific and non	28
of the same	28
binding to the	28
a and a	27
in contrast to	27
it is possible	27
respiratory syndrome coronavirus	27
the ratio of	27
was found to	27
to that of	27
by the exosome	27
size of the	27
found to be	27
the effects of	26
unfolded protein response	26
followed by a	26
the detection of	26
and characterization of	26
have shown that	26
mutations in the	26
of the motif	26
in response to	26
levels of frameshifting	26
corresponding to the	26
the position of	26
d and d	26
formation of the	26
the mechanism of	25
reading frame maintenance	25
thermo fisher scientific	25
the production of	25
in escherichia coli	25
of the first	25
we show that	25
showed that the	25
function of the	25
the stability of	25
c and d	25
of the mrna	25
regions of the	24
the identification of	24
are shown in	24
the interaction between	24
of an rna	24
the sequences of	24
was incubated with	24
structure of a	24
a function of	24
relative to the	24
as a result	24
derived from the	24
involved in the	24
for min and	24
infectious bronchitis virus	23
materials and methods	23
the interaction of	23
and function of	23
to determine whether	23
in agreement with	23
in the a	23
in the first	23
of the pseudoknot	23
virus variation resource	23
use of a	23
we observed that	23
the fraction of	23
to assess the	23
between the two	23
in mammalian cells	23
mutational analysis of	22
the synthesis of	22
open reading frame	22
frameshifting in the	22
presence of the	22
sequence of the	22
in the p	22
performed as described	22
min at c	22
insights into the	22
well as the	22
of the n	22
of nucleic acids	22
the frameshift site	22
the digital array	22
of the wt	22
were incubated with	22
k ay a	22
were used for	22
is involved in	22
the csl exosome	22
some of the	22
as a function	22
we sought to	21
figure e and	21
assays were performed	21
of the most	21
of the sars	21
shown to be	21
to be a	21
as described in	21
referred to as	21
most of the	21
base of the	21
located in the	21
the viral genome	21
members of the	21
in saccharomyces cerevisiae	21
when compared to	21
suggests that the	21
a negative control	21
results showed that	21
identified in the	21
a role for	21
ribosomal frameshifting signal	21
amino acid sequence	21
used in the	21
the reading frame	21
the results of	21
depending on the	21
suggesting that the	20
be due to	20
activity of vp	20
can also be	20
were able to	20
is shown in	20
and in vivo	20
identification of a	20
length of the	20
are involved in	20
polymerase chain reaction	20
ribosomal protein l	20
close to the	20
there is no	20
the concentration of	20
appears to be	20
revealed that the	20
the function of	20
data indicate that	20
copy number of	20
mediated isothermal amplification	20
in the mrna	20
the existence of	20
were found to	20
a total of	20
and in the	20
carried out in	20
was performed using	20
to interact with	20
of human immunodeficiency	20
the shift site	20
in the cytoplasm	19
than that of	19
of the target	19
of nucleic acid	19
nsp and nsp	19
effect on the	19
the u a	19
in the hiv	19
figure s c	19
of viral proteins	19
are listed in	19
responsible for the	19
supplementary figures s	19
codon in the	19
large number of	19
the frequency of	19
interacts with the	19
were treated with	19
included in the	19
to identify the	19
a u a	19
rna and dna	19
specific amplification events	19
the rate of	19
listed in supplementary	19
a wide range	19
coronavirus ribosomal frameshifting	19
the discovery of	19
has been reported	19
of the slippery	19
final concentration of	19
stop codon readthrough	19
we observed a	19
interact with the	19
mm hepes ph	19
secondary structure of	19
of the wild	19
c and c	18
of the non	18
of the hairpin	18
abundance of the	18
were determined by	18
were purchased from	18
wide range of	18
in the cell	18
g s are	18
the specificity of	18
of s rrna	18
an important role	18
used in this	18
were transfected with	18
a combination of	18
to this end	18
formation of a	18
the wt and	18
the base of	18
of gene expression	18
of the three	18
addition to the	18
the in vitro	18
the uga codon	18
rna polymerase ii	18
room temperature for	18
e and f	18
structures in the	18
were performed as	18
structures of the	18
residues in the	18
play a role	18
as a negative	18
show that the	18
identity of the	18
of the stop	18
all of the	18
which is a	18
were used as	18
were obtained from	18
the firefly luciferase	18
the influence of	18
the virus variation	18
the possibility that	18
side of the	17
at least one	17
indicating that the	17
the exterior surface	17
activation of the	17
absence of the	17
mcm s u	17
bip and chop	17
of a coronavirus	17
of escherichia coli	17
adjacent to the	17
to improve the	17
frameshifting in hiv	17
is composed of	17
cells were treated	17
have been identified	17
in a single	17
in the sample	17
is one of	17
with or without	17
s in the	17
cells treated with	17
we find that	17
of the full	17
the sars coronavirus	17
t m non	17
in this case	17
mutation of the	17
by addition of	17
this suggests that	17
effect of the	17
thermodynamic stability of	17
context of the	17
in terms of	17
synthesis of the	17
specificity of the	17
west nile virus	17
component of a	17
the interaction with	17
the a site	17
the impact of	17
of the ese	17
segment of the	17
vitro and in	17
is possible that	17
the distribution of	16
results indicate that	16
the l p	16
as described above	16
is essential for	16
buffer containing mm	16
cells were transfected	16
the frameshift efficiency	16
the de novo	16
is based on	16
binds to the	16
the surface of	16
the open access	16
the combination of	16
the cells were	16
is responsible for	16
to the p	16
of the a	16
is able to	16
in cell culture	16
results in a	16
polyacrylamide gel electrophoresis	16
incubated at c	16
for the interaction	16
in reading frame	16
of the nsp	16
of the ebov	16
in vitro transcription	16
the t m	16
structure and function	16
nt in length	16
changes in the	16
to test whether	16
of the g	16
in the spacer	16
of rna pseudoknot	16
version of the	16
using the same	16
majority of the	16
multiple sequence alignment	16
note that the	16
could not be	16
is that the	16
in figure c	16
sequences in the	16
sequences of the	16
in the s	16
the levels of	15
it appears that	15
to the reference	15
that the ntd	15
of the gag	15
have been shown	15
the unfolded protein	15
in the database	15
have also been	15
exterior surface of	15
of the ntd	15
were cloned into	15
comparison of the	15
interaction with the	15
the active site	15
translational frameshifting in	15
described in the	15
increasing concentrations of	15
of saccharomyces cerevisiae	15
melting curve analysis	15
we conclude that	15
the template tunnel	15
ii iii iv	15
and can be	15
member of the	15
on the mrna	15
trna in the	15
the secondary structure	15
was determined by	15
the ltr promoter	15
together with the	15
replication and transcription	15
carried out using	15
national center for	15
a lack of	15
the observation that	15
the involvement of	15
the ntd of	15
activity of nsp	15
identification of the	15
result in a	15
of the mcm	15
dna and rna	15
the identity of	15
associated with the	15
a result of	15
duchenne muscular dystrophy	15
is known to	15
are known to	15
as determined by	15
out of the	15
are consistent with	15
was provided by	15
it is not	15
the binding of	15
importance of the	15
role in the	15
of the sequence	15
specific amplification in	15
component of the	14
presence or absence	14
one or more	14
has not been	14
due to a	14
previous studies have	14
or absence of	14
we were able	14
a coronavirus ribosomal	14
at the exterior	14
determined by the	14
was performed with	14
of the gene	14
center for biotechnology	14
clef zinc finger	14
funding to pay	14
detected in the	14
results suggest that	14
two types of	14
u mis assays	14
pay the open	14
indicate that the	14
the bloom filter	14
are required for	14
of the large	14
contrast to the	14
the regulation of	14
interactions between the	14
murine leukemia virus	14
a large number	14
indicated that the	14
important role in	14
s a and	14
in the literature	14
lys mcm s	14
a slippery sequence	14
r r correspondence	14
identical to the	14
sequence and structure	14
degradation of the	14
interactions with the	14
mcm s uuu	14
stop codon in	14
as described earlier	14
on the same	14
ranging from to	14
a final concentration	14
of the bacterial	14
as a template	14
sg mrna transcription	14
from a single	14
in the yeast	14
rna secondary structures	14
for an rna	14
strand rna viruses	14
because of the	14
open access publication	14
the sequence of	14
the analysis of	14
csfv ns b	14
for a given	14
western blot analysis	14
incubated for min	14
fraction of fs	14
total rna was	14
were used in	14
to investigate the	14
in both the	14
trna lys mcm	14
were grown in	14
in frameshift efficiency	14
hek t cells	14
is important to	14
ratio of the	14
shown in supplementary	14
to pay the	14
u a u	14
with ml of	14
viral g s	14
their ability to	14
a decrease in	14
of hepatitis c	14
the replication of	14
locked nucleic acid	14
high levels of	14
we have developed	14
nature of the	14
a j mice	14
and stored at	14
to form a	14
the presence or	13
the possibility of	13
was performed by	13
it can be	13
to the a	13
were subjected to	13
found that the	13
of pip a	13
of the e	13
volume of ml	13
charges for this	13
to have been	13
that in the	13
rna chaperone activity	13
used as the	13
be used as	13
at synonymous sites	13
was shown to	13
data suggest that	13
differences in the	13
the toprim domain	13
for this article	13
the archaeal exosome	13
herpes simplex virus	13
at the c	13
destabilizing activity of	13
at c and	13
resulting in a	13
influenza a virus	13
ese in exon	13
was performed as	13
the reference genome	13
it would be	13
to study the	13
for biotechnology information	13
of protein synthesis	13
indicates that the	13
of the database	13
listed in table	13
remains to be	13
is used to	13
the homomorph is	13
the rna polymerase	13
was observed in	13
provided by the	13
increase in the	13
in the viral	13
was performed in	13
that there is	13
required for efficient	13
are likely to	13
quality control of	13
table and supplementary	13
the nature of	13
in the genome	13
and supplementary table	13
related to the	13
the a u	13
the range of	13
viral replication and	13
of sars coronavirus	13
access publication charges	13
a and c	13
a mixture of	13
were synthesized by	13
during translation of	13
total number of	13
we propose that	13
u a heptamer	13
of a novel	13
h at c	13
t rna polymerase	13
of rna pseudoknots	13
in exon of	13
of chemical probes	13
studies have shown	13
presence of template	13
publication charges for	13
programmed translational frameshifting	13
is present in	13
our understanding of	13
of the sirna	13
caused by the	13
shown that the	13
for s and	13
its ability to	13
were performed using	13
acts as a	13
transfected with a	12
a stop codon	12
c for h	12
with the same	12
in the past	12
used to identify	12
linked to the	12
was used in	12
cell leukemia virus	12
firefly luciferase gene	12
have the same	12
the hepatitis c	12
of the c	12
the ese in	12
gene and protein	12
mechanism of action	12
need to be	12
of the downstream	12
the target cell	12
were incubated at	12
the first step	12
the cyp d	12
we demonstrate that	12
it is likely	12
identification and characterization	12
more than one	12
in the final	12
that sirt is	12
exogenous expression of	12
of the uga	12
yeast saccharomyces cerevisiae	12
used for the	12
cyp d gene	12
led to a	12
we note that	12
this article was	12
are important for	12
some of these	12
cells were seeded	12
elements in the	12
portion of the	12
the final assay	12
role for the	12
whom correspondence should	12
of the virus	12
decrease in the	12
see also supplementary	12
observed that the	12
article was provided	12
conformation of the	12
the ntd and	12
the lack of	12
is highly conserved	12
the terminal loop	12
was used for	12
the highly conserved	12
solution structure of	12
ability of the	12
and analysis of	12
is mediated by	12
orta et al	12
by the presence	12
the total number	12
the mrna and	12
at least in	12
ifn induction by	12
these data indicate	12
pred balb c	12
features of the	12
inhibition of the	12
in most cases	12
to whom correspondence	12
is associated with	12
cells transfected with	12
the removal of	12
inhibition of hiv	12
to address this	12
the predicted stem	12
luciferase assay system	12
of sg mrna	12
observed with the	12
the study of	12
in human cells	12
site of the	12
has been proposed	12
leukemia virus type	12
of figure a	12
would like to	12
terminal loop of	12
the beginning of	12
of g ligands	12
cells were grown	12
depends on the	12
should be addressed	12
t m of	12
we have shown	12
appear to have	12
ml of the	12
amplification in the	12
of viral rna	12
affected by the	12
the hypothesis that	12
the cleavage site	12
binding of the	12
interaction of the	12
was able to	12
presence of g	12
of the exosome	12
genes in the	12
the control of	12
correspondence should be	12
lack of the	12
of the shift	12
of fs z	12
the lacz gene	12
the antisense strand	12
demonstrated that the	12
the amino acid	12
the as rs	12
site and the	12
terminal segment of	12
that have been	12
location of the	11
in this work	11
at least three	11
it is important	11
in vitro translation	11
is supported by	11
residues of the	11
or in the	11
of the primers	11
figure s e	11
the ribosomal a	11
of the corresponding	11
we used the	11
stem of the	11
were analyzed by	11
was confirmed by	11
may play a	11
the degradometer software	11
long terminal repeat	11
required for the	11
by western blotting	11
performed using the	11
our results showed	11
have been used	11
an increase in	11
system for studying	11
de novo initiation	11
amino acid residues	11
ribosomal frameshifting by	11
pcr products were	11
the crystal structure	11
open reading frames	11
dependent rna polymerases	11
have developed a	11
in complex with	11
of the original	11
and the c	11
and evolution of	11
the degradation of	11
was performed on	11
by the viral	11
at the base	11
encoded by the	11
is likely to	11
supplementary tables s	11
of the mirna	11
of messenger rna	11
have been found	11
study of the	11
in figure d	11
treated with mm	11
could be used	11
was purchased from	11
the process of	11
synonymous site conservation	11
with the exosome	11
correlation between the	11
expression levels of	11
coronavirus infectious bronchitis	11
of the ribosomal	11
higher than the	11
extracted from the	11
but not the	11
ribosomal pausing during	11
allowed us to	11
complementary to the	11
the large subunit	11
figure d and	11
of the x	11
quadruplex structures in	11
the ribosome to	11
essential for the	11
structure and mechanism	11
plays an important	11
figure and supplementary	11
is in the	11
active site closure	11
small interfering rna	11
s target genes	11
the rna binding	11
efficiency of the	11
r t and	11
in tissue culture	11
we used a	11
rna was extracted	11
of the conserved	11
located at the	11
be involved in	11
in supplementary figure	11
the binding site	11
are able to	11
mhc class i	11
uga stop codon	11
have been described	11
codons in the	11
of a single	11
is predicted to	11
to the s	11
sequence and the	11
in recent years	11
is similar to	11
mouse hepatitis virus	11
of the coronavirus	11
part of a	11
two or more	11
for the detection	11
slippery sequence and	11
of the rdrp	11
is critical for	11
been reported to	11
can be found	11
in the vicinity	11
of the yeast	11
the location of	11
observations suggest that	11
in the ntc	11
similar to that	11
likely to be	10
we reasoned that	10
protease inhibitor cocktail	10
high t m	10
the cirv genome	10
which is the	10
explanation of rna	10
the percentage of	10
like to thank	10
over the past	10
in the following	10
have been reported	10
to trigger ifn	10
sukh superfamily genes	10
see supplementary table	10
a recent study	10
of the base	10
of the correct	10
the sukh domain	10
in accordance with	10
in an rna	10
the local stability	10
edge of the	10
may be a	10
the severe acute	10
the integrity of	10
of the structure	10
parp and parp	10
the slippery codon	10
was due to	10
to generate a	10
to monitor the	10
daudi and sk	10
there was a	10
a part of	10
containing mm hepes	10
of the host	10
majority of fs	10
such that the	10
reactions were performed	10
even though the	10
ends of the	10
the homomorphs of	10
we demonstrated that	10
pattern of cd	10
domain of the	10
demonstrate that the	10
the decoding center	10
of rna viruses	10
can act as	10
position in the	10
for each sample	10
signals in the	10
to maintain the	10
be able to	10
and a u	10
the same as	10
in the frameshift	10
has also been	10
in the input	10
min at room	10
a viral rna	10
these results indicate	10
proteins involved in	10
alternative splicing of	10
and incubated for	10
was observed for	10
been proposed to	10
any of the	10
and chop genes	10
many of these	10
evolution of the	10
frameshifting by antisense	10
new england biolabs	10
been shown that	10
state abundance of	10
we also observed	10
difference between the	10
with respect to	10
the availability of	10
hhge per l	10
sirna and silna	10
we would like	10
by the ribosome	10
so as to	10
of the u	10
of the mean	10
this could be	10
the national center	10
cells were harvested	10
the alternative splicing	10
into account the	10
function in programmed	10
was normalized to	10
the viral g	10
a list of	10
agreement with the	10
been used to	10
number of sequences	10
a template for	10
a small molecule	10
of small molecules	10
predicted to be	10
in combination with	10
the prediction of	10
the rdrp core	10
the basis of	10
in ml of	10
of the major	10
of the dpo	10
amplification of the	10
mechanical explanation of	10
pseudoknot function in	10
to verify that	10
and resuspended in	10
the yeast saccharomyces	10
we decided to	10
the first base	10
is the number	10
the evolution of	10
a u and	10
has been suggested	10
the difference in	10
presence of increasing	10
the genetic code	10
ntd of dnag	10
in a similar	10
there was no	10
prf occurs during	10
proteins encoded by	10
a component of	10
both types of	10
terminal edge of	10
limited number of	10
detection of the	10
were observed in	10
information about the	10
presence of mm	10
mechanical strength of	10
to examine the	10
of exon skipping	10
this type of	10
exon of cd	10
ribosome aligning with	10
differences between the	10
of severe acute	10
level of frameshifting	10
of the template	10
is sensitive to	10
the stimulatory rna	10
rna binding by	10
assay was performed	10
carried out at	10
the structure and	10
the zero frame	10
interaction between the	10
binding site for	10
the vicinity of	10
contribute to the	10
the viral rna	10
and that the	10
the composition of	10
performed as previously	10
rna and rna	10
ribosomal frameshifting a	10
endoplasmic reticulum stress	10
to test this	10
of the eukaryotic	10
be found in	10
gene copy number	10
in some cases	10
supported by the	10
deletion of the	10
in programmed ribosomal	10
dlamp with hrm	10
mm nacl and	10
is not a	10
of the binding	10
gene expression in	10
we hypothesize that	10
frameshifting rna pseudoknots	10
influence of the	10
analysis was performed	10
lna dna mix	10
s rrna transcript	10
the distance between	10
transferred to a	10
the initiation of	10
in this article	10
sequence in the	10
consists of a	10
between madp and	10
which can be	10
are associated with	10
a range of	10
it should be	10
in the frame	10
d exd e	10
a mechanical explanation	10
rna pseudoknot function	10
the value of	10
with a single	9
to understand the	9
within the pseudoknot	9
of a pseudoknot	9
in lysis buffer	9
of this approach	9
produced by the	9
type and mutant	9
as part of	9
d and supplementary	9
based on a	9
the degree of	9
ns b and	9
the catalytic domain	9
in the supplementary	9
at the position	9
increasing amounts of	9
to note that	9
obtained from the	9
leading to the	9
we tested the	9
the genome of	9
interaction between madp	9
proximal to the	9
were resolved by	9
data show that	9
cloned into the	9
nucleic acid binding	9
incubated for h	9
g for min	9
for each of	9
g s have	9
in t cells	9
readthrough of the	9
in a viral	9
to fold into	9
rrp and csl	9
t cells were	9
was mixed with	9
of motif c	9
whether or not	9
on the ribosome	9
was found in	9
genes that are	9
examination of the	9
a and d	9
flock house virus	9
followed by the	9
mcm side chain	9
to the c	9
of recoding events	9
suggested that the	9
the action of	9
frameshift efficiency was	9
a database of	9
on the basis	9
at the n	9
ribosomal frameshifting the	9
agarose gel electrophoresis	9
the start of	9
the base pairs	9
of the codon	9
cells were lysed	9
r r correspondences	9
these results suggest	9
to estimate the	9
the assumption that	9
the thermodynamic stability	9
of rna integrity	9
on ice for	9
in the n	9
frameshifting at the	9
crystal structures of	9
evaluation of the	9
dual luciferase reporter	9
as it is	9
were added to	9
of the mutation	9
plays a role	9
the course of	9
the ese site	9
consistent with our	9
and frameshift efficiency	9
involved in rna	9
of the samples	9
in vivo studies	9
role of g	9
terminal region of	9
used in a	9
the samples were	9
to test the	9
highly conserved residues	9
activity in the	9
with h o	9
and s l	9
of the various	9
the association of	9
basis for the	9
results of the	9
csl exosome and	9
the activation of	9
resulted in the	9
viral rna synthesis	9
of sirt with	9
function in the	9
of up to	9
at the surface	9
of the toxin	9
the mixture was	9
of decoding rules	9
in the previous	9
with l of	9
may not be	9
of frameshifting in	9
functional analysis of	9
rna polymerase i	9
levels of the	9
was detected in	9
length of nt	9
for probe design	9
the selection of	9
requirement for an	9
to each other	9
the first nucleotide	9
apoptosis in yeast	9
is likely that	9
results show that	9
of the polymerase	9
a and s	9
divided by the	9
sequences can be	9
which has been	9
to evaluate the	9
this is consistent	9
with frameshift efficiency	9
be caused by	9
fact that the	9
of the l	9
the kinetic model	9
recognized by the	9
in the xbp	9
were performed in	9
versions of the	9
the target gene	9
both in vitro	9
of the lacz	9
may also be	9
in the assay	9
to oxidative stress	9
and incubated at	9
be required to	9
shown in the	9
pestivirus ns b	9
in ribosomal frameshifting	9
are summarized in	9
in the protein	9
to reduce the	9
exon skipping in	9
for the presence	9
to the other	9
transfected with the	9
the relative expression	9
of the interaction	9
exon of the	9
ns b constructs	9
for detection of	9
of the in	9
normalized to the	9
transcription and replication	9
for sg mrna	9
of a specific	9
not affected by	9
the cytoplasm of	9
incorporation of the	9
the results were	9
it will be	9
the primers used	9
ribosomal pausing at	9
is crucial for	9
at the same	9
in the synthesis	9
of the data	9
development of a	9
proteins that are	9
hypothesis that the	9
of the treble	9
effects of the	9
rabbit reticulocyte lysate	9
to a final	9
been found in	9
in the expression	9
of a given	9
the generation of	9
site loop is	9
reactions were incubated	9
the abundance of	9
ltr promoter activity	9
nt downstream of	9
of mutations in	9
be attributed to	9
a cocktail of	9
formed by the	9
have demonstrated that	9
to activate ifn	9
of a particular	9
not included in	9
a highly conserved	9
stabilization of the	9
multiple sequence alignments	9
not able to	9
gel electrophoresis and	9
are critical for	9
fetal bovine serum	9
variation in the	9
stimulation of ribosomal	9
by the addition	9
nt of the	9
are present in	9
translation of an	9
fold increase in	9
true and false	9
of the genetic	9
conclude that the	9
rous sarcoma virus	9
ribosomal frameshift signal	9
of in vitro	9
ice for min	9
relationship between the	9
gaba a receptor	9
of rna samples	9
expansion of decoding	9
of the control	8
it may be	8
been implicated in	8
to have a	8
and the sars	8
moloney murine leukemia	8
as the primary	8
of the predicted	8
led to the	8
mobility shift assay	8
the mean of	8
seen in the	8
and incubated with	8
c and supplementary	8
is induced by	8
be observed in	8
of a conserved	8
r r matches	8
interacting with the	8
composed of a	8
sequence of a	8
in light of	8
copy numbers of	8
heterogeneous nuclear ribonucleoprotein	8
pausing during translation	8
to play a	8
small interfering rnas	8
this study was	8
signal in the	8
of stop codon	8
the est mrna	8
orders of magnitude	8
the ebola virus	8
was annealed with	8
of the poly	8
mechanisms by which	8
terminal domain of	8
and the protein	8
with a nt	8
formation of an	8
was performed to	8
of the dna	8
uaa stop codon	8
act as a	8
primer extension activity	8
mm edta and	8
the utr of	8
reading of the	8
and quantified using	8
downstream from the	8
have been developed	8
in l of	8
all of these	8
the performance of	8
r t is	8
the quality of	8
the genome and	8
addition of the	8
were analyzed using	8
by the ntd	8
be present in	8
that the rna	8
an in vivo	8
copies of the	8
new insights into	8
into the p	8
by dna sequencing	8
to provide a	8
in rna metabolism	8
a broad range	8
of the read	8
were infected with	8
by in vitro	8
carried out by	8
properties of the	8
to create a	8
we wanted to	8
determine whether the	8
to examine whether	8
a limited number	8
of frameshift proteins	8
splicing of cd	8
were performed with	8
in the sars	8
to investigate whether	8
these data suggest	8
a member of	8
of recombination events	8
translation of the	8
of the cell	8
to form the	8
the potential to	8
propose that the	8
rna polymerase and	8
role for g	8
has been demonstrated	8
were incubated for	8
the design of	8
on the right	8
each set of	8
of the cleavage	8
b and d	8
cloned into a	8
the correct stoichiometric	8
have not been	8
to make a	8
sites in the	8
is available at	8
present in all	8
is independent of	8
in the reaction	8
reactive oxygen species	8
replication of the	8
and ribosomal frameshifting	8
of these viruses	8
ribosomal frameshifting efficiency	8
gov genome viruses	8
hj secondary structure	8
is dependent on	8
components of the	8
ibdv and ipnv	8
lack of a	8
terminus of the	8
separated from the	8
that the structure	8
frameshifting efficiency and	8
splicing pattern of	8
m and m	8
are indicative of	8
mrna secondary structure	8
was observed with	8
were separated on	8
was incubated for	8
u and a	8
to compare the	8
in most of	8
mediated mrna decay	8
the s and	8
a sliding window	8
expression of sf	8
were introduced into	8
in the u	8
by primer extension	8
in a sequence	8
the escherichia coli	8
takes into account	8
wild type and	8
structural and functional	8
the pattern of	8
been identified in	8
degradation by the	8
expression of cd	8
positions of the	8
in the control	8
the ns b	8
of false positives	8
are characterized by	8
by changing the	8
the protein was	8
compare lanes and	8
is possible to	8
the dpo system	8
rna pseudoknots and	8
in vitro transcribed	8
of the peptidyl	8
analysis revealed that	8
local stability of	8
the notion that	8
for human immunodeficiency	8
end of s	8
rna interactions in	8
group of the	8
could be due	8
of this domain	8
bind to the	8
and the other	8
the sense strand	8
of pol ii	8
were washed with	8
cellular uptake of	8
the most frequently	8
reported in the	8
of these two	8
as in the	8
the ribosome is	8
distance between the	8
rna by the	8
and quantified by	8
it is known	8
the palindromic sequence	8
consistent with this	8
to be determined	8
c virus rna	8
were maintained in	8
were designed to	8
may be involved	8
is the first	8
and cloned into	8
of ncl to	8
to build a	8
the set of	8
total rna from	8
subset of the	8
frameshifting in decoding	8
in the second	8
temperature for h	8
efficiency of frameshifting	8
these observations suggest	8
t polynucleotide kinase	8
mechanism by which	8
well as a	8
status of the	8
not present in	8
regulate gene expression	8
immediately downstream of	8
independent of the	8
ribosylation of rna	8
with mg ml	8
be noted that	8
expression of full	8
was cloned into	8
d and h	8
in conjunction with	8
presence of an	8
the infected cells	8
only a small	8
of h o	8
resulting in the	8
is required to	8
case of the	8
between pcaf and	8
helicase activity of	8
the time of	8
the x xx	8
with previous studies	8
knockdown of sirt	8
the release of	8
binding of rna	8
lead to the	8
are used to	8
in a given	8
it was shown	8
at the slippery	8
from the a	8
used as templates	8
the present study	8
nucleotides in the	8
to the wild	8
by an rna	8
of the cyp	8
slippery site and	8
the ctd of	8
this process is	8
to associate with	8
in a dose	8
of rna polymerase	8
and found that	8
different from the	8
mouth disease virus	8
the kinetics of	8
and could be	8
has been previously	8
generated using the	8
hepatitis b virus	8
the recoding site	8
s have been	8
that the n	8
of the rt	8
temperature for min	8
of the above	8
on the u	8
were obtained by	8
end labeled with	8
terminal to the	8
the mcm side	8
trnas in the	8
in a number	8
functions as a	8
northern blot analysis	8
the rna chaperone	8
the growth of	8
amount of frameshifted	8
and identification of	8
prior to the	8
may lead to	8
the sum of	8
in the interaction	8
a reduction in	8
the ntd is	8
complex with a	8
were generated using	8
sites of the	8
mechanical stability and	8
the reaction mixture	8
the supernatant was	8
the replacement of	8
conservation at synonymous	8
be explained by	8
of an efficient	8
the authors thank	8
consistent with a	8
also supplementary figure	8
is necessary for	8
copies of a	8
as a positive	8
to the template	8
of the archaeal	8
has previously been	8
the difference between	8
respiratory syncytial virus	8
were identified in	8
half of the	8
for the development	8
and the final	8
of the trailer	8
of cell death	8
to explore the	8
the viral rdrp	8
with the observation	8
studies of the	8
histone h b	8
of the other	8
vicinity of the	8
focused on the	8
of ribosomal rna	8
similar to those	8
to the same	8
belong to the	8
of frameshifting is	8
it possible to	8
at c in	8
figure s d	8
we compared the	8
in cultured cells	8
sequences have been	8
with and without	8
decoding rules enriches	8
of the antisense	8
the frameshifting efficiency	8
its role in	7
for nucleic acid	7
reduction in the	7
maintenance of the	7
binding of ncl	7
construct with the	7
the rna structure	7
were visualized by	7
comparative analysis of	7
in the reference	7
this work was	7
used to generate	7
to allow for	7
sukh superfamily neighborhoods	7
of the role	7
within the homomorph	7
as high as	7
the structurally aligned	7
control of the	7
with the csl	7
is due to	7
both in the	7
cell death in	7
secondary structure prediction	7
function of rna	7
is comparable to	7
ensure synthesis of	7
the illumina results	7
in all cases	7
in the regulation	7
the luciferase activity	7
mouse model of	7
the tertiary structure	7
as rs interaction	7
a proportion of	7
of pcaf in	7
of dna replication	7
to analyze the	7
at a frameshifter	7
each of these	7
stem of sars	7
the application of	7
terminal amino acids	7
of this superfamily	7
the dual luciferase	7
the products were	7
most of them	7
and nucleic acid	7
of the sequences	7
of amino acids	7
the efficacy of	7
derived from a	7
lead to a	7
function of time	7
significant amount of	7
p to p	7
integrity of the	7
to better understand	7
set of probes	7
antiviral activity of	7
formed in the	7
was assessed by	7
are presented in	7
the fidelity of	7
was not observed	7
with the model	7
structurally aligned sequences	7
the silencing activity	7
the potential for	7
folding of the	7
well as in	7
middle east respiratory	7
are predicted to	7
of the effects	7
is found in	7
reading phase but	7
induction by sh	7
coronaviruses ensure synthesis	7
in the in	7
of c for	7
in the ltr	7
complete loss of	7
tables s and	7
cell lines and	7
in the latter	7
is the most	7
pseudoknot is sensitive	7
proteins have been	7
innate immune response	7
from that of	7
substrate was annealed	7
the remaining nucleotides	7
dynamic range of	7
nt from the	7
are stored in	7
of each of	7
nt in the	7
of bip and	7
for min in	7
frame of the	7
secondary structures in	7
ntp entry tunnel	7
prf activity of	7
promoter region of	7
element in the	7
a single copy	7
and treated with	7
distribution of the	7
the renilla luciferase	7
veev and sinv	7
s ribosomal rna	7
studies on the	7
nmr studies of	7
c in the	7
the cut site	7
at the time	7
the rate constant	7
correlation with frameshift	7
in the crystal	7
that the protein	7
based multiplex pcr	7
of the shrna	7
at a time	7
those of the	7
analysis of gene	7
lower aptamer stem	7
in the mdx	7
served as a	7
we examined the	7
this is the	7
mutant and wild	7
followed by incubation	7
table s and	7
gibbs free energy	7
in this report	7
we evaluated the	7
the downstream structure	7
conservation of the	7
of genes in	7
trna arg mcm	7
efficiency was calculated	7
pausing at a	7
was extracted from	7
in the structure	7
that the observed	7
dependent on the	7
explanation for this	7
luciferase reporter assay	7
the wobble position	7
the incorporation of	7
human and mouse	7
x xxy yyz	7
to increase the	7
the eukaryotic ribosome	7
to the cytoplasm	7
and a downstream	7
that interact with	7
b and the	7
small number of	7
pseudoknot required for	7
programmed cell death	7
by h o	7
synthesis of a	7
cells were washed	7
in an elp	7
appears that the	7
for expression of	7
by the manufacturer	7
of sirt in	7
defined as the	7
number of non	7
inside the pseudoknot	7
mrna destabilizing elements	7
did not affect	7
correct stoichiometric ratios	7
of which are	7
to reading phase	7
a golden mean	7
the extent of	7
identified as a	7
the copy number	7
only a few	7
achieving a golden	7
bovine viral diarrhea	7
ribosomal frameshifting is	7
the strength of	7
little correlation with	7
the spacer region	7
of the ctd	7
frameshifter rna pseudoknot	7
utr of the	7
bound to the	7
specific recognition of	7
phase but shows	7
characterized by a	7
ribosomal frameshifting on	7
to explain the	7
mrna and the	7
as compared to	7
batch sequence retrieval	7
different levels of	7
the minimal ibv	7
the promotion of	7
the gel was	7
the exosome containing	7
the translation of	7
lower than that	7
c bl j	7
level of the	7
of dnag is	7
that the majority	7
representation of the	7
to the rna	7
absence of a	7
samples were incubated	7
using a typhoon	7
affinity to the	7
have been proposed	7
is an important	7
by which coronaviruses	7
at a frequency	7
to the virus	7
been reported that	7
understanding of the	7
between the slippery	7
appear to be	7
are found in	7
we anticipate that	7
highly conserved in	7
choi et al	7
is the same	7
love et al	7
were generated by	7
in a manner	7
the ebov trailer	7
under the following	7
and s rrna	7
from genomic dna	7
do not have	7
as a consequence	7
its interaction with	7
cloned into pet	7
sukh domain proteins	7
transcription and translation	7
in the terminal	7
wn and denv	7
element of the	7
rules enriches gene	7
insight into the	7
belongs to the	7
to the target	7
the g structure	7
fraction of the	7
there are no	7
characterization of ribosomal	7
between in vitro	7
sh r t	7
of ebola virus	7
motifs a and	7
and inhibition of	7
of the firefly	7
was measured using	7
expression of a	7
the reference sequence	7
final volume of	7
of the stimulatory	7
at least two	7
frameshifting ribosomal pausing	7
except for the	7
homomorph of motif	7
in all three	7
viral diarrhea virus	7
to be an	7
were separated by	7
the rdrp palm	7
luciferase activity of	7
little or no	7
the vast majority	7
of the complex	7
of this article	7
different types of	7
the northern blot	7
was achieved by	7
to enter the	7
the frameshift products	7
have already been	7
of motif a	7
design of a	7
see materials and	7
the input set	7
sensitive to reading	7
driven by the	7
for viral replication	7
upstream from the	7
ge healthcare life	7
corresponds to the	7
east respiratory syndrome	7
as a potential	7
using a single	7
determined by a	7
transcription of the	7
it does not	7
figure s and	7
to in figure	7
to bind to	7
of which is	7
mrna transcription in	7
because they are	7
rna was isolated	7
the rous sarcoma	7
the structures of	7
can be observed	7
of the sh	7
but not in	7
of nsp and	7
recent advances in	7
found in a	7
arg mcm ucu	7
overlaps with the	7
the probability of	7
a family of	7
efficient coronavirus ribosomal	7
determination of the	7
can be a	7
respect to the	7
figures s a	7
specific binding of	7
uniformly labeled samples	7
separated by a	7
figures a and	7
vast majority of	7
in viral rna	7
aligned sequences that	7
were performed at	7
have focused on	7
for translational frameshifting	7
esterified methyl group	7
the expression levels	7
pol ii transcription	7
production of the	7
the s l	7
the ribosome and	7
a frameshifter rna	7
the characterization of	7
to be more	7
h after transfection	7
sequences based on	7
c of the	7
parp catalytic domain	7
by antisense oligonucleotides	7
analogous to the	7
healthcare life sciences	7
in a dna	7
relative to wild	7
rna pseudoknot is	7
specific conjugate d	7
nuclear magnetic resonance	7
nucleotide of the	7
translocational ribosome aligning	7
by using the	7
of the sense	7
the ebov e	7
a minimum of	7
shown in table	7
nef coding region	7
of the cellular	7
as an rna	7
to wild type	7
to the stop	7
uag stop codon	7
structure in the	7
with rna and	7
the requirement of	7
the host cell	7
reported to be	7
by western blot	7
in spite of	7
which correspond to	7
increased expression of	7
residues at the	7
ntd and the	7
used to determine	7
a and supplementary	7
the normalized chi	7
the structural basis	7
only in the	7
the most efficient	7
p and p	7
of the ltr	7
as that of	7
of programmed ribosomal	7
is a major	7
shows little correlation	7
system for the	7
in support of	7
was unable to	7
the primer extension	7
upf d cells	7
was designed to	7
the target cells	7
this is an	7
a correlation between	7
an efficient coronavirus	7
that the presence	7
sequencing of the	7
crucial for the	7
the first time	7
the pestivirus ns	7
important for the	7
no significant differences	7
with some modifications	7
the sample set	7
to produce a	7
the dynamic range	7
was also observed	7
serves as a	7
possible that the	7
to result in	7
characterization of an	7
b and supplementary	7
a fusion protein	7
a critical role	7
frameshift efficiency and	7
was isolated from	7
to validate the	7
are linked to	7
chaperone activity of	7
available at http	7
of the natural	7
which coronaviruses ensure	7
of the est	7
known to be	7
and has been	7
rna binding activity	7
value of the	7
sf asf in	7
activity in vitro	7
attributed to the	7
of a dna	7
the potential of	7
enriches gene expression	7
is known that	7
of the antiviral	7
probing analysis of	7
of the mature	7
quadruplex nucleic acids	7
broad range of	7
in the stem	7
number of the	7
of viral genome	7
is separated from	7
for the first	7
as a control	7
in this context	7
structure has been	7
that it is	7
of the reporter	7
of the duplex	7
with the rdrp	7
we did not	7
data structures and	7
of total rna	7
the rin system	7
results demonstrate that	7
significant decrease in	7
does not require	7
mechanical unfolding of	7
observed for the	7
but shows little	7
the pip a	7
change in the	7
a mechanism for	7
that has been	7
an elp mutant	7
compared to a	7
possibility that the	7
of archaeal dnag	7
is determined by	7
of both the	7
that of a	7
the frameshift signal	7
these results are	7
located within the	7
the rna samples	7
illustrated in figure	7
computational binding site	7
sought to determine	7
for the prediction	7
systems such as	7
represented by r	7
or a p	7
the esterified methyl	7
the list of	7
the query sequence	7
the left of	7
probabilistic data structures	7
is regulated by	7
of these proteins	7
relative copy number	7
site in the	7
by a single	7
lower than the	7
increase in fs	7
with high affinity	7
we hypothesized that	7
of the four	7
genes and genomes	7
of a unique	7
the assembly of	7
the folding of	7
stoichiometric ratios of	7
sequences at the	7
were transformed into	7
typified by the	7
no effect on	7
to determine if	7
vp in the	7
b and b	7
the mechanisms of	7
the nucleocapsid protein	7
by the rna	7
used to assess	7
ratios of viral	7
occurs in the	7
nucleic acids in	7
a potential target	7
number of methionines	7
rtsl and ld	7
single nucleotide polymorphisms	6
p ssrna cy	6
critical role in	6
the following conditions	6
thought to be	6
the transfected cells	6
pseudoknots promote efficient	6
assessment of the	6
denaturing polyacrylamide gel	6
a significant amount	6
of a large	6
to address these	6
to investigate this	6
for g s	6
center of the	6
needs to be	6
u a slippery	6
of rna interference	6
under the control	6
bicistronic reporter system	6
x xxz zzn	6
human breast cancer	6
copy number variation	6
is used as	6
in the initiation	6
the results showed	6
the ncm group	6
the cell nucleus	6
the untranslated region	6
the wt ltr	6
lack of mcm	6
of frameshifted ribosomes	6
trna glu mcm	6
that positional clustering	6
required for viral	6
nar gkq sha	6
of the hepatitis	6
using a combination	6
rna in the	6
stalled at the	6
strength of messenger	6
be interesting to	6
of dna g	6
roche applied science	6
step in the	6
the mcm group	6
to the cleavage	6
belonging to the	6
the same genome	6
mcf cells were	6
prokaryotes and eukaryotes	6
in a set	6
coverage of the	6
for in vitro	6
mechanisms of action	6
tertiary structure of	6
the university of	6
the mrna entrance	6
of the individual	6
interactions of the	6
released from the	6
pluc cells were	6
and western blot	6
that were used	6
we generated a	6
for the binding	6
motifs in the	6
sensitivity and specificity	6
in the e	6
subjected to a	6
target for antiviral	6
the contribution of	6
to be highly	6
functions of the	6
reporter system for	6
was consistent with	6
mode of action	6
the most conserved	6
and the ribosome	6
the same time	6
of the anticodon	6
the construction of	6
transfected ft cells	6
overexpression of the	6
containing mm nacl	6
the emergence of	6
we showed that	6
in living cells	6
there are two	6
was subjected to	6
as a novel	6
three independent experiments	6
bloom filter for	6
nucleotide sequence of	6
interaction in the	6
the frameshift product	6
of a new	6
ri rna synthesis	6
t m was	6
to map the	6
values of the	6
a new segment	6
were calculated as	6
supported by a	6
of a slippery	6
amount of protein	6
length in the	6
of the de	6
ribosomal frameshifting and	6
as measured by	6
were employed to	6
specific amplification products	6
in the luciferase	6
of the conjugates	6
this is in	6
prepared as described	6
structures can act	6
number of nucleotides	6
we performed a	6
structures in an	6
in the range	6
classified as reliable	6
is identical to	6
and firefly luciferase	6
role of rna	6
the rt codon	6
a or u	6
ribosomal rna in	6
mapped to the	6
electrophoretic mobility shift	6
the influenza virus	6
large ribosomal subunit	6
h d class	6
domains of life	6
may be due	6
of the is	6
to use a	6
and the pseudoknot	6
a frequency of	6
escherichia coli dnax	6
gene of interest	6
locked nucleic acids	6
the most common	6
a partially double	6
mixture was incubated	6
been reported in	6
not only the	6
higher level of	6
of a gene	6
an example of	6
assays were carried	6
according to manufacturer	6
on the left	6
the primer pairs	6
beet western yellows	6
we determined the	6
the fhv genome	6
telomeric g s	6
in the model	6
sk snrnp complex	6
with an anti	6
ribosomal frameshift in	6
of the type	6
renilla and firefly	6
a positive control	6
result of the	6
mm tris ph	6
to induce ribosomal	6
neuronal cell lines	6
to a set	6
the relative abundance	6
and h pi	6
the nuclease domain	6
of the experimental	6
for binding of	6
no correlation between	6
of a small	6
corresponding to a	6
is illustrated in	6
b and sh	6
to mg ml	6
generation sequencing data	6
group of proteins	6
how mrna pseudoknots	6
pairing of the	6
h o and	6
is linked to	6
existence of a	6
pol ii occupancy	6
fold lower than	6
major histocompatibility complex	6
of the lna	6
studying recoding signals	6
pcr amplification of	6
were normalized to	6
a group of	6
single nucleotide polymorphism	6
mm h o	6
protein data bank	6
and used for	6
small molecules targeting	6
in the target	6
containing mm tris	6
of the homomorphs	6
of the aa	6
the change in	6
pseudoknot enhance mechanical	6
by r t	6
frameshift efficiency is	6
potential to form	6
of the observed	6
g s and	6
was analyzed by	6
stability and frameshift	6
high level of	6
treatment with h	6
there are several	6
shift site and	6
a ratio of	6
bovine serum albumin	6
is the major	6
of motif f	6
the hj secondary	6
version of this	6
we thank dr	6
cytoplasmic polyhedrosis virus	6
replaced by a	6
did not change	6
helix of the	6
to distinguish between	6
and thus the	6