Datasets:
vgainullin
/
xciting_data

Dataset card Data Studio Files
xet
 Community
1
paragraph_index
int64
sec
string
p_has_citation
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cites
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3
INTRODUCTION
1
23
[ "B23", "B23", "B24", "B25", "B26", "B27", "B28", "B27", "B28", "B23" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
The fluorescence increase is generated by a transition of the probe from a randomly coiled to linearized state upon hybridization to target DNA.
[ "23", "23", "24", "25", "26", "27", "28", "27", "28", "23" ]
144
4,800
0
false
The fluorescence increase is generated by a transition of the probe from a randomly coiled to linearized state upon hybridization to target DNA.
[]
The fluorescence increase is generated by a transition of the probe from a randomly coiled to linearized state upon hybridization to target DNA.
true
true
true
true
true
805
3
INTRODUCTION
1
23
[ "B23", "B23", "B24", "B25", "B26", "B27", "B28", "B27", "B28", "B23" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
It has been observed that the MGB-probes have reduced fluorescence background compared to non-MGB analogs (23).
[ "23", "23", "24", "25", "26", "27", "28", "27", "28", "23" ]
111
4,801
1
false
It has been observed that the MGB-probes have reduced fluorescence background compared to non-MGB analogs.
[ "23" ]
It has been observed that the MGB-probes have reduced fluorescence background compared to non-MGB analogs.
true
true
true
true
true
805
3
INTRODUCTION
1
23
[ "B23", "B23", "B24", "B25", "B26", "B27", "B28", "B27", "B28", "B23" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
This was attributed to a reduced length of the MGB probes and, therefore, relative proximity of the fluorophore and the quencher.
[ "23", "23", "24", "25", "26", "27", "28", "27", "28", "23" ]
129
4,802
0
false
This was attributed to a reduced length of the MGB probes and, therefore, relative proximity of the fluorophore and the quencher.
[]
This was attributed to a reduced length of the MGB probes and, therefore, relative proximity of the fluorophore and the quencher.
true
true
true
true
true
805
3
INTRODUCTION
1
23
[ "B23", "B23", "B24", "B25", "B26", "B27", "B28", "B27", "B28", "B23" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
Both MGB-TaqMan and MGB-Eclipse probe formats have fluorophore and the MGB attached at opposite ends of the DNA probe.
[ "23", "23", "24", "25", "26", "27", "28", "27", "28", "23" ]
118
4,803
0
false
Both MGB-TaqMan and MGB-Eclipse probe formats have fluorophore and the MGB attached at opposite ends of the DNA probe.
[]
Both MGB-TaqMan and MGB-Eclipse probe formats have fluorophore and the MGB attached at opposite ends of the DNA probe.
true
true
true
true
true
805
4
INTRODUCTION
0
null
null
17,259,212
null
We have recently discovered that when a fluorescent dye is positioned in close proximity to the MGB moiety, its fluorescence is substantially reduced.
null
150
4,804
0
false
null
null
We have recently discovered that when a fluorescent dye is positioned in close proximity to the MGB moiety, its fluorescence is substantially reduced.
true
true
true
true
true
806
4
INTRODUCTION
0
null
null
17,259,212
null
This surprising finding prompted us to investigate a novel design of hybridization probes, which we have called Pleiades probes (after one of the brightest star constellations in the night sky), wherein the fluorophore is located directly adjacent to the MGB at one of the ends of the probe, whereas the quencher is atta...
null
345
4,805
0
false
null
null
This surprising finding prompted us to investigate a novel design of hybridization probes, which we have called Pleiades probes (after one of the brightest star constellations in the night sky), wherein the fluorophore is located directly adjacent to the MGB at one of the ends of the probe, whereas the quencher is atta...
true
true
true
true
true
806
4
INTRODUCTION
0
null
null
17,259,212
null
We have found that this design provides extremely low background fluorescence.
null
78
4,806
0
false
null
null
We have found that this design provides extremely low background fluorescence.
true
true
true
true
true
806
4
INTRODUCTION
0
null
null
17,259,212
null
Moreover, when such probes are hybridized to complementary targets the fluorescence is efficiently released.
null
108
4,807
0
false
null
null
Moreover, when such probes are hybridized to complementary targets the fluorescence is efficiently released.
true
true
true
true
true
806
5
INTRODUCTION
0
null
null
17,259,212
null
The aim of the current study was to investigate fluorescence and hybridization properties of the novel probes and determine structural elements underlying the efficient fluorescence quenching for free probes and strong hybridization-triggered fluorescence.
null
256
4,808
0
false
null
null
The aim of the current study was to investigate fluorescence and hybridization properties of the novel probes and determine structural elements underlying the efficient fluorescence quenching for free probes and strong hybridization-triggered fluorescence.
true
true
true
true
true
807
0
DISCUSSION
1
36–38
[ "B36 B37 B38" ]
17,259,212
pmid-9439442|pmid-11846612|NA
Performance of a fluorogenic DNA hybridization probe can be characterized by several important parameters.
[ "36–38" ]
106
4,809
0
false
Performance of a fluorogenic DNA hybridization probe can be characterized by several important parameters.
[]
Performance of a fluorogenic DNA hybridization probe can be characterized by several important parameters.
true
true
true
true
true
808
0
DISCUSSION
1
36–38
[ "B36 B37 B38" ]
17,259,212
pmid-9439442|pmid-11846612|NA
The first is the degree of quenching in unhybridized probe (background fluorescence).
[ "36–38" ]
85
4,810
0
false
The first is the degree of quenching in unhybridized probe (background fluorescence).
[]
The first is the degree of quenching in unhybridized probe (background fluorescence).
true
true
true
true
true
808
0
DISCUSSION
1
36–38
[ "B36 B37 B38" ]
17,259,212
pmid-9439442|pmid-11846612|NA
The second factor is the fluorescence intensity after hybridization with a target (signal fluorescence).
[ "36–38" ]
104
4,811
0
false
The second factor is the fluorescence intensity after hybridization with a target (signal fluorescence).
[]
The second factor is the fluorescence intensity after hybridization with a target (signal fluorescence).
true
true
true
true
true
808
0
DISCUSSION
1
36–38
[ "B36 B37 B38" ]
17,259,212
pmid-9439442|pmid-11846612|NA
Together they can be characterized by the value of signal-to-background (S/B) ratio—the ultimate measure of assay sensitivity.
[ "36–38" ]
126
4,812
0
false
Together they can be characterized by the value of signal-to-background (S/B) ratio—the ultimate measure of assay sensitivity.
[]
Together they can be characterized by the value of signal-to-background (S/B) ratio—the ultimate measure of assay sensitivity.
true
true
true
true
true
808
0
DISCUSSION
1
36–38
[ "B36 B37 B38" ]
17,259,212
pmid-9439442|pmid-11846612|NA
Furthermore, it is crucial for some applications to keep the background fluorescence stable at any temperature of the assay.
[ "36–38" ]
124
4,813
0
false
Furthermore, it is crucial for some applications to keep the background fluorescence stable at any temperature of the assay.
[]
Furthermore, it is crucial for some applications to keep the background fluorescence stable at any temperature of the assay.
true
true
true
true
true
808
0
DISCUSSION
1
36–38
[ "B36 B37 B38" ]
17,259,212
pmid-9439442|pmid-11846612|NA
For example, post-PCR melting curve analysis is an important tool in genetic analysis (36–38); it assures specificity of target detection and allows discrimination between fully and partially matched duplexes.
[ "36–38" ]
209
4,814
1
false
For example, post-PCR melting curve analysis is an important tool in genetic analysis ; it assures specificity of target detection and allows discrimination between fully and partially matched duplexes.
[ "36–38" ]
For example, post-PCR melting curve analysis is an important tool in genetic analysis ; it assures specificity of target detection and allows discrimination between fully and partially matched duplexes.
true
true
true
true
true
808
0
DISCUSSION
1
36–38
[ "B36 B37 B38" ]
17,259,212
pmid-9439442|pmid-11846612|NA
However, a probe that has an unstable fluorescence background due, for instance, to an intrinsic secondary structure, may generate a complicated melting profile and lead to erroneous conclusions.
[ "36–38" ]
195
4,815
0
false
However, a probe that has an unstable fluorescence background due, for instance, to an intrinsic secondary structure, may generate a complicated melting profile and lead to erroneous conclusions.
[]
However, a probe that has an unstable fluorescence background due, for instance, to an intrinsic secondary structure, may generate a complicated melting profile and lead to erroneous conclusions.
true
true
true
true
true
808
0
DISCUSSION
1
36–38
[ "B36 B37 B38" ]
17,259,212
pmid-9439442|pmid-11846612|NA
The third factor is the efficiency of hybridization, which depends on the probe's Tm, assay conditions and presence of secondary structures in probe or target.
[ "36–38" ]
159
4,816
0
false
The third factor is the efficiency of hybridization, which depends on the probe's Tm, assay conditions and presence of secondary structures in probe or target.
[]
The third factor is the efficiency of hybridization, which depends on the probe's Tm, assay conditions and presence of secondary structures in probe or target.
true
true
true
true
true
808
0
DISCUSSION
1
36–38
[ "B36 B37 B38" ]
17,259,212
pmid-9439442|pmid-11846612|NA
Secondary structure in a probe can reduce hybridization rates and result in inefficient hybridization and, consequently, low fluorescent signal.
[ "36–38" ]
144
4,817
0
false
Secondary structure in a probe can reduce hybridization rates and result in inefficient hybridization and, consequently, low fluorescent signal.
[]
Secondary structure in a probe can reduce hybridization rates and result in inefficient hybridization and, consequently, low fluorescent signal.
true
true
true
true
true
808
0
DISCUSSION
1
36–38
[ "B36 B37 B38" ]
17,259,212
pmid-9439442|pmid-11846612|NA
This is crucial for applications such as fast cycling PCR assays.
[ "36–38" ]
65
4,818
0
false
This is crucial for applications such as fast cycling PCR assays.
[]
This is crucial for applications such as fast cycling PCR assays.
true
true
true
true
true
808
0
DISCUSSION
1
36–38
[ "B36 B37 B38" ]
17,259,212
pmid-9439442|pmid-11846612|NA
The fourth factor is the sequence specificity of hybridization, such as the ability to discriminate single nucleotide polymorphisms.
[ "36–38" ]
132
4,819
0
false
The fourth factor is the sequence specificity of hybridization, such as the ability to discriminate single nucleotide polymorphisms.
[]
The fourth factor is the sequence specificity of hybridization, such as the ability to discriminate single nucleotide polymorphisms.
true
true
true
true
true
808
0
DISCUSSION
1
36–38
[ "B36 B37 B38" ]
17,259,212
pmid-9439442|pmid-11846612|NA
The fifth factor is the resistance to enzymatic degradation during PCR reaction.
[ "36–38" ]
80
4,820
0
false
The fifth factor is the resistance to enzymatic degradation during PCR reaction.
[]
The fifth factor is the resistance to enzymatic degradation during PCR reaction.
true
true
true
true
true
808
0
DISCUSSION
1
36–38
[ "B36 B37 B38" ]
17,259,212
pmid-9439442|pmid-11846612|NA
This property allows a post-PCR thermal melt analysis to be performed.
[ "36–38" ]
70
4,821
0
false
This property allows a post-PCR thermal melt analysis to be performed.
[]
This property allows a post-PCR thermal melt analysis to be performed.
true
true
true
true
true
808
1
DISCUSSION
1
1
[ "B1", "B32", "B8", "B33", "B28" ]
17,259,212
pmid-9630890|pmid-12409481|pmid-10429248|pmid-9649324|NA|NA|NA|pmid-11829619|NA|NA|NA|pmid-11829619|NA|pmid-12059218|NA|NA|pmid-12364614|pmid-16524730|pmid-9630890|pmid-10339560|pmid-11829619|pmid-12582252|pmid-11962616
The molecular beacons tested in this study demonstrated outstanding S/B ratios at low temperatures, similar to that reported in literature (1).
[ "1", "32", "8", "33", "28" ]
143
4,822
1
false
The molecular beacons tested in this study demonstrated outstanding S/B ratios at low temperatures, similar to that reported in literature.
[ "1" ]
The molecular beacons tested in this study demonstrated outstanding S/B ratios at low temperatures, similar to that reported in literature.
true
true
true
true
true
809
1
DISCUSSION
1
1
[ "B1", "B32", "B8", "B33", "B28" ]
17,259,212
pmid-9630890|pmid-12409481|pmid-10429248|pmid-9649324|NA|NA|NA|pmid-11829619|NA|NA|NA|pmid-11829619|NA|pmid-12059218|NA|NA|pmid-12364614|pmid-16524730|pmid-9630890|pmid-10339560|pmid-11829619|pmid-12582252|pmid-11962616
However, at PCR relevant conditions the value of this parameter was substantially compromised.
[ "1", "32", "8", "33", "28" ]
94
4,823
0
false
However, at PCR relevant conditions the value of this parameter was substantially compromised.
[]
However, at PCR relevant conditions the value of this parameter was substantially compromised.
true
true
true
true
true
809
1
DISCUSSION
1
1
[ "B1", "B32", "B8", "B33", "B28" ]
17,259,212
pmid-9630890|pmid-12409481|pmid-10429248|pmid-9649324|NA|NA|NA|pmid-11829619|NA|NA|NA|pmid-11829619|NA|pmid-12059218|NA|NA|pmid-12364614|pmid-16524730|pmid-9630890|pmid-10339560|pmid-11829619|pmid-12582252|pmid-11962616
A relatively stable stem is needed to keep molecular beacon's background fluorescence low at elevated temperatures.
[ "1", "32", "8", "33", "28" ]
115
4,824
0
false
A relatively stable stem is needed to keep molecular beacon's background fluorescence low at elevated temperatures.
[]
A relatively stable stem is needed to keep molecular beacon's background fluorescence low at elevated temperatures.
true
true
true
true
true
809
1
DISCUSSION
1
32
[ "B1", "B32", "B8", "B33", "B28" ]
17,259,212
pmid-9630890|pmid-12409481|pmid-10429248|pmid-9649324|NA|NA|NA|pmid-11829619|NA|NA|NA|pmid-11829619|NA|pmid-12059218|NA|NA|pmid-12364614|pmid-16524730|pmid-9630890|pmid-10339560|pmid-11829619|pmid-12582252|pmid-11962616
The stem structure is also required for the improved mismatch discrimination by molecular beacons (32).
[ "1", "32", "8", "33", "28" ]
103
4,825
1
false
The stem structure is also required for the improved mismatch discrimination by molecular beacons.
[ "32" ]
The stem structure is also required for the improved mismatch discrimination by molecular beacons.
true
true
true
true
true
809
1
DISCUSSION
1
1
[ "B1", "B32", "B8", "B33", "B28" ]
17,259,212
pmid-9630890|pmid-12409481|pmid-10429248|pmid-9649324|NA|NA|NA|pmid-11829619|NA|NA|NA|pmid-11829619|NA|pmid-12059218|NA|NA|pmid-12364614|pmid-16524730|pmid-9630890|pmid-10339560|pmid-11829619|pmid-12582252|pmid-11962616
However, the benefits of having this structure come at the price of reduced hybridization kinetics (8,33), which may render molecular beacons inefficient for some applications.
[ "1", "32", "8", "33", "28" ]
176
4,826
0
false
However, the benefits of having this structure come at the price of reduced hybridization kinetics, which may render molecular beacons inefficient for some applications.
[ "8,33" ]
However, the benefits of having this structure come at the price of reduced hybridization kinetics, which may render molecular beacons inefficient for some applications.
true
true
true
true
true
809
1
DISCUSSION
1
1
[ "B1", "B32", "B8", "B33", "B28" ]
17,259,212
pmid-9630890|pmid-12409481|pmid-10429248|pmid-9649324|NA|NA|NA|pmid-11829619|NA|NA|NA|pmid-11829619|NA|pmid-12059218|NA|NA|pmid-12364614|pmid-16524730|pmid-9630890|pmid-10339560|pmid-11829619|pmid-12582252|pmid-11962616
Melting profile analysis for molecular beacons is also complicated by the presence of the stem-loop to random coil transition.
[ "1", "32", "8", "33", "28" ]
126
4,827
0
false
Melting profile analysis for molecular beacons is also complicated by the presence of the stem-loop to random coil transition.
[]
Melting profile analysis for molecular beacons is also complicated by the presence of the stem-loop to random coil transition.
true
true
true
true
true
809
1
DISCUSSION
1
28
[ "B1", "B32", "B8", "B33", "B28" ]
17,259,212
pmid-9630890|pmid-12409481|pmid-10429248|pmid-9649324|NA|NA|NA|pmid-11829619|NA|NA|NA|pmid-11829619|NA|pmid-12059218|NA|NA|pmid-12364614|pmid-16524730|pmid-9630890|pmid-10339560|pmid-11829619|pmid-12582252|pmid-11962616
In addition, substantial probe degradation is observed for molecular beacons during PCR reaction (28).
[ "1", "32", "8", "33", "28" ]
102
4,828
1
false
In addition, substantial probe degradation is observed for molecular beacons during PCR reaction.
[ "28" ]
In addition, substantial probe degradation is observed for molecular beacons during PCR reaction.
true
true
true
true
true
809
2
DISCUSSION
1
8
[ "B8", "B39" ]
17,259,212
pmid-9016671|pmid-10847607|NA|pmid-15918676|pmid-10959954|pmid-11180941|pmid-11239011|pmid-11829619|pmid-11572603
MGB-Eclipse, the second type of probes compared, does not possess very low fluorescence background.
[ "8", "39" ]
99
4,829
0
false
MGB-Eclipse, the second type of probes compared, does not possess very low fluorescence background.
[]
MGB-Eclipse, the second type of probes compared, does not possess very low fluorescence background.
true
true
true
true
true
810
2
DISCUSSION
1
8
[ "B8", "B39" ]
17,259,212
pmid-9016671|pmid-10847607|NA|pmid-15918676|pmid-10959954|pmid-11180941|pmid-11239011|pmid-11829619|pmid-11572603
The S/B ratios for these probes are only slightly better than those for corresponding non-MGB linear probes.
[ "8", "39" ]
108
4,830
0
false
The S/B ratios for these probes are only slightly better than those for corresponding non-MGB linear probes.
[]
The S/B ratios for these probes are only slightly better than those for corresponding non-MGB linear probes.
true
true
true
true
true
810
2
DISCUSSION
1
8
[ "B8", "B39" ]
17,259,212
pmid-9016671|pmid-10847607|NA|pmid-15918676|pmid-10959954|pmid-11180941|pmid-11239011|pmid-11829619|pmid-11572603
Unstable, temperature-dependent background fluorescence is another weakness of MGB-Eclipse probes.
[ "8", "39" ]
98
4,831
0
false
Unstable, temperature-dependent background fluorescence is another weakness of MGB-Eclipse probes.
[]
Unstable, temperature-dependent background fluorescence is another weakness of MGB-Eclipse probes.
true
true
true
true
true
810
2
DISCUSSION
1
8
[ "B8", "B39" ]
17,259,212
pmid-9016671|pmid-10847607|NA|pmid-15918676|pmid-10959954|pmid-11180941|pmid-11239011|pmid-11829619|pmid-11572603
On the upside, due to the stabilizing effect of the MGB, MGB-Eclipse probes are relatively short and, therefore, have a good mismatch discriminating ability.
[ "8", "39" ]
157
4,832
0
false
On the upside, due to the stabilizing effect of the MGB, MGB-Eclipse probes are relatively short and, therefore, have a good mismatch discriminating ability.
[]
On the upside, due to the stabilizing effect of the MGB, MGB-Eclipse probes are relatively short and, therefore, have a good mismatch discriminating ability.
true
true
true
true
true
810
2
DISCUSSION
1
8
[ "B8", "B39" ]
17,259,212
pmid-9016671|pmid-10847607|NA|pmid-15918676|pmid-10959954|pmid-11180941|pmid-11239011|pmid-11829619|pmid-11572603
Another benefit is that their rates of hybridization are not inhibited by purposefully introduced secondary structures.
[ "8", "39" ]
119
4,833
0
false
Another benefit is that their rates of hybridization are not inhibited by purposefully introduced secondary structures.
[]
Another benefit is that their rates of hybridization are not inhibited by purposefully introduced secondary structures.
true
true
true
true
true
810
2
DISCUSSION
1
8
[ "B8", "B39" ]
17,259,212
pmid-9016671|pmid-10847607|NA|pmid-15918676|pmid-10959954|pmid-11180941|pmid-11239011|pmid-11829619|pmid-11572603
In this and other aspects MGB-Eclipse probes are similar to no-stem PNA beacons (8).
[ "8", "39" ]
84
4,834
1
false
In this and other aspects MGB-Eclipse probes are similar to no-stem PNA beacons.
[ "8" ]
In this and other aspects MGB-Eclipse probes are similar to no-stem PNA beacons.
true
true
true
true
true
810
2
DISCUSSION
1
39
[ "B8", "B39" ]
17,259,212
pmid-9016671|pmid-10847607|NA|pmid-15918676|pmid-10959954|pmid-11180941|pmid-11239011|pmid-11829619|pmid-11572603
PNA beacons also demonstrate signal-to-background ratios of approximately 10–15 at room temperature and of ∼7 at 43°C (39), which are similar to those of MGB-Eclipse.
[ "8", "39" ]
166
4,835
1
false
PNA beacons also demonstrate signal-to-background ratios of approximately 10–15 at room temperature and of ∼7 at 43°C, which are similar to those of MGB-Eclipse.
[ "39" ]
PNA beacons also demonstrate signal-to-background ratios of approximately 10–15 at room temperature and of ∼7 at 43°C, which are similar to those of MGB-Eclipse.
true
true
true
true
true
810
2
DISCUSSION
1
8
[ "B8", "B39" ]
17,259,212
pmid-9016671|pmid-10847607|NA|pmid-15918676|pmid-10959954|pmid-11180941|pmid-11239011|pmid-11829619|pmid-11572603
Also like MGB-Eclipse, short no-stem PNA beacons are more sensitive to sequence mismatches compared to longer linear DNA probes.
[ "8", "39" ]
128
4,836
0
false
Also like MGB-Eclipse, short no-stem PNA beacons are more sensitive to sequence mismatches compared to longer linear DNA probes.
[]
Also like MGB-Eclipse, short no-stem PNA beacons are more sensitive to sequence mismatches compared to longer linear DNA probes.
true
true
true
true
true
810
2
DISCUSSION
1
8
[ "B8", "B39" ]
17,259,212
pmid-9016671|pmid-10847607|NA|pmid-15918676|pmid-10959954|pmid-11180941|pmid-11239011|pmid-11829619|pmid-11572603
For many applications both no-stem PNA and MGB-Eclipse probes will provide good performance.
[ "8", "39" ]
92
4,837
0
false
For many applications both no-stem PNA and MGB-Eclipse probes will provide good performance.
[]
For many applications both no-stem PNA and MGB-Eclipse probes will provide good performance.
true
true
true
true
true
810
3
DISCUSSION
1
40–42
[ "B40 B41 B42", "B43" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
Pleiades probes combine the advantages and address some of the drawbacks of the other technologies.
[ "40–42", "43" ]
99
4,838
0
false
Pleiades probes combine the advantages and address some of the drawbacks of the other technologies.
[]
Pleiades probes combine the advantages and address some of the drawbacks of the other technologies.
true
true
true
true
true
811
3
DISCUSSION
1
40–42
[ "B40 B41 B42", "B43" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
They possess low background fluorescence and high S/B ratios both at ambient temperature and PCR-relevant temperatures.
[ "40–42", "43" ]
119
4,839
0
false
They possess low background fluorescence and high S/B ratios both at ambient temperature and PCR-relevant temperatures.
[]
They possess low background fluorescence and high S/B ratios both at ambient temperature and PCR-relevant temperatures.
true
true
true
true
true
811
3
DISCUSSION
1
40–42
[ "B40 B41 B42", "B43" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
Unlike MGB-Eclipse, Pleiades probes do not demonstrate peculiar, duplex-unrelated melting transitions.
[ "40–42", "43" ]
102
4,840
0
false
Unlike MGB-Eclipse, Pleiades probes do not demonstrate peculiar, duplex-unrelated melting transitions.
[]
Unlike MGB-Eclipse, Pleiades probes do not demonstrate peculiar, duplex-unrelated melting transitions.
true
true
true
true
true
811
3
DISCUSSION
1
40–42
[ "B40 B41 B42", "B43" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
Combination of high hybridization signal with low and stable background is the basis for increased sensitivity of the Pleiades probes.
[ "40–42", "43" ]
134
4,841
0
false
Combination of high hybridization signal with low and stable background is the basis for increased sensitivity of the Pleiades probes.
[]
Combination of high hybridization signal with low and stable background is the basis for increased sensitivity of the Pleiades probes.
true
true
true
true
true
811
3
DISCUSSION
1
40–42
[ "B40 B41 B42", "B43" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
In addition to providing a higher sensitivity, low background fluorescence allows the use of increased concentrations of the probes without overwhelming detection devices.
[ "40–42", "43" ]
171
4,842
0
false
In addition to providing a higher sensitivity, low background fluorescence allows the use of increased concentrations of the probes without overwhelming detection devices.
[]
In addition to providing a higher sensitivity, low background fluorescence allows the use of increased concentrations of the probes without overwhelming detection devices.
true
true
true
true
true
811
3
DISCUSSION
1
40–42
[ "B40 B41 B42", "B43" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
Another useful feature of the Pleiades probes is that the background fluorescence, at least in part, depends on the distance (spacer length) between the MGB and the dye.
[ "40–42", "43" ]
169
4,843
0
false
Another useful feature of the Pleiades probes is that the background fluorescence, at least in part, depends on the distance (spacer length) between the MGB and the dye.
[]
Another useful feature of the Pleiades probes is that the background fluorescence, at least in part, depends on the distance (spacer length) between the MGB and the dye.
true
true
true
true
true
811
3
DISCUSSION
1
40–42
[ "B40 B41 B42", "B43" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
This offers a way to fine tune properties of the probes, which may be desirable for certain applications.
[ "40–42", "43" ]
105
4,844
0
false
This offers a way to fine tune properties of the probes, which may be desirable for certain applications.
[]
This offers a way to fine tune properties of the probes, which may be desirable for certain applications.
true
true
true
true
true
811
3
DISCUSSION
1
40–42
[ "B40 B41 B42", "B43" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
For example, the long, hexaethylene glycol spacer between branching point and fluorophore slightly raises the background fluorescence.
[ "40–42", "43" ]
134
4,845
0
false
For example, the long, hexaethylene glycol spacer between branching point and fluorophore slightly raises the background fluorescence.
[]
For example, the long, hexaethylene glycol spacer between branching point and fluorophore slightly raises the background fluorescence.
true
true
true
true
true
811
3
DISCUSSION
1
40–42
[ "B40 B41 B42", "B43" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
On the other hand, this allows higher hybridization fluorescence and reduced quenching by the nucleotide sequence.
[ "40–42", "43" ]
114
4,846
0
false
On the other hand, this allows higher hybridization fluorescence and reduced quenching by the nucleotide sequence.
[]
On the other hand, this allows higher hybridization fluorescence and reduced quenching by the nucleotide sequence.
true
true
true
true
true
811
3
DISCUSSION
1
40–42
[ "B40 B41 B42", "B43" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
This may be important for high-throughput probe design for PCR application.
[ "40–42", "43" ]
75
4,847
0
false
This may be important for high-throughput probe design for PCR application.
[]
This may be important for high-throughput probe design for PCR application.
true
true
true
true
true
811
3
DISCUSSION
1
40–42
[ "B40 B41 B42", "B43" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
Alternatively, for applications, such as solid phase-immobilized light-up hybridization (40–42) or in vivo studies, a lower background and higher S/B ratios may be more beneficial.
[ "40–42", "43" ]
180
4,848
1
false
Alternatively, for applications, such as solid phase-immobilized light-up hybridization or in vivo studies, a lower background and higher S/B ratios may be more beneficial.
[ "40–42" ]
Alternatively, for applications, such as solid phase-immobilized light-up hybridization or in vivo studies, a lower background and higher S/B ratios may be more beneficial.
true
true
true
true
true
811
3
DISCUSSION
1
40–42
[ "B40 B41 B42", "B43" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
In this case shorter spacer, such as C6-spacer, should be used.
[ "40–42", "43" ]
63
4,849
0
false
In this case shorter spacer, such as C6-spacer, should be used.
[]
In this case shorter spacer, such as C6-spacer, should be used.
true
true
true
true
true
811
3
DISCUSSION
1
40–42
[ "B40 B41 B42", "B43" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
Similar to MGB-Eclipse, they demonstrate fast hybridization kinetics and excellent stability against 5′->3′-exonuclease cleavage.
[ "40–42", "43" ]
129
4,850
0
false
Similar to MGB-Eclipse, they demonstrate fast hybridization kinetics and excellent stability against 5′->3′-exonuclease cleavage.
[]
Similar to MGB-Eclipse, they demonstrate fast hybridization kinetics and excellent stability against 5′->3′-exonuclease cleavage.
true
true
true
true
true
811
3
DISCUSSION
1
43
[ "B40 B41 B42", "B43" ]
17,259,212
pmid-10606668|pmid-10606668|NA|pmid-1871133|pmid-7683443|NA|pmid-11962616|NA|pmid-11962616|pmid-10606668|NA|pmid-12060699|NA|NA
Like all MGB-containing oligonucleotides, Pleiades probes possess excellent specificity due to their short length and the mismatch discriminating effects of the MGB (43).
[ "40–42", "43" ]
170
4,851
1
false
Like all MGB-containing oligonucleotides, Pleiades probes possess excellent specificity due to their short length and the mismatch discriminating effects of the MGB.
[ "43" ]
Like all MGB-containing oligonucleotides, Pleiades probes possess excellent specificity due to their short length and the mismatch discriminating effects of the MGB.
true
true
true
true
true
811
0
INTRODUCTION
1
3
[ "B1", "B2", "B3" ]
17,452,362
pmid-12713903|pmid-11485817|pmid-14523920
RNA and its structural diversity has gained major attention in the last 10 years, in particular through the finding of RNAi as a natural antiviral mechanism of cells (1,2) and of riboswitches, a class of RNAs in bacteria, specialized in translational regulation (3).
[ "1", "2", "3" ]
266
4,852
1
false
RNA and its structural diversity has gained major attention in the last 10 years, in particular through the finding of RNAi as a natural antiviral mechanism of cells and of riboswitches, a class of RNAs in bacteria, specialized in translational regulation.
[ "1,2", "3" ]
RNA and its structural diversity has gained major attention in the last 10 years, in particular through the finding of RNAi as a natural antiviral mechanism of cells and of riboswitches, a class of RNAs in bacteria, specialized in translational regulation.
true
true
true
true
true
812
0
INTRODUCTION
1
1
[ "B1", "B2", "B3" ]
17,452,362
pmid-12713903|pmid-11485817|pmid-14523920
Furthermore, the folding of RNA and its conformational changes, induced by interactions with proteins, metal ions or small molecules, are essential for its biological function.
[ "1", "2", "3" ]
176
4,853
0
false
Furthermore, the folding of RNA and its conformational changes, induced by interactions with proteins, metal ions or small molecules, are essential for its biological function.
[]
Furthermore, the folding of RNA and its conformational changes, induced by interactions with proteins, metal ions or small molecules, are essential for its biological function.
true
true
true
true
true
812
0
INTRODUCTION
1
1
[ "B1", "B2", "B3" ]
17,452,362
pmid-12713903|pmid-11485817|pmid-14523920
This, in conjunction with a growing number of X-ray structures, makes RNA an ever increasingly interesting target for drug interactions and design.
[ "1", "2", "3" ]
147
4,854
0
false
This, in conjunction with a growing number of X-ray structures, makes RNA an ever increasingly interesting target for drug interactions and design.
[]
This, in conjunction with a growing number of X-ray structures, makes RNA an ever increasingly interesting target for drug interactions and design.
true
true
true
true
true
812
1
INTRODUCTION
1
4–7
[ "B4 B5 B6 B7", "B8 B9 B10 B11 B12 B13", "B14", "B15", "B16", "B17", "B18", "B17", "B19", "B16", "B20", "B21 B22 B23", "B24 B25 B26", "B27", "B28", "B29", "B30", "B31", "B32" ]
17,452,362
NA|pmid-11326067|NA|NA|pmid-15111099|pmid-11573095|NA|pmid-11996571|NA|pmid-10966640|pmid-15611296|pmid-17177426|pmid-15271352|pmid-10496217|pmid-15193316|pmid-10496217|pmid-11389608|pmid-15271352|pmid-11456739|pmid-16248034|pmid-12779332|NA|NA|NA|NA|NA|pmid-15183350|NA|NA|pmid-12643697|pmid-15212500
In order to rationally approach RNA as a 3D target, simple, fast and accurate methods to gain structural and dynamical information are necessary.
[ "4–7", "8–13", "14", "15", "16", "17", "18", "17", "19", "16", "20", "21–23", "24–26", "27", "28", "29", "30", "31", "32" ]
145
4,855
0
false
In order to rationally approach RNA as a 3D target, simple, fast and accurate methods to gain structural and dynamical information are necessary.
[]
In order to rationally approach RNA as a 3D target, simple, fast and accurate methods to gain structural and dynamical information are necessary.
true
true
true
true
true
813
1
INTRODUCTION
1
4–7
[ "B4 B5 B6 B7", "B8 B9 B10 B11 B12 B13", "B14", "B15", "B16", "B17", "B18", "B17", "B19", "B16", "B20", "B21 B22 B23", "B24 B25 B26", "B27", "B28", "B29", "B30", "B31", "B32" ]
17,452,362
NA|pmid-11326067|NA|NA|pmid-15111099|pmid-11573095|NA|pmid-11996571|NA|pmid-10966640|pmid-15611296|pmid-17177426|pmid-15271352|pmid-10496217|pmid-15193316|pmid-10496217|pmid-11389608|pmid-15271352|pmid-11456739|pmid-16248034|pmid-12779332|NA|NA|NA|NA|NA|pmid-15183350|NA|NA|pmid-12643697|pmid-15212500
Electron Paramagnetic Resonance (EPR) has already proved its efficiency in characterizing the structural environment of paramagnetic centers (4–7), as well as the global arrangement of domains in proteins and protein complexes (8–13).
[ "4–7", "8–13", "14", "15", "16", "17", "18", "17", "19", "16", "20", "21–23", "24–26", "27", "28", "29", "30", "31", "32" ]
234
4,856
1
false
Electron Paramagnetic Resonance (EPR) has already proved its efficiency in characterizing the structural environment of paramagnetic centers, as well as the global arrangement of domains in proteins and protein complexes.
[ "4–7", "8–13" ]
Electron Paramagnetic Resonance (EPR) has already proved its efficiency in characterizing the structural environment of paramagnetic centers, as well as the global arrangement of domains in proteins and protein complexes.
true
true
true
true
true
813
1
INTRODUCTION
1
4–7
[ "B4 B5 B6 B7", "B8 B9 B10 B11 B12 B13", "B14", "B15", "B16", "B17", "B18", "B17", "B19", "B16", "B20", "B21 B22 B23", "B24 B25 B26", "B27", "B28", "B29", "B30", "B31", "B32" ]
17,452,362
NA|pmid-11326067|NA|NA|pmid-15111099|pmid-11573095|NA|pmid-11996571|NA|pmid-10966640|pmid-15611296|pmid-17177426|pmid-15271352|pmid-10496217|pmid-15193316|pmid-10496217|pmid-11389608|pmid-15271352|pmid-11456739|pmid-16248034|pmid-12779332|NA|NA|NA|NA|NA|pmid-15183350|NA|NA|pmid-12643697|pmid-15212500
Yet, EPR-based studies on the local structure of, e.g.
[ "4–7", "8–13", "14", "15", "16", "17", "18", "17", "19", "16", "20", "21–23", "24–26", "27", "28", "29", "30", "31", "32" ]
54
4,857
0
false
Yet, EPR-based studies on the local structure of, e.g.
[]
Yet, EPR-based studies on the local structure of, e.g.
true
true
true
true
true
813
1
INTRODUCTION
1
16
[ "B4 B5 B6 B7", "B8 B9 B10 B11 B12 B13", "B14", "B15", "B16", "B17", "B18", "B17", "B19", "B16", "B20", "B21 B22 B23", "B24 B25 B26", "B27", "B28", "B29", "B30", "B31", "B32" ]
17,452,362
NA|pmid-11326067|NA|NA|pmid-15111099|pmid-11573095|NA|pmid-11996571|NA|pmid-10966640|pmid-15611296|pmid-17177426|pmid-15271352|pmid-10496217|pmid-15193316|pmid-10496217|pmid-11389608|pmid-15271352|pmid-11456739|pmid-16248034|pmid-12779332|NA|NA|NA|NA|NA|pmid-15183350|NA|NA|pmid-12643697|pmid-15212500
metal ion binding sites (14,15) or of tertiary structure elements in RNA (16) and RNA/protein complexes (17,18) are rare.
[ "4–7", "8–13", "14", "15", "16", "17", "18", "17", "19", "16", "20", "21–23", "24–26", "27", "28", "29", "30", "31", "32" ]
121
4,858
1
false
metal ion binding sites or of tertiary structure elements in RNA and RNA/protein complexes are rare.
[ "14,15", "16", "17,18" ]
metal ion binding sites or of tertiary structure elements in RNA and RNA/protein complexes are rare.
false
true
true
true
false
813
1
INTRODUCTION
1
4–7
[ "B4 B5 B6 B7", "B8 B9 B10 B11 B12 B13", "B14", "B15", "B16", "B17", "B18", "B17", "B19", "B16", "B20", "B21 B22 B23", "B24 B25 B26", "B27", "B28", "B29", "B30", "B31", "B32" ]
17,452,362
NA|pmid-11326067|NA|NA|pmid-15111099|pmid-11573095|NA|pmid-11996571|NA|pmid-10966640|pmid-15611296|pmid-17177426|pmid-15271352|pmid-10496217|pmid-15193316|pmid-10496217|pmid-11389608|pmid-15271352|pmid-11456739|pmid-16248034|pmid-12779332|NA|NA|NA|NA|NA|pmid-15183350|NA|NA|pmid-12643697|pmid-15212500
One reason for the lack of EPR studies related to tertiary RNA structures is that they require site directed and efficient labeling of RNA domains with nitroxides and subsequent measurements of the distance between these nitroxides.
[ "4–7", "8–13", "14", "15", "16", "17", "18", "17", "19", "16", "20", "21–23", "24–26", "27", "28", "29", "30", "31", "32" ]
232
4,859
0
false
One reason for the lack of EPR studies related to tertiary RNA structures is that they require site directed and efficient labeling of RNA domains with nitroxides and subsequent measurements of the distance between these nitroxides.
[]
One reason for the lack of EPR studies related to tertiary RNA structures is that they require site directed and efficient labeling of RNA domains with nitroxides and subsequent measurements of the distance between these nitroxides.
true
true
true
true
true
813
1
INTRODUCTION
1
21–23
[ "B4 B5 B6 B7", "B8 B9 B10 B11 B12 B13", "B14", "B15", "B16", "B17", "B18", "B17", "B19", "B16", "B20", "B21 B22 B23", "B24 B25 B26", "B27", "B28", "B29", "B30", "B31", "B32" ]
17,452,362
NA|pmid-11326067|NA|NA|pmid-15111099|pmid-11573095|NA|pmid-11996571|NA|pmid-10966640|pmid-15611296|pmid-17177426|pmid-15271352|pmid-10496217|pmid-15193316|pmid-10496217|pmid-11389608|pmid-15271352|pmid-11456739|pmid-16248034|pmid-12779332|NA|NA|NA|NA|NA|pmid-15183350|NA|NA|pmid-12643697|pmid-15212500
It is only recently that strategies were developed to spin label the phosphate backbone (17,19), the sugar moiety (16,20) or the uridine base (21–23) of RNA.
[ "4–7", "8–13", "14", "15", "16", "17", "18", "17", "19", "16", "20", "21–23", "24–26", "27", "28", "29", "30", "31", "32" ]
157
4,860
1
false
It is only recently that strategies were developed to spin label the phosphate backbone, the sugar moiety or the uridine base of RNA.
[ "17,19", "16,20", "21–23" ]
It is only recently that strategies were developed to spin label the phosphate backbone, the sugar moiety or the uridine base of RNA.
true
true
true
true
true
813
1
INTRODUCTION
1
24–26
[ "B4 B5 B6 B7", "B8 B9 B10 B11 B12 B13", "B14", "B15", "B16", "B17", "B18", "B17", "B19", "B16", "B20", "B21 B22 B23", "B24 B25 B26", "B27", "B28", "B29", "B30", "B31", "B32" ]
17,452,362
NA|pmid-11326067|NA|NA|pmid-15111099|pmid-11573095|NA|pmid-11996571|NA|pmid-10966640|pmid-15611296|pmid-17177426|pmid-15271352|pmid-10496217|pmid-15193316|pmid-10496217|pmid-11389608|pmid-15271352|pmid-11456739|pmid-16248034|pmid-12779332|NA|NA|NA|NA|NA|pmid-15183350|NA|NA|pmid-12643697|pmid-15212500
Furthermore, pulsed EPR sequences like pulsed electron double resonance (PELDOR) (24–26) or double quantum coherence EPR (DQC-EPR) (27) had to be introduced, which are capable to reliably and precisely measure spin–spin distance of up to 8 nm (28) and overcome thereby the distance limit of ∼2 nm for continuous wave EPR...
[ "4–7", "8–13", "14", "15", "16", "17", "18", "17", "19", "16", "20", "21–23", "24–26", "27", "28", "29", "30", "31", "32" ]
337
4,861
1
false
Furthermore, pulsed EPR sequences like pulsed electron double resonance (PELDOR) or double quantum coherence EPR (DQC-EPR) had to be introduced, which are capable to reliably and precisely measure spin–spin distance of up to 8 nm and overcome thereby the distance limit of ∼2 nm for continuous wave EPR techniques.
[ "24–26", "27", "28", "29" ]
Furthermore, pulsed EPR sequences like pulsed electron double resonance (PELDOR) or double quantum coherence EPR (DQC-EPR) had to be introduced, which are capable to reliably and precisely measure spin–spin distance of up to 8 nm and overcome thereby the distance limit of ∼2 nm for continuous wave EPR techniques.
true
true
true
true
true
813
1
INTRODUCTION
1
32
[ "B4 B5 B6 B7", "B8 B9 B10 B11 B12 B13", "B14", "B15", "B16", "B17", "B18", "B17", "B19", "B16", "B20", "B21 B22 B23", "B24 B25 B26", "B27", "B28", "B29", "B30", "B31", "B32" ]
17,452,362
NA|pmid-11326067|NA|NA|pmid-15111099|pmid-11573095|NA|pmid-11996571|NA|pmid-10966640|pmid-15611296|pmid-17177426|pmid-15271352|pmid-10496217|pmid-15193316|pmid-10496217|pmid-11389608|pmid-15271352|pmid-11456739|pmid-16248034|pmid-12779332|NA|NA|NA|NA|NA|pmid-15183350|NA|NA|pmid-12643697|pmid-15212500
First applications of PELDOR (30,31) and DQC (32) to duplex RNAs have been reported.
[ "4–7", "8–13", "14", "15", "16", "17", "18", "17", "19", "16", "20", "21–23", "24–26", "27", "28", "29", "30", "31", "32" ]
84
4,862
1
false
First applications of PELDOR and DQC to duplex RNAs have been reported.
[ "30,31", "32" ]
First applications of PELDOR and DQC to duplex RNAs have been reported.
true
true
true
true
true
813
2
INTRODUCTION
1
21
[ "B21", "B22", "B23", "B20", "B19" ]
17,452,362
pmid-16248034|pmid-12779332|NA|pmid-11456739|pmid-11389608
Despite these advances, each of the RNA spin labeling strategies mentioned above has its disadvantages and limitations.
[ "21", "22", "23", "20", "19" ]
119
4,863
0
false
Despite these advances, each of the RNA spin labeling strategies mentioned above has its disadvantages and limitations.
[]
Despite these advances, each of the RNA spin labeling strategies mentioned above has its disadvantages and limitations.
true
true
true
true
true
814
2
INTRODUCTION
1
21
[ "B21", "B22", "B23", "B20", "B19" ]
17,452,362
pmid-16248034|pmid-12779332|NA|pmid-11456739|pmid-11389608
The major disadvantage of spin labeling RNA bases is the restriction to uridine.
[ "21", "22", "23", "20", "19" ]
80
4,864
0
false
The major disadvantage of spin labeling RNA bases is the restriction to uridine.
[]
The major disadvantage of spin labeling RNA bases is the restriction to uridine.
true
true
true
true
true
814
2
INTRODUCTION
1
21
[ "B21", "B22", "B23", "B20", "B19" ]
17,452,362
pmid-16248034|pmid-12779332|NA|pmid-11456739|pmid-11389608
Either a 5-iodouridine (21) or a 4-thiouridine (22,23) is incorporated into the RNA during the automated phosphoramidite synthesis and then coupled with the acetylenic nitroxide derivative 2,2,5,5-tetramethyl-pyrrolin-1-yloxyl-3-acetylene (TPA) or a methanethio-sulfonate nitroxide (MTSSL), respectively.
[ "21", "22", "23", "20", "19" ]
304
4,865
1
false
Either a 5-iodouridine or a 4-thiouridine is incorporated into the RNA during the automated phosphoramidite synthesis and then coupled with the acetylenic nitroxide derivative 2,2,5,5-tetramethyl-pyrrolin-1-yloxyl-3-acetylene (TPA) or a methanethio-sulfonate nitroxide (MTSSL), respectively.
[ "21", "22,23" ]
Either a 5-iodouridine or a 4-thiouridine is incorporated into the RNA during the automated phosphoramidite synthesis and then coupled with the acetylenic nitroxide derivative 2,2,5,5-tetramethyl-pyrrolin-1-yloxyl-3-acetylene (TPA) or a methanethio-sulfonate nitroxide (MTSSL), respectively.
true
true
true
true
true
814
2
INTRODUCTION
1
21
[ "B21", "B22", "B23", "B20", "B19" ]
17,452,362
pmid-16248034|pmid-12779332|NA|pmid-11456739|pmid-11389608
Advantageous of the TPA labeling is the chemically stable and geometrically fairly rigid acetylenic linker, whereas the disulfide bridge formed by MTSSL is chemically unstable and leads to the loss of the N3 imino proton, inducing structural distortions.
[ "21", "22", "23", "20", "19" ]
254
4,866
0
false
Advantageous of the TPA labeling is the chemically stable and geometrically fairly rigid acetylenic linker, whereas the disulfide bridge formed by MTSSL is chemically unstable and leads to the loss of the N3 imino proton, inducing structural distortions.
[]
Advantageous of the TPA labeling is the chemically stable and geometrically fairly rigid acetylenic linker, whereas the disulfide bridge formed by MTSSL is chemically unstable and leads to the loss of the N3 imino proton, inducing structural distortions.
true
true
true
true
true
814
2
INTRODUCTION
1
20
[ "B21", "B22", "B23", "B20", "B19" ]
17,452,362
pmid-16248034|pmid-12779332|NA|pmid-11456739|pmid-11389608
The spin labeling of sugar moieties is also restricted with respect to label sites, at the moment to the 2′ site of pyrimidines (20).
[ "21", "22", "23", "20", "19" ]
133
4,867
1
false
The spin labeling of sugar moieties is also restricted with respect to label sites, at the moment to the 2′ site of pyrimidines.
[ "20" ]
The spin labeling of sugar moieties is also restricted with respect to label sites, at the moment to the 2′ site of pyrimidines.
true
true
true
true
true
814
2
INTRODUCTION
1
19
[ "B21", "B22", "B23", "B20", "B19" ]
17,452,362
pmid-16248034|pmid-12779332|NA|pmid-11456739|pmid-11389608
The largest flexibility with respect to the choice of label site is given by spin labeling a specific phosphate group using phosphorothioates in combination with a iodomethylnitroxide (19).
[ "21", "22", "23", "20", "19" ]
189
4,868
1
false
The largest flexibility with respect to the choice of label site is given by spin labeling a specific phosphate group using phosphorothioates in combination with a iodomethylnitroxide.
[ "19" ]
The largest flexibility with respect to the choice of label site is given by spin labeling a specific phosphate group using phosphorothioates in combination with a iodomethylnitroxide.
true
true
true
true
true
814
2
INTRODUCTION
1
21
[ "B21", "B22", "B23", "B20", "B19" ]
17,452,362
pmid-16248034|pmid-12779332|NA|pmid-11456739|pmid-11389608
However, in this case the 2′ site of the nucleotide 5′ to the label side has to be protected or replaced with a 2′ deoxyribose to avoid strand cleavage and the mixture of RP and SP diastereomers makes a translation of the measured distance into RNA structure more difficult.
[ "21", "22", "23", "20", "19" ]
274
4,869
0
false
However, in this case the 2′ site of the nucleotide 5′ to the label side has to be protected or replaced with a 2′ deoxyribose to avoid strand cleavage and the mixture of RP and SP diastereomers makes a translation of the measured distance into RNA structure more difficult.
[]
However, in this case the 2′ site of the nucleotide 5′ to the label side has to be protected or replaced with a 2′ deoxyribose to avoid strand cleavage and the mixture of RP and SP diastereomers makes a translation of the measured distance into RNA structure more difficult.
true
true
true
true
true
814
2
INTRODUCTION
1
21
[ "B21", "B22", "B23", "B20", "B19" ]
17,452,362
pmid-16248034|pmid-12779332|NA|pmid-11456739|pmid-11389608
With respect to PELDOR, it should be mentioned that a parameter free and reliable extraction of a distance from the time trace requires the observation of a dipolar modulation.
[ "21", "22", "23", "20", "19" ]
176
4,870
0
false
With respect to PELDOR, it should be mentioned that a parameter free and reliable extraction of a distance from the time trace requires the observation of a dipolar modulation.
[]
With respect to PELDOR, it should be mentioned that a parameter free and reliable extraction of a distance from the time trace requires the observation of a dipolar modulation.
true
true
true
true
true
814
2
INTRODUCTION
1
21
[ "B21", "B22", "B23", "B20", "B19" ]
17,452,362
pmid-16248034|pmid-12779332|NA|pmid-11456739|pmid-11389608
This can be achieved if most of the sample is labeled (>80%) and the distance distribution is small.
[ "21", "22", "23", "20", "19" ]
100
4,871
0
false
This can be achieved if most of the sample is labeled (>80%) and the distance distribution is small.
[]
This can be achieved if most of the sample is labeled (>80%) and the distance distribution is small.
true
true
true
true
true
814
2
INTRODUCTION
1
21
[ "B21", "B22", "B23", "B20", "B19" ]
17,452,362
pmid-16248034|pmid-12779332|NA|pmid-11456739|pmid-11389608
Thus, highly efficient labeling strategies with rigid labels, a broad flexibility with respect to label sites and small structural perturbations are needed.
[ "21", "22", "23", "20", "19" ]
156
4,872
0
false
Thus, highly efficient labeling strategies with rigid labels, a broad flexibility with respect to label sites and small structural perturbations are needed.
[]
Thus, highly efficient labeling strategies with rigid labels, a broad flexibility with respect to label sites and small structural perturbations are needed.
true
true
true
true
true
814
3
INTRODUCTION
0
null
null
17,452,362
null
Here, we report an extension of RNA base specific labeling to cytosine and the purine adenine, in addition to a considerable increase of the yield of TPA labeled RNAs using ACetoxyEthyl orthoester (ACE®) chemistry.
null
214
4,873
0
false
null
null
Here, we report an extension of RNA base specific labeling to cytosine and the purine adenine, in addition to a considerable increase of the yield of TPA labeled RNAs using ACetoxyEthyl orthoester (ACE®) chemistry.
true
true
true
true
true
815
3
INTRODUCTION
0
null
null
17,452,362
null
PELDOR measurements for each duplex-RNA yielded a dipolar modulation, from which the distance between the spin labels distances could be extracted.
null
147
4,874
0
false
null
null
PELDOR measurements for each duplex-RNA yielded a dipolar modulation, from which the distance between the spin labels distances could be extracted.
true
true
true
true
true
815
3
INTRODUCTION
0
null
null
17,452,362
null
Furthermore, molecular dynamics (MD) simulations gave results in good agreement with the measured distances and indicated that the TPA label induces only a small and local structural distortion.
null
194
4,875
0
false
null
null
Furthermore, molecular dynamics (MD) simulations gave results in good agreement with the measured distances and indicated that the TPA label induces only a small and local structural distortion.
true
true
true
true
true
815
0
INTRODUCTION
1
1
[ "b1", "b5" ]
16,982,646
pmid-14559182|pmid-11679670|pmid-15123812
RNA is more than a simple single-stranded sequence carrying genetic information as in the Central Dogma of Biology.
[ "1", "5" ]
115
4,876
0
false
RNA is more than a simple single-stranded sequence carrying genetic information as in the Central Dogma of Biology.
[]
RNA is more than a simple single-stranded sequence carrying genetic information as in the Central Dogma of Biology.
true
true
true
true
true
816
0
INTRODUCTION
1
1
[ "b1", "b5" ]
16,982,646
pmid-14559182|pmid-11679670|pmid-15123812
For example, it can form tertiary structures that, such as proteins, can be catalytic.
[ "1", "5" ]
86
4,877
0
false
For example, it can form tertiary structures that, such as proteins, can be catalytic.
[]
For example, it can form tertiary structures that, such as proteins, can be catalytic.
true
true
true
true
true
816
0
INTRODUCTION
1
1
[ "b1", "b5" ]
16,982,646
pmid-14559182|pmid-11679670|pmid-15123812
Natural and engineered RNA molecules are widely used as functional tools in enzymatic catalysis and genetic control (1–5).
[ "1", "5" ]
122
4,878
0
false
Natural and engineered RNA molecules are widely used as functional tools in enzymatic catalysis and genetic control.
[ "1–5" ]
Natural and engineered RNA molecules are widely used as functional tools in enzymatic catalysis and genetic control.
true
true
true
true
true
816
0
INTRODUCTION
1
1
[ "b1", "b5" ]
16,982,646
pmid-14559182|pmid-11679670|pmid-15123812
One current problem is how to predict the structures of functional RNA sequences.
[ "1", "5" ]
81
4,879
0
false
One current problem is how to predict the structures of functional RNA sequences.
[]
One current problem is how to predict the structures of functional RNA sequences.
true
true
true
true
true
816
1
INTRODUCTION
1
10
[ "b6", "b9", "b10", "b11", "b13", "b14", "b17", "b17", "b21", "b17", "b17", "b18", "b17", "b22", "b23", "b22", "b17" ]
16,982,646
pmid-15193319|pmid-8418835|pmid-10892344|pmid-2482415|pmid-6363901|pmid-12824338|pmid-15123812|pmid-15123812|pmid-9778347|pmid-15123812|pmid-15123812|pmid-10329189|pmid-15123812|pmid-15272118|pmid-1695107|pmid-15272118|pmid-15123812|pmid-15161262|pmid-15134461
Secondary structure, the sum of canonical base pairs, is stronger (6–9) and forms faster (10) than tertiary structure.
[ "6", "9", "10", "11", "13", "14", "17", "17", "21", "17", "17", "18", "17", "22", "23", "22", "17" ]
118
4,880
1
false
Secondary structure, the sum of canonical base pairs, is stronger and forms faster than tertiary structure.
[ "6–9", "10" ]
Secondary structure, the sum of canonical base pairs, is stronger and forms faster than tertiary structure.
true
true
true
true
true
817
1
INTRODUCTION
1
6
[ "b6", "b9", "b10", "b11", "b13", "b14", "b17", "b17", "b21", "b17", "b17", "b18", "b17", "b22", "b23", "b22", "b17" ]
16,982,646
pmid-15193319|pmid-8418835|pmid-10892344|pmid-2482415|pmid-6363901|pmid-12824338|pmid-15123812|pmid-15123812|pmid-9778347|pmid-15123812|pmid-15123812|pmid-10329189|pmid-15123812|pmid-15272118|pmid-1695107|pmid-15272118|pmid-15123812|pmid-15161262|pmid-15134461
Therefore, secondary structure can largely be determined without knowledge of tertiary structure.
[ "6", "9", "10", "11", "13", "14", "17", "17", "21", "17", "17", "18", "17", "22", "23", "22", "17" ]
97
4,881
0
false
Therefore, secondary structure can largely be determined without knowledge of tertiary structure.
[]
Therefore, secondary structure can largely be determined without knowledge of tertiary structure.
true
true
true
true
true
817
1
INTRODUCTION
1
6
[ "b6", "b9", "b10", "b11", "b13", "b14", "b17", "b17", "b21", "b17", "b17", "b18", "b17", "b22", "b23", "b22", "b17" ]
16,982,646
pmid-15193319|pmid-8418835|pmid-10892344|pmid-2482415|pmid-6363901|pmid-12824338|pmid-15123812|pmid-15123812|pmid-9778347|pmid-15123812|pmid-15123812|pmid-10329189|pmid-15123812|pmid-15272118|pmid-1695107|pmid-15272118|pmid-15123812|pmid-15161262|pmid-15134461
Comparative sequence analysis is a standard technique for determining the secondary structure of homologous RNA sequences (11–13).
[ "6", "9", "10", "11", "13", "14", "17", "17", "21", "17", "17", "18", "17", "22", "23", "22", "17" ]
130
4,882
0
false
Comparative sequence analysis is a standard technique for determining the secondary structure of homologous RNA sequences.
[ "11–13" ]
Comparative sequence analysis is a standard technique for determining the secondary structure of homologous RNA sequences.
true
true
true
true
true
817
1
INTRODUCTION
1
6
[ "b6", "b9", "b10", "b11", "b13", "b14", "b17", "b17", "b21", "b17", "b17", "b18", "b17", "b22", "b23", "b22", "b17" ]
16,982,646
pmid-15193319|pmid-8418835|pmid-10892344|pmid-2482415|pmid-6363901|pmid-12824338|pmid-15123812|pmid-15123812|pmid-9778347|pmid-15123812|pmid-15123812|pmid-10329189|pmid-15123812|pmid-15272118|pmid-1695107|pmid-15272118|pmid-15123812|pmid-15161262|pmid-15134461
When only a few or even a single sequence is available, the secondary structure at 37°C can be predicted by free energy minimization algorithms (14–17) using a set of empirical free energy parameters, determined from optical melting experiments (17–21).
[ "6", "9", "10", "11", "13", "14", "17", "17", "21", "17", "17", "18", "17", "22", "23", "22", "17" ]
253
4,883
0
false
When only a few or even a single sequence is available, the secondary structure at 37°C can be predicted by free energy minimization algorithms using a set of empirical free energy parameters, determined from optical melting experiments.
[ "14–17", "17–21" ]
When only a few or even a single sequence is available, the secondary structure at 37°C can be predicted by free energy minimization algorithms using a set of empirical free energy parameters, determined from optical melting experiments.
true
true
true
true
true
817
1
INTRODUCTION
1
6
[ "b6", "b9", "b10", "b11", "b13", "b14", "b17", "b17", "b21", "b17", "b17", "b18", "b17", "b22", "b23", "b22", "b17" ]
16,982,646
pmid-15193319|pmid-8418835|pmid-10892344|pmid-2482415|pmid-6363901|pmid-12824338|pmid-15123812|pmid-15123812|pmid-9778347|pmid-15123812|pmid-15123812|pmid-10329189|pmid-15123812|pmid-15272118|pmid-1695107|pmid-15272118|pmid-15123812|pmid-15161262|pmid-15134461
Each parameter only depends on the sequence identity of nucleotides in the motif and in adjacent base pairs and the total free energy is the sum of nearest neighbor terms.
[ "6", "9", "10", "11", "13", "14", "17", "17", "21", "17", "17", "18", "17", "22", "23", "22", "17" ]
171
4,884
0
false
Each parameter only depends on the sequence identity of nucleotides in the motif and in adjacent base pairs and the total free energy is the sum of nearest neighbor terms.
[]
Each parameter only depends on the sequence identity of nucleotides in the motif and in adjacent base pairs and the total free energy is the sum of nearest neighbor terms.
true
true
true
true
true
817
1
INTRODUCTION
1
17
[ "b6", "b9", "b10", "b11", "b13", "b14", "b17", "b17", "b21", "b17", "b17", "b18", "b17", "b22", "b23", "b22", "b17" ]
16,982,646
pmid-15193319|pmid-8418835|pmid-10892344|pmid-2482415|pmid-6363901|pmid-12824338|pmid-15123812|pmid-15123812|pmid-9778347|pmid-15123812|pmid-15123812|pmid-10329189|pmid-15123812|pmid-15272118|pmid-1695107|pmid-15272118|pmid-15123812|pmid-15161262|pmid-15134461
The average sensitivity (the percentage of known base pairs that are correctly predicted) of free energy minimization prediction has been benchmarked as high as 72.8 ± 9.4% for a diverse database of sequences having fewer than 800 nt (17).
[ "6", "9", "10", "11", "13", "14", "17", "17", "21", "17", "17", "18", "17", "22", "23", "22", "17" ]
239
4,885
1
false
The average sensitivity (the percentage of known base pairs that are correctly predicted) of free energy minimization prediction has been benchmarked as high as 72.8 ± 9.4% for a diverse database of sequences having fewer than 800 nt.
[ "17" ]
The average sensitivity (the percentage of known base pairs that are correctly predicted) of free energy minimization prediction has been benchmarked as high as 72.8 ± 9.4% for a diverse database of sequences having fewer than 800 nt.
true
true
true
true
true
817
1
INTRODUCTION
1
17
[ "b6", "b9", "b10", "b11", "b13", "b14", "b17", "b17", "b21", "b17", "b17", "b18", "b17", "b22", "b23", "b22", "b17" ]
16,982,646
pmid-15193319|pmid-8418835|pmid-10892344|pmid-2482415|pmid-6363901|pmid-12824338|pmid-15123812|pmid-15123812|pmid-9778347|pmid-15123812|pmid-15123812|pmid-10329189|pmid-15123812|pmid-15272118|pmid-1695107|pmid-15272118|pmid-15123812|pmid-15161262|pmid-15134461
Furthermore, experimentally determined constraints can improve this accuracy of prediction up to 84% (17,18) for sequences with <6% pseudoknotted (non-nested) base pairs (17).
[ "6", "9", "10", "11", "13", "14", "17", "17", "21", "17", "17", "18", "17", "22", "23", "22", "17" ]
175
4,886
1
false
Furthermore, experimentally determined constraints can improve this accuracy of prediction up to 84% for sequences with <6% pseudoknotted (non-nested) base pairs.
[ "17,18", "17" ]
Furthermore, experimentally determined constraints can improve this accuracy of prediction up to 84% for sequences with <6% pseudoknotted (non-nested) base pairs.
true
true
true
true
true
817
1
INTRODUCTION
1
6
[ "b6", "b9", "b10", "b11", "b13", "b14", "b17", "b17", "b21", "b17", "b17", "b18", "b17", "b22", "b23", "b22", "b17" ]
16,982,646
pmid-15193319|pmid-8418835|pmid-10892344|pmid-2482415|pmid-6363901|pmid-12824338|pmid-15123812|pmid-15123812|pmid-9778347|pmid-15123812|pmid-15123812|pmid-10329189|pmid-15123812|pmid-15272118|pmid-1695107|pmid-15272118|pmid-15123812|pmid-15161262|pmid-15134461
Partition function prediction of base pair probabilities can be used to identify base pairs in the predicted lowest free energy structure that are much more likely than average to be in the known secondary structure (22,23).
[ "6", "9", "10", "11", "13", "14", "17", "17", "21", "17", "17", "18", "17", "22", "23", "22", "17" ]
224
4,887
0
false
Partition function prediction of base pair probabilities can be used to identify base pairs in the predicted lowest free energy structure that are much more likely than average to be in the known secondary structure.
[ "22,23" ]
Partition function prediction of base pair probabilities can be used to identify base pairs in the predicted lowest free energy structure that are much more likely than average to be in the known secondary structure.
true
true
true
true
true
817
1
INTRODUCTION
1
22
[ "b6", "b9", "b10", "b11", "b13", "b14", "b17", "b17", "b21", "b17", "b17", "b18", "b17", "b22", "b23", "b22", "b17" ]
16,982,646
pmid-15193319|pmid-8418835|pmid-10892344|pmid-2482415|pmid-6363901|pmid-12824338|pmid-15123812|pmid-15123812|pmid-9778347|pmid-15123812|pmid-15123812|pmid-10329189|pmid-15123812|pmid-15272118|pmid-1695107|pmid-15272118|pmid-15123812|pmid-15161262|pmid-15134461
For example, 91.0% of base pairs in the lowest free energy structure with pairing probability of 0.99 or higher are contained in the known structure, on average (22).
[ "6", "9", "10", "11", "13", "14", "17", "17", "21", "17", "17", "18", "17", "22", "23", "22", "17" ]
166
4,888
1
false
For example, 91.0% of base pairs in the lowest free energy structure with pairing probability of 0.99 or higher are contained in the known structure, on average.
[ "22" ]
For example, 91.0% of base pairs in the lowest free energy structure with pairing probability of 0.99 or higher are contained in the known structure, on average.
true
true
true
true
true
817
1
INTRODUCTION
1
17
[ "b6", "b9", "b10", "b11", "b13", "b14", "b17", "b17", "b21", "b17", "b17", "b18", "b17", "b22", "b23", "b22", "b17" ]
16,982,646
pmid-15193319|pmid-8418835|pmid-10892344|pmid-2482415|pmid-6363901|pmid-12824338|pmid-15123812|pmid-15123812|pmid-9778347|pmid-15123812|pmid-15123812|pmid-10329189|pmid-15123812|pmid-15272118|pmid-1695107|pmid-15272118|pmid-15123812|pmid-15161262|pmid-15134461
The high accuracy of thermodynamic structure prediction (17) demonstrates that many RNA secondary structures can be determined from sequences, without knowledge of any tertiary contacts or protein interactions.
[ "6", "9", "10", "11", "13", "14", "17", "17", "21", "17", "17", "18", "17", "22", "23", "22", "17" ]
210
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The high accuracy of thermodynamic structure prediction demonstrates that many RNA secondary structures can be determined from sequences, without knowledge of any tertiary contacts or protein interactions.
[ "17" ]
The high accuracy of thermodynamic structure prediction demonstrates that many RNA secondary structures can be determined from sequences, without knowledge of any tertiary contacts or protein interactions.
true
true
true
true
true
817
2
INTRODUCTION
1
24
[ "b24", "b17", "b17", "b18" ]
16,982,646
pmid-8538457|pmid-15123812|pmid-15123812|pmid-10329189
The current set of free energy nearest neighbor parameters for predicting the free energy of RNA secondary structure, however, is limited to application at 37°C.
[ "24", "17", "17", "18" ]
161
4,890
0
false
The current set of free energy nearest neighbor parameters for predicting the free energy of RNA secondary structure, however, is limited to application at 37°C.
[]
The current set of free energy nearest neighbor parameters for predicting the free energy of RNA secondary structure, however, is limited to application at 37°C.
true
true
true
true
true
818
2
INTRODUCTION
1
24
[ "b24", "b17", "b17", "b18" ]
16,982,646
pmid-8538457|pmid-15123812|pmid-15123812|pmid-10329189
Many organisms, thermophiles and psychrophiles, live at temperatures far from 37°C and many experiments are conducted at other temperatures.
[ "24", "17", "17", "18" ]
140
4,891
0
false
Many organisms, thermophiles and psychrophiles, live at temperatures far from 37°C and many experiments are conducted at other temperatures.
[]
Many organisms, thermophiles and psychrophiles, live at temperatures far from 37°C and many experiments are conducted at other temperatures.
true
true
true
true
true
818
2
INTRODUCTION
1
24
[ "b24", "b17", "b17", "b18" ]
16,982,646
pmid-8538457|pmid-15123812|pmid-15123812|pmid-10329189
The prediction of secondary structure of RNA at arbitrary temperature would expand our knowledge of structure and evolution in the RNA world.
[ "24", "17", "17", "18" ]
141
4,892
0
false
The prediction of secondary structure of RNA at arbitrary temperature would expand our knowledge of structure and evolution in the RNA world.
[]
The prediction of secondary structure of RNA at arbitrary temperature would expand our knowledge of structure and evolution in the RNA world.
true
true
true
true
true
818
2
INTRODUCTION
1
24
[ "b24", "b17", "b17", "b18" ]
16,982,646
pmid-8538457|pmid-15123812|pmid-15123812|pmid-10329189
Moreover, it would facilitate studying and designing functional RNA molecules at temperatures other than 37°C.
[ "24", "17", "17", "18" ]
110
4,893
0
false
Moreover, it would facilitate studying and designing functional RNA molecules at temperatures other than 37°C.
[]
Moreover, it would facilitate studying and designing functional RNA molecules at temperatures other than 37°C.
true
true
true
true
true
818
2
INTRODUCTION
1
24
[ "b24", "b17", "b17", "b18" ]
16,982,646
pmid-8538457|pmid-15123812|pmid-15123812|pmid-10329189
The enthalpy nearest neighbor parameters can be used in conjunction with available free energy nearest neighbor parameters for 37°C to determine free energy nearest neighbors at other temperatures.
[ "24", "17", "17", "18" ]
197
4,894
0
false
The enthalpy nearest neighbor parameters can be used in conjunction with available free energy nearest neighbor parameters for 37°C to determine free energy nearest neighbors at other temperatures.
[]
The enthalpy nearest neighbor parameters can be used in conjunction with available free energy nearest neighbor parameters for 37°C to determine free energy nearest neighbors at other temperatures.
true
true
true
true
true
818
2
INTRODUCTION
1
24
[ "b24", "b17", "b17", "b18" ]
16,982,646
pmid-8538457|pmid-15123812|pmid-15123812|pmid-10329189
But the most recent enthalpy parameters were derived in 1995 using a simple model (24).
[ "24", "17", "17", "18" ]
87
4,895
1
false
But the most recent enthalpy parameters were derived in 1995 using a simple model.
[ "24" ]
But the most recent enthalpy parameters were derived in 1995 using a simple model.
true
true
true
true
true
818
2
INTRODUCTION
1
24
[ "b24", "b17", "b17", "b18" ]
16,982,646
pmid-8538457|pmid-15123812|pmid-15123812|pmid-10329189
At that time, no themes had emerged for the sequence-dependent stability of internal loops.
[ "24", "17", "17", "18" ]
91
4,896
0
false
At that time, no themes had emerged for the sequence-dependent stability of internal loops.
[]
At that time, no themes had emerged for the sequence-dependent stability of internal loops.
true
true
true
true
true
818
2
INTRODUCTION
1
17
[ "b24", "b17", "b17", "b18" ]
16,982,646
pmid-8538457|pmid-15123812|pmid-15123812|pmid-10329189
Subsequently, the nearest neighbor model for free energy change at 37°C was significantly improved (17) using experimental results.
[ "24", "17", "17", "18" ]
131
4,897
1
false
Subsequently, the nearest neighbor model for free energy change at 37°C was significantly improved using experimental results.
[ "17" ]
Subsequently, the nearest neighbor model for free energy change at 37°C was significantly improved using experimental results.
true
true
true
true
true
818
2
INTRODUCTION
1
24
[ "b24", "b17", "b17", "b18" ]
16,982,646
pmid-8538457|pmid-15123812|pmid-15123812|pmid-10329189
Therefore, we applied the principles of the current free energy nearest neighbor model (17,18) to determine a complete set of enthalpy nearest neighbor parameters using the available optical melting data.
[ "24", "17", "17", "18" ]
204
4,898
0
false
Therefore, we applied the principles of the current free energy nearest neighbor model to determine a complete set of enthalpy nearest neighbor parameters using the available optical melting data.
[ "17,18" ]
Therefore, we applied the principles of the current free energy nearest neighbor model to determine a complete set of enthalpy nearest neighbor parameters using the available optical melting data.
true
true
true
true
true
818
0
DISCUSSION
1
17
[ "b17" ]
16,982,646
pmid-14559182|pmid-11679670|pmid-15123812
The nearest neighbor parameters for enthalpy were derived here using similar rules as for free energy nearest neighbor parameters at 37°C (17).
[ "17" ]
143
4,899
1
false
The nearest neighbor parameters for enthalpy were derived here using similar rules as for free energy nearest neighbor parameters at 37°C.
[ "17" ]
The nearest neighbor parameters for enthalpy were derived here using similar rules as for free energy nearest neighbor parameters at 37°C.
true
true
true
true
true
819