Datasets:
vgainullin
/
xciting_data

Dataset card Data Studio Files
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4
INTRODUCTION
1
25
[ "b25", "b27", "b28", "b30", "b26", "b31", "b33", "b34" ]
17,151,069
pmid-15535863|pmid-12566398|pmid-5327367|pmid-15916595|pmid-10944214|pmid-8824300|pmid-16377712|pmid-17009874|pmid-8811192|pmid-11395412
We also found the correlation between the effect of relaxation and that of RecA.
[ "25", "27", "28", "30", "26", "31", "33", "34" ]
80
3,800
0
false
We also found the correlation between the effect of relaxation and that of RecA.
[]
We also found the correlation between the effect of relaxation and that of RecA.
true
true
true
true
true
636
5
INTRODUCTION
1
35
[ "b35", "b36", "b37", "b34", "b34" ]
17,151,069
pmid-3029031|pmid-2845101|pmid-15535862|pmid-17009874|pmid-17009874|pmid-15690043
Decrease in the extent of negative supercoiling of the chromosomal DNA is accompanied by characteristic changes in gene expression, exemplified by a compensatory upregulation of the gyrA and gyrB genes (35) and downregulation of the topA gene (36).
[ "35", "36", "37", "34", "34" ]
248
3,801
1
false
Decrease in the extent of negative supercoiling of the chromosomal DNA is accompanied by characteristic changes in gene expression, exemplified by a compensatory upregulation of the gyrA and gyrB genes and downregulation of the topA gene.
[ "35", "36" ]
Decrease in the extent of negative supercoiling of the chromosomal DNA is accompanied by characteristic changes in gene expression, exemplified by a compensatory upregulation of the gyrA and gyrB genes and downregulation of the topA gene.
true
true
true
true
true
637
5
INTRODUCTION
1
37
[ "b35", "b36", "b37", "b34", "b34" ]
17,151,069
pmid-3029031|pmid-2845101|pmid-15535862|pmid-17009874|pmid-17009874|pmid-15690043
We observed such characteristic changes under two conditions: steady-state changes during the normal exponential growth of a strain carrying the D82G mutation in the gyrA allele (37) and dynamic changes following the inhibition of DNA gyrase with a quinolone drug (34).
[ "35", "36", "37", "34", "34" ]
269
3,802
1
false
We observed such characteristic changes under two conditions: steady-state changes during the normal exponential growth of a strain carrying the D82G mutation in the gyrA allele and dynamic changes following the inhibition of DNA gyrase with a quinolone drug.
[ "37", "34" ]
We observed such characteristic changes under two conditions: steady-state changes during the normal exponential growth of a strain carrying the D82G mutation in the gyrA allele and dynamic changes following the inhibition of DNA gyrase with a quinolone drug.
true
true
true
true
true
637
5
INTRODUCTION
1
35
[ "b35", "b36", "b37", "b34", "b34" ]
17,151,069
pmid-3029031|pmid-2845101|pmid-15535862|pmid-17009874|pmid-17009874|pmid-15690043
Despite the differences between the two conditions: one representing normal growth, another—cell killing, transcriptional states of the cells were strikingly similar.
[ "35", "36", "37", "34", "34" ]
166
3,803
0
false
Despite the differences between the two conditions: one representing normal growth, another—cell killing, transcriptional states of the cells were strikingly similar.
[]
Despite the differences between the two conditions: one representing normal growth, another—cell killing, transcriptional states of the cells were strikingly similar.
true
true
true
true
true
637
5
INTRODUCTION
1
35
[ "b35", "b36", "b37", "b34", "b34" ]
17,151,069
pmid-3029031|pmid-2845101|pmid-15535862|pmid-17009874|pmid-17009874|pmid-15690043
Depending on growth medium, we found that the overlap between significantly differentially expressed genes in those conditions is 15–25%, and the probability of such an overlap occurring by chance is less than one in a million.
[ "35", "36", "37", "34", "34" ]
227
3,804
0
false
Depending on growth medium, we found that the overlap between significantly differentially expressed genes in those conditions is 15–25%, and the probability of such an overlap occurring by chance is less than one in a million.
[]
Depending on growth medium, we found that the overlap between significantly differentially expressed genes in those conditions is 15–25%, and the probability of such an overlap occurring by chance is less than one in a million.
true
true
true
true
true
637
5
INTRODUCTION
1
35
[ "b35", "b36", "b37", "b34", "b34" ]
17,151,069
pmid-3029031|pmid-2845101|pmid-15535862|pmid-17009874|pmid-17009874|pmid-15690043
We hypothesized that the steady-state effects were due to the changes in biochemical properties of the gyrase enzyme itself, while the dynamic effects were largely due the imbalance between supercoiling and relaxation activities in the cell.
[ "35", "36", "37", "34", "34" ]
241
3,805
0
false
We hypothesized that the steady-state effects were due to the changes in biochemical properties of the gyrase enzyme itself, while the dynamic effects were largely due the imbalance between supercoiling and relaxation activities in the cell.
[]
We hypothesized that the steady-state effects were due to the changes in biochemical properties of the gyrase enzyme itself, while the dynamic effects were largely due the imbalance between supercoiling and relaxation activities in the cell.
true
true
true
true
true
637
5
INTRODUCTION
1
34
[ "b35", "b36", "b37", "b34", "b34" ]
17,151,069
pmid-3029031|pmid-2845101|pmid-15535862|pmid-17009874|pmid-17009874|pmid-15690043
Interestingly, the imbalance between supercoiling and relaxation activities appeared to be modulated by the RecA activity (34).
[ "35", "36", "37", "34", "34" ]
127
3,806
1
false
Interestingly, the imbalance between supercoiling and relaxation activities appeared to be modulated by the RecA activity.
[ "34" ]
Interestingly, the imbalance between supercoiling and relaxation activities appeared to be modulated by the RecA activity.
true
true
true
true
true
637
6
INTRODUCTION
0
null
null
17,151,069
null
In the present work, we conducted biochemical studies to determine the molecular basis of two types of topoisomerase-mediated genomewide transcriptional responses, as well as the effect of RecA on the balance between supercoiling and relaxation activities.
null
256
3,807
0
false
null
null
In the present work, we conducted biochemical studies to determine the molecular basis of two types of topoisomerase-mediated genomewide transcriptional responses, as well as the effect of RecA on the balance between supercoiling and relaxation activities.
true
true
true
true
true
638
6
INTRODUCTION
0
null
null
17,151,069
null
We found that GyrA D82G gyrase exhibited a reduced activity to catalyze the supercoiling reaction and support DNA replication.
null
126
3,808
0
false
null
null
We found that GyrA D82G gyrase exhibited a reduced activity to catalyze the supercoiling reaction and support DNA replication.
true
true
true
true
true
638
6
INTRODUCTION
0
null
null
17,151,069
null
We also found that RecA was capable of stimulating Topo I-catalyzed relaxation reaction.
null
88
3,809
0
false
null
null
We also found that RecA was capable of stimulating Topo I-catalyzed relaxation reaction.
true
true
true
true
true
638
6
INTRODUCTION
0
null
null
17,151,069
null
The stimulatory effect of E.coli RecA was specific to E.coli Topo I and required the formation of an active RecA filament.
null
122
3,810
0
false
null
null
The stimulatory effect of E.coli RecA was specific to E.coli Topo I and required the formation of an active RecA filament.
true
true
true
true
true
638
6
INTRODUCTION
0
null
null
17,151,069
null
Thus, the functional interaction between RecA and Topo I is likely to be responsible for the RecA-mediated modulation of transcriptional responses in quinolone treated E.coli cells.
null
181
3,811
0
false
null
null
Thus, the functional interaction between RecA and Topo I is likely to be responsible for the RecA-mediated modulation of transcriptional responses in quinolone treated E.coli cells.
true
true
true
true
true
638
0
DISCUSSION
1
37
[ "b37", "b34" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-4927945|pmid-2843517|pmid-186775|pmid-2170028|pmid-15535862|pmid-17009874
Investigations on the effects of the modulation of gyrase function on genomewide gene expression in E.coli have identified two types of topoisomerase-mediated genomewide transcriptional responses: steady-state changes elicited by a mutation in the GyrA subunit (37), and dynamic changes elicited by the inhibition of gyr...
[ "37", "34" ]
605
3,812
1
false
Investigations on the effects of the modulation of gyrase function on genomewide gene expression in E.coli have identified two types of topoisomerase-mediated genomewide transcriptional responses: steady-state changes elicited by a mutation in the GyrA subunit, and dynamic changes elicited by the inhibition of gyrase b...
[ "37", "34" ]
Investigations on the effects of the modulation of gyrase function on genomewide gene expression in E.coli have identified two types of topoisomerase-mediated genomewide transcriptional responses: steady-state changes elicited by a mutation in the GyrA subunit, and dynamic changes elicited by the inhibition of gyrase b...
true
true
true
true
true
639
0
DISCUSSION
1
37
[ "b37", "b34" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-4927945|pmid-2843517|pmid-186775|pmid-2170028|pmid-15535862|pmid-17009874
We conducted biochemical studies and provided evidence for these hypothesized mechanisms.
[ "37", "34" ]
89
3,813
0
false
We conducted biochemical studies and provided evidence for these hypothesized mechanisms.
[]
We conducted biochemical studies and provided evidence for these hypothesized mechanisms.
true
true
true
true
true
639
1
DISCUSSION
1
37
[ "b37", "b49", "b37", "b52" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-8811192|pmid-11395412|pmid-7510701|pmid-8621552|pmid-15535862|pmid-8980760|pmid-15535862|pmid-7968526
The D82G mutation in the GyrA subunit was selected by the screening of mutations, which increased levels of the gyrA and gyrB transcripts in E.coli (37).
[ "37", "49", "37", "52" ]
153
3,814
1
false
The D82G mutation in the GyrA subunit was selected by the screening of mutations, which increased levels of the gyrA and gyrB transcripts in E.coli.
[ "37" ]
The D82G mutation in the GyrA subunit was selected by the screening of mutations, which increased levels of the gyrA and gyrB transcripts in E.coli.
true
true
true
true
true
640
1
DISCUSSION
1
49
[ "b37", "b49", "b37", "b52" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-8811192|pmid-11395412|pmid-7510701|pmid-8621552|pmid-15535862|pmid-8980760|pmid-15535862|pmid-7968526
This mutation has been previously identified as a part of a double mutation in the E.coli gyrA gene that confers quinolone resistance (49).
[ "37", "49", "37", "52" ]
139
3,815
1
false
This mutation has been previously identified as a part of a double mutation in the E.coli gyrA gene that confers quinolone resistance.
[ "49" ]
This mutation has been previously identified as a part of a double mutation in the E.coli gyrA gene that confers quinolone resistance.
true
true
true
true
true
640
1
DISCUSSION
1
37
[ "b37", "b49", "b37", "b52" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-8811192|pmid-11395412|pmid-7510701|pmid-8621552|pmid-15535862|pmid-8980760|pmid-15535862|pmid-7968526
As expected, GyrA D82G gyrase exhibited a low level of resistance to norfloxacin, a quinolone drug, in the supercoiling (Figure 1B) and DNA cleavage (data not shown) assays.
[ "37", "49", "37", "52" ]
173
3,816
0
false
As expected, GyrA D82G gyrase exhibited a low level of resistance to norfloxacin, a quinolone drug, in the supercoiling (Figure 1B) and DNA cleavage (data not shown) assays.
[]
As expected, GyrA D82G gyrase exhibited a low level of resistance to norfloxacin, a quinolone drug, in the supercoiling (Figure 1B) and DNA cleavage (data not shown) assays.
true
true
true
true
true
640
1
DISCUSSION
1
37
[ "b37", "b49", "b37", "b52" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-8811192|pmid-11395412|pmid-7510701|pmid-8621552|pmid-15535862|pmid-8980760|pmid-15535862|pmid-7968526
This mutation does not affect the growth rate in rich medium but alters the steady-state transcriptional activity of more than 800 genes in E.coli (37).
[ "37", "49", "37", "52" ]
152
3,817
1
false
This mutation does not affect the growth rate in rich medium but alters the steady-state transcriptional activity of more than 800 genes in E.coli.
[ "37" ]
This mutation does not affect the growth rate in rich medium but alters the steady-state transcriptional activity of more than 800 genes in E.coli.
true
true
true
true
true
640
1
DISCUSSION
1
37
[ "b37", "b49", "b37", "b52" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-8811192|pmid-11395412|pmid-7510701|pmid-8621552|pmid-15535862|pmid-8980760|pmid-15535862|pmid-7968526
We found that GyrA D82G gyrase had a reduced activity (2–3 fold lower than the wild-type enzyme) to catalyze the supercoiling reaction (Figure 1A) and support oriC DNA replication in vitro (Figure 2).
[ "37", "49", "37", "52" ]
200
3,818
0
false
We found that GyrA D82G gyrase had a reduced activity (2–3 fold lower than the wild-type enzyme) to catalyze the supercoiling reaction (Figure 1A) and support oriC DNA replication in vitro (Figure 2).
[]
We found that GyrA D82G gyrase had a reduced activity to catalyze the supercoiling reaction (Figure 1A) and support oriC DNA replication in vitro (Figure 2).
true
true
true
true
true
640
1
DISCUSSION
1
37
[ "b37", "b49", "b37", "b52" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-8811192|pmid-11395412|pmid-7510701|pmid-8621552|pmid-15535862|pmid-8980760|pmid-15535862|pmid-7968526
Thus, the steady-state changes in the genomewide gene expression elicited by the D82G mutation in the GyrA subunit is due to its effect on the catalytic activity of DNA gyrase.
[ "37", "49", "37", "52" ]
176
3,819
0
false
Thus, the steady-state changes in the genomewide gene expression elicited by the D82G mutation in the GyrA subunit is due to its effect on the catalytic activity of DNA gyrase.
[]
Thus, the steady-state changes in the genomewide gene expression elicited by the D82G mutation in the GyrA subunit is due to its effect on the catalytic activity of DNA gyrase.
true
true
true
true
true
640
1
DISCUSSION
1
52
[ "b37", "b49", "b37", "b52" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-8811192|pmid-11395412|pmid-7510701|pmid-8621552|pmid-15535862|pmid-8980760|pmid-15535862|pmid-7968526
The previous observation that small changes in the supercoiling activity of gyrase have widespread effects on the relative abundance of 88 proteins (52) supports our conclusion.
[ "37", "49", "37", "52" ]
177
3,820
1
false
The previous observation that small changes in the supercoiling activity of gyrase have widespread effects on the relative abundance of 88 proteins supports our conclusion.
[ "52" ]
The previous observation that small changes in the supercoiling activity of gyrase have widespread effects on the relative abundance of 88 proteins supports our conclusion.
true
true
true
true
true
640
2
DISCUSSION
1
34
[ "b34" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-8811192|pmid-11395412|pmid-1330320|pmid-17009874
Our investigation on transcriptional responses to the inhibition of DNA gyrase in E.coli revealed that the average kinetics of transcriptional responses triggered by the quinolone treatment was affected in a RecA-dependent manner (34).
[ "34" ]
235
3,821
1
false
Our investigation on transcriptional responses to the inhibition of DNA gyrase in E.coli revealed that the average kinetics of transcriptional responses triggered by the quinolone treatment was affected in a RecA-dependent manner.
[ "34" ]
Our investigation on transcriptional responses to the inhibition of DNA gyrase in E.coli revealed that the average kinetics of transcriptional responses triggered by the quinolone treatment was affected in a RecA-dependent manner.
true
true
true
true
true
641
2
DISCUSSION
1
34
[ "b34" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-8811192|pmid-11395412|pmid-1330320|pmid-17009874
The RecA protein could modulate the balance between supercoiling and relaxation activities either by interfering with the supercoiling activity of gyrase or by facilitating the relaxation activity of Topo I.
[ "34" ]
207
3,822
0
false
The RecA protein could modulate the balance between supercoiling and relaxation activities either by interfering with the supercoiling activity of gyrase or by facilitating the relaxation activity of Topo I.
[]
The RecA protein could modulate the balance between supercoiling and relaxation activities either by interfering with the supercoiling activity of gyrase or by facilitating the relaxation activity of Topo I.
true
true
true
true
true
641
2
DISCUSSION
1
34
[ "b34" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-8811192|pmid-11395412|pmid-1330320|pmid-17009874
To determine the molecular basis of the effect of RecA on the balance of supercoiling and relaxation activities in the cell, we assessed the effects of RecA on gyrase-catalyzed supercoiling reaction and Topo I-catalyzed relaxation reaction in vitro.
[ "34" ]
249
3,823
0
false
To determine the molecular basis of the effect of RecA on the balance of supercoiling and relaxation activities in the cell, we assessed the effects of RecA on gyrase-catalyzed supercoiling reaction and Topo I-catalyzed relaxation reaction in vitro.
[]
To determine the molecular basis of the effect of RecA on the balance of supercoiling and relaxation activities in the cell, we assessed the effects of RecA on gyrase-catalyzed supercoiling reaction and Topo I-catalyzed relaxation reaction in vitro.
true
true
true
true
true
641
2
DISCUSSION
1
34
[ "b34" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-8811192|pmid-11395412|pmid-1330320|pmid-17009874
The presence of RecA did not affect the supercoiling activity of gyrase (Figure 3).
[ "34" ]
83
3,824
0
false
The presence of RecA did not affect the supercoiling activity of gyrase (Figure 3).
[]
The presence of RecA did not affect the supercoiling activity of gyrase.
true
true
true
true
true
641
2
DISCUSSION
1
34
[ "b34" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-8811192|pmid-11395412|pmid-1330320|pmid-17009874
Furthermore, no effect of RecA on either the decatenation or relaxation activity of Topo IV was detected (data not shown).
[ "34" ]
122
3,825
0
false
Furthermore, no effect of RecA on either the decatenation or relaxation activity of Topo IV was detected (data not shown).
[]
Furthermore, no effect of RecA on either the decatenation or relaxation activity of Topo IV was detected (data not shown).
true
true
true
true
true
641
2
DISCUSSION
1
34
[ "b34" ]
17,151,069
pmid-8811192|pmid-11395412|pmid-8811192|pmid-11395412|pmid-1330320|pmid-17009874
Thus, RecA does not affect the catalytic activities of bacterial type IIA topoisomerases.
[ "34" ]
89
3,826
0
false
Thus, RecA does not affect the catalytic activities of bacterial type IIA topoisomerases.
[]
Thus, RecA does not affect the catalytic activities of bacterial type IIA topoisomerases.
true
true
true
true
true
641
3
DISCUSSION
1
34
[ "b34" ]
17,151,069
pmid-9187054|NA|NA|NA|NA|pmid-10716434|pmid-3900072|pmid-3058986|pmid-2188972|pmid-9048946|pmid-11574550|pmid-7050394|pmid-1522597|pmid-7050731|pmid-2538631|pmid-1522597|pmid-2693735|pmid-17009874
RecA was capable of stimulating the relaxation activity of Topo I in vitro (Figure 4).
[ "34" ]
86
3,827
0
false
RecA was capable of stimulating the relaxation activity of Topo I in vitro (Figure 4).
[]
RecA was capable of stimulating the relaxation activity of Topo I in vitro.
true
true
true
true
true
642
3
DISCUSSION
1
34
[ "b34" ]
17,151,069
pmid-9187054|NA|NA|NA|NA|pmid-10716434|pmid-3900072|pmid-3058986|pmid-2188972|pmid-9048946|pmid-11574550|pmid-7050394|pmid-1522597|pmid-7050731|pmid-2538631|pmid-1522597|pmid-2693735|pmid-17009874
The stimulation of Topo I-catalyzed relaxation reaction by RecA required formation of an active RecA filament (Figure 5).
[ "34" ]
121
3,828
0
false
The stimulation of Topo I-catalyzed relaxation reaction by RecA required formation of an active RecA filament (Figure 5).
[]
The stimulation of Topo I-catalyzed relaxation reaction by RecA required formation of an active RecA filament (Figure 5).
true
true
true
true
true
642
3
DISCUSSION
1
34
[ "b34" ]
17,151,069
pmid-9187054|NA|NA|NA|NA|pmid-10716434|pmid-3900072|pmid-3058986|pmid-2188972|pmid-9048946|pmid-11574550|pmid-7050394|pmid-1522597|pmid-7050731|pmid-2538631|pmid-1522597|pmid-2693735|pmid-17009874
It is likely that RecA-mediated stimulation of Topo I activity accounts for the effect of a recA mutation on the balance between supercoiling and relaxation activities in E.coli.
[ "34" ]
178
3,829
0
false
It is likely that RecA-mediated stimulation of Topo I activity accounts for the effect of a recA mutation on the balance between supercoiling and relaxation activities in E.coli.
[]
It is likely that RecA-mediated stimulation of Topo I activity accounts for the effect of a recA mutation on the balance between supercoiling and relaxation activities in E.coli.
true
true
true
true
true
642
3
DISCUSSION
1
34
[ "b34" ]
17,151,069
pmid-9187054|NA|NA|NA|NA|pmid-10716434|pmid-3900072|pmid-3058986|pmid-2188972|pmid-9048946|pmid-11574550|pmid-7050394|pmid-1522597|pmid-7050731|pmid-2538631|pmid-1522597|pmid-2693735|pmid-17009874
Topo I, in the presence of RecA, can relax the chromosomal DNA at its maximum rate upon the inhibition of gyrase in the wild-type strain, whereas, due to the loss of the stimulatory effect of RecA on Topo I, the relaxation of the chromosome is significantly slower in a recA− strain.
[ "34" ]
283
3,830
0
false
Topo I, in the presence of RecA, can relax the chromosomal DNA at its maximum rate upon the inhibition of gyrase in the wild-type strain, whereas, due to the loss of the stimulatory effect of RecA on Topo I, the relaxation of the chromosome is significantly slower in a recA− strain.
[]
Topo I, in the presence of RecA, can relax the chromosomal DNA at its maximum rate upon the inhibition of gyrase in the wild-type strain, whereas, due to the loss of the stimulatory effect of RecA on Topo I, the relaxation of the chromosome is significantly slower in a recA− strain.
true
true
true
true
true
642
3
DISCUSSION
1
34
[ "b34" ]
17,151,069
pmid-9187054|NA|NA|NA|NA|pmid-10716434|pmid-3900072|pmid-3058986|pmid-2188972|pmid-9048946|pmid-11574550|pmid-7050394|pmid-1522597|pmid-7050731|pmid-2538631|pmid-1522597|pmid-2693735|pmid-17009874
A strong correlation between changes in transcript levels of a group of genes in a recA− strain and those in a topA− strain (34) also supports the conclusion that the functional interaction between RecA and Topo I is responsible for RecA-mediated modulation of the balance between supercoiling and relaxation activities ...
[ "34" ]
328
3,831
1
false
A strong correlation between changes in transcript levels of a group of genes in a recA− strain and those in a topA− strain also supports the conclusion that the functional interaction between RecA and Topo I is responsible for RecA-mediated modulation of the balance between supercoiling and relaxation activities in vi...
[ "34" ]
A strong correlation between changes in transcript levels of a group of genes in a recA− strain and those in a topA− strain also supports the conclusion that the functional interaction between RecA and Topo I is responsible for RecA-mediated modulation of the balance between supercoiling and relaxation activities in vi...
true
true
true
true
true
642
4
DISCUSSION
1
1
[ "b1", "b2" ]
17,151,069
pmid-15535863|pmid-12566398|pmid-5327367|pmid-15916595|pmid-10944214|pmid-8824300|pmid-16377712|pmid-17009874|pmid-8811192|pmid-11395412
What is the mechanism of the functional interaction between E.coli RecA and E.coli Topo I?
[ "1", "2" ]
90
3,832
0
false
What is the mechanism of the functional interaction between E.coli RecA and E.coli Topo I?
[]
What is the mechanism of the functional interaction between E.coli RecA and E.coli Topo I?
true
true
true
true
true
643
4
DISCUSSION
1
1
[ "b1", "b2" ]
17,151,069
pmid-15535863|pmid-12566398|pmid-5327367|pmid-15916595|pmid-10944214|pmid-8824300|pmid-16377712|pmid-17009874|pmid-8811192|pmid-11395412
One possibility is that the formation of an active RecA filament could alter the conformation of the DNA and generate single-stranded regions to provide binding sites for Topo I.
[ "1", "2" ]
178
3,833
0
false
One possibility is that the formation of an active RecA filament could alter the conformation of the DNA and generate single-stranded regions to provide binding sites for Topo I.
[]
One possibility is that the formation of an active RecA filament could alter the conformation of the DNA and generate single-stranded regions to provide binding sites for Topo I.
true
true
true
true
true
643
4
DISCUSSION
1
1
[ "b1", "b2" ]
17,151,069
pmid-15535863|pmid-12566398|pmid-5327367|pmid-15916595|pmid-10944214|pmid-8824300|pmid-16377712|pmid-17009874|pmid-8811192|pmid-11395412
An alternative possibility is that RecA might physically interact with Topo I and recruit Topo I to the DNA.
[ "1", "2" ]
108
3,834
0
false
An alternative possibility is that RecA might physically interact with Topo I and recruit Topo I to the DNA.
[]
An alternative possibility is that RecA might physically interact with Topo I and recruit Topo I to the DNA.
true
true
true
true
true
643
4
DISCUSSION
1
1
[ "b1", "b2" ]
17,151,069
pmid-15535863|pmid-12566398|pmid-5327367|pmid-15916595|pmid-10944214|pmid-8824300|pmid-16377712|pmid-17009874|pmid-8811192|pmid-11395412
It seemed more likely that RecA could stimulate Topo I by changing the conformation of DNA and generating single-stranded regions.
[ "1", "2" ]
130
3,835
0
false
It seemed more likely that RecA could stimulate Topo I by changing the conformation of DNA and generating single-stranded regions.
[]
It seemed more likely that RecA could stimulate Topo I by changing the conformation of DNA and generating single-stranded regions.
true
true
true
true
true
643
4
DISCUSSION
1
1
[ "b1", "b2" ]
17,151,069
pmid-15535863|pmid-12566398|pmid-5327367|pmid-15916595|pmid-10944214|pmid-8824300|pmid-16377712|pmid-17009874|pmid-8811192|pmid-11395412
In this case, it was reasonable to assume that RecA could have a general stimulatory effect on the activities of various type IA topoisomerases, which require a single-stranded region to bind to DNA (1,2).
[ "1", "2" ]
205
3,836
0
false
In this case, it was reasonable to assume that RecA could have a general stimulatory effect on the activities of various type IA topoisomerases, which require a single-stranded region to bind to DNA.
[ "1,2" ]
In this case, it was reasonable to assume that RecA could have a general stimulatory effect on the activities of various type IA topoisomerases, which require a single-stranded region to bind to DNA.
true
true
true
true
true
643
4
DISCUSSION
1
1
[ "b1", "b2" ]
17,151,069
pmid-15535863|pmid-12566398|pmid-5327367|pmid-15916595|pmid-10944214|pmid-8824300|pmid-16377712|pmid-17009874|pmid-8811192|pmid-11395412
We found, however, that the stimulatory effect of E.coli RecA was somewhat specific to E.coli Topo
[ "1", "2" ]
98
3,837
0
false
We found, however, that the stimulatory effect of E.coli RecA was somewhat specific to E.coli Topo
[]
We found, however, that the stimulatory effect of E.coli RecA was somewhat specific to E.coli Topo
true
true
false
true
false
643
4
DISCUSSION
1
1
[ "b1", "b2" ]
17,151,069
pmid-15535863|pmid-12566398|pmid-5327367|pmid-15916595|pmid-10944214|pmid-8824300|pmid-16377712|pmid-17009874|pmid-8811192|pmid-11395412
I (Figure 6).
[ "1", "2" ]
13
3,838
0
false
I (Figure 6).
[]
I (Figure 6).
true
true
true
true
true
643
4
DISCUSSION
1
1
[ "b1", "b2" ]
17,151,069
pmid-15535863|pmid-12566398|pmid-5327367|pmid-15916595|pmid-10944214|pmid-8824300|pmid-16377712|pmid-17009874|pmid-8811192|pmid-11395412
Thus, conformational change of the DNA substrate alone may not explain the stimulation of the relaxation activity of E.coli Topo I by E.coli RecA.
[ "1", "2" ]
146
3,839
0
false
Thus, conformational change of the DNA substrate alone may not explain the stimulation of the relaxation activity of E.coli Topo I by E.coli RecA.
[]
Thus, conformational change of the DNA substrate alone may not explain the stimulation of the relaxation activity of E.coli Topo I by E.coli RecA.
true
true
true
true
true
643
5
DISCUSSION
1
53
[ "b53" ]
17,151,069
pmid-3029031|pmid-2845101|pmid-15535862|pmid-17009874|pmid-17009874|pmid-15690043
The observed specificity of the effect of RecA on type IA topoisomerases supports a possible involvement of a protein–protein interaction between E.coli RecA and E.coli Topo I in RecA-mediated stimulation of Topo I activity.
[ "53" ]
224
3,840
0
false
The observed specificity of the effect of RecA on type IA topoisomerases supports a possible involvement of a protein–protein interaction between E.coli RecA and E.coli Topo I in RecA-mediated stimulation of Topo I activity.
[]
The observed specificity of the effect of RecA on type IA topoisomerases supports a possible involvement of a protein–protein interaction between E.coli RecA and E.coli Topo I in RecA-mediated stimulation of Topo I activity.
true
true
true
true
true
644
5
DISCUSSION
1
53
[ "b53" ]
17,151,069
pmid-3029031|pmid-2845101|pmid-15535862|pmid-17009874|pmid-17009874|pmid-15690043
So far, we failed to detect any direct interaction between purified RecA and Topo I proteins in solution (data not shown) and the RecA–Topo I interaction was not detected in a systematic identification of protein–protein interactions in E.coli (53).
[ "53" ]
249
3,841
1
false
So far, we failed to detect any direct interaction between purified RecA and Topo I proteins in solution (data not shown) and the RecA–Topo I interaction was not detected in a systematic identification of protein–protein interactions in E.coli.
[ "53" ]
So far, we failed to detect any direct interaction between purified RecA and Topo I proteins in solution (data not shown) and the RecA–Topo I interaction was not detected in a systematic identification of protein–protein interactions in E.coli.
true
true
true
true
true
644
5
DISCUSSION
1
53
[ "b53" ]
17,151,069
pmid-3029031|pmid-2845101|pmid-15535862|pmid-17009874|pmid-17009874|pmid-15690043
Further studies are necessary to determine the molecular mechanism of the functional interaction between E.coli RecA and E.coli Topo I.
[ "53" ]
135
3,842
0
false
Further studies are necessary to determine the molecular mechanism of the functional interaction between E.coli RecA and E.coli Topo I.
[]
Further studies are necessary to determine the molecular mechanism of the functional interaction between E.coli RecA and E.coli Topo I.
true
true
true
true
true
644
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4", "B5" ]
17,311,810
pmid-10346817|pmid-16828797|pmid-16025134|pmid-12641472|pmid-15998469
Co-expression of subunits is an important technique in the study of protein complexes.
[ "1", "2", "3", "4", "5" ]
86
3,843
0
false
Co-expression of subunits is an important technique in the study of protein complexes.
[]
Co-expression of subunits is an important technique in the study of protein complexes.
true
true
true
true
true
645
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4", "B5" ]
17,311,810
pmid-10346817|pmid-16828797|pmid-16025134|pmid-12641472|pmid-15998469
Proteins that form tight complexes with partners may not be soluble when over-expressed alone (1).
[ "1", "2", "3", "4", "5" ]
98
3,844
1
false
Proteins that form tight complexes with partners may not be soluble when over-expressed alone.
[ "1" ]
Proteins that form tight complexes with partners may not be soluble when over-expressed alone.
true
true
true
true
true
645
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4", "B5" ]
17,311,810
pmid-10346817|pmid-16828797|pmid-16025134|pmid-12641472|pmid-15998469
Proteins that form stable homodimers may only form heterodimers upon co-expression, but not by mixing the purified complex partners (2,3).
[ "1", "2", "3", "4", "5" ]
138
3,845
0
false
Proteins that form stable homodimers may only form heterodimers upon co-expression, but not by mixing the purified complex partners.
[ "2,3" ]
Proteins that form stable homodimers may only form heterodimers upon co-expression, but not by mixing the purified complex partners.
true
true
true
true
true
645
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4", "B5" ]
17,311,810
pmid-10346817|pmid-16828797|pmid-16025134|pmid-12641472|pmid-15998469
The Protein Structure Factory has established high throughput protein expression procedures for human proteins in E. coli (4,5).
[ "1", "2", "3", "4", "5" ]
128
3,846
0
false
The Protein Structure Factory has established high throughput protein expression procedures for human proteins in E. coli.
[ "4,5" ]
The Protein Structure Factory has established high throughput protein expression procedures for human proteins in E. coli.
true
true
true
true
true
645
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4", "B5" ]
17,311,810
pmid-10346817|pmid-16828797|pmid-16025134|pmid-12641472|pmid-15998469
To achieve co-expression in a systematic way we have created a new vector system described here.
[ "1", "2", "3", "4", "5" ]
96
3,847
0
false
To achieve co-expression in a systematic way we have created a new vector system described here.
[]
To achieve co-expression in a systematic way we have created a new vector system described here.
true
true
true
true
true
645
1
INTRODUCTION
1
6
[ "B6", "B7", "B8", "B9", "B10", "B11" ]
17,311,810
pmid-11515368|pmid-11483011|pmid-15766881|pmid-9415447|pmid-15133160|pmid-17001100
Co-expression is often achieved with two or more plasmids, each carrying the gene of one subunit and a different selection marker (6).
[ "6", "7", "8", "9", "10", "11" ]
134
3,848
1
false
Co-expression is often achieved with two or more plasmids, each carrying the gene of one subunit and a different selection marker.
[ "6" ]
Co-expression is often achieved with two or more plasmids, each carrying the gene of one subunit and a different selection marker.
true
true
true
true
true
646
1
INTRODUCTION
1
7
[ "B6", "B7", "B8", "B9", "B10", "B11" ]
17,311,810
pmid-11515368|pmid-11483011|pmid-15766881|pmid-9415447|pmid-15133160|pmid-17001100
The plasmids should also have different compatible replicons, although co-expression with plasmids that have the same replicon has been demonstrated (7).
[ "6", "7", "8", "9", "10", "11" ]
153
3,849
1
false
The plasmids should also have different compatible replicons, although co-expression with plasmids that have the same replicon has been demonstrated.
[ "7" ]
The plasmids should also have different compatible replicons, although co-expression with plasmids that have the same replicon has been demonstrated.
true
true
true
true
true
646
1
INTRODUCTION
1
6
[ "B6", "B7", "B8", "B9", "B10", "B11" ]
17,311,810
pmid-11515368|pmid-11483011|pmid-15766881|pmid-9415447|pmid-15133160|pmid-17001100
Instead of multiple vectors, several genes can be inserted into the same vector.
[ "6", "7", "8", "9", "10", "11" ]
80
3,850
0
false
Instead of multiple vectors, several genes can be inserted into the same vector.
[]
Instead of multiple vectors, several genes can be inserted into the same vector.
true
true
true
true
true
646
1
INTRODUCTION
1
8
[ "B6", "B7", "B8", "B9", "B10", "B11" ]
17,311,810
pmid-11515368|pmid-11483011|pmid-15766881|pmid-9415447|pmid-15133160|pmid-17001100
This requires a vector with more than one multiple cloning site and the use of different sets of restriction enzymes for each cloning step (8).
[ "6", "7", "8", "9", "10", "11" ]
143
3,851
1
false
This requires a vector with more than one multiple cloning site and the use of different sets of restriction enzymes for each cloning step.
[ "8" ]
This requires a vector with more than one multiple cloning site and the use of different sets of restriction enzymes for each cloning step.
true
true
true
true
true
646
1
INTRODUCTION
1
6
[ "B6", "B7", "B8", "B9", "B10", "B11" ]
17,311,810
pmid-11515368|pmid-11483011|pmid-15766881|pmid-9415447|pmid-15133160|pmid-17001100
Genes are transcribed either from individual promoters or from a single promoter, leading to a long polycistronic mRNA.
[ "6", "7", "8", "9", "10", "11" ]
119
3,852
0
false
Genes are transcribed either from individual promoters or from a single promoter, leading to a long polycistronic mRNA.
[]
Genes are transcribed either from individual promoters or from a single promoter, leading to a long polycistronic mRNA.
true
true
true
true
true
646
1
INTRODUCTION
1
9
[ "B6", "B7", "B8", "B9", "B10", "B11" ]
17,311,810
pmid-11515368|pmid-11483011|pmid-15766881|pmid-9415447|pmid-15133160|pmid-17001100
Polycistronic expression has been reported to lead to lower expression of the more downstream encoded protein, which can be exploited to influence the stoichiometry of a protein complex (9).
[ "6", "7", "8", "9", "10", "11" ]
190
3,853
1
false
Polycistronic expression has been reported to lead to lower expression of the more downstream encoded protein, which can be exploited to influence the stoichiometry of a protein complex.
[ "9" ]
Polycistronic expression has been reported to lead to lower expression of the more downstream encoded protein, which can be exploited to influence the stoichiometry of a protein complex.
true
true
true
true
true
646
1
INTRODUCTION
1
10
[ "B6", "B7", "B8", "B9", "B10", "B11" ]
17,311,810
pmid-11515368|pmid-11483011|pmid-15766881|pmid-9415447|pmid-15133160|pmid-17001100
Several-fold higher expression with individual promoters compared to polycistronic transcription has been reported (10).
[ "6", "7", "8", "9", "10", "11" ]
120
3,854
1
false
Several-fold higher expression with individual promoters compared to polycistronic transcription has been reported.
[ "10" ]
Several-fold higher expression with individual promoters compared to polycistronic transcription has been reported.
true
true
true
true
true
646
1
INTRODUCTION
1
11
[ "B6", "B7", "B8", "B9", "B10", "B11" ]
17,311,810
pmid-11515368|pmid-11483011|pmid-15766881|pmid-9415447|pmid-15133160|pmid-17001100
A recent evaluation of co-expression experiments performed by the Structural Proteomics in Europe (SPINE) consortium compared examples of co-expression with various systems (11).
[ "6", "7", "8", "9", "10", "11" ]
178
3,855
1
false
A recent evaluation of co-expression experiments performed by the Structural Proteomics in Europe (SPINE) consortium compared examples of co-expression with various systems.
[ "11" ]
A recent evaluation of co-expression experiments performed by the Structural Proteomics in Europe (SPINE) consortium compared examples of co-expression with various systems.
true
true
true
true
true
646
2
INTRODUCTION
1
12
[ "B12", "B13" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
The pETDuet system of Novagen allows construction of a co-expression plasmid for two genes in a single PCR step.
[ "12", "13" ]
112
3,856
0
false
The pETDuet system of Novagen allows construction of a co-expression plasmid for two genes in a single PCR step.
[]
The pETDuet system of Novagen allows construction of a co-expression plasmid for two genes in a single PCR step.
true
true
true
true
true
647
2
INTRODUCTION
1
12
[ "B12", "B13" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
Alternative approaches to co-expression from a single vector require different sets of restriction enzymes for multiple insertions.
[ "12", "13" ]
131
3,857
0
false
Alternative approaches to co-expression from a single vector require different sets of restriction enzymes for multiple insertions.
[]
Alternative approaches to co-expression from a single vector require different sets of restriction enzymes for multiple insertions.
true
true
true
true
true
647
2
INTRODUCTION
1
12
[ "B12", "B13" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
Berger et al.
[ "12", "13" ]
13
3,858
0
false
Berger et al.
[]
Berger et al.
true
true
true
true
true
647
2
INTRODUCTION
1
12
[ "B12", "B13" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
have developed a Baculovirus co-expression system that allows iterative addition of genes to a Baculovirus vector (12).
[ "12", "13" ]
119
3,859
1
false
have developed a Baculovirus co-expression system that allows iterative addition of genes to a Baculovirus vector.
[ "12" ]
have developed a Baculovirus co-expression system that allows iterative addition of genes to a Baculovirus vector.
false
true
true
true
false
647
2
INTRODUCTION
1
12
[ "B12", "B13" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
Alexandrov et al.
[ "12", "13" ]
17
3,860
0
false
Alexandrov et al.
[]
Alexandrov et al.
true
true
true
true
true
647
2
INTRODUCTION
1
13
[ "B12", "B13" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
have developed a vector with a ‘LINK’ sequence that allows fusion of two plasmids into one (13).
[ "12", "13" ]
96
3,861
1
false
have developed a vector with a ‘LINK’ sequence that allows fusion of two plasmids into one.
[ "13" ]
have developed a vector with a ‘LINK’ sequence that allows fusion of two plasmids into one.
false
true
true
true
false
647
2
INTRODUCTION
1
12
[ "B12", "B13" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
The method allows cloning of all cDNAs of interest into one standard expression vector by a standardized, high-throughput procedure.
[ "12", "13" ]
132
3,862
0
false
The method allows cloning of all cDNAs of interest into one standard expression vector by a standardized, high-throughput procedure.
[]
The method allows cloning of all cDNAs of interest into one standard expression vector by a standardized, high-throughput procedure.
true
true
true
true
true
647
2
INTRODUCTION
1
12
[ "B12", "B13" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
Then, co-expression plasmids are generated by fusion of LINK sequences with the ligation-independent cloning method (LIC) that avoids PCR, which may introduce mutations.
[ "12", "13" ]
169
3,863
0
false
Then, co-expression plasmids are generated by fusion of LINK sequences with the ligation-independent cloning method (LIC) that avoids PCR, which may introduce mutations.
[]
Then, co-expression plasmids are generated by fusion of LINK sequences with the ligation-independent cloning method (LIC) that avoids PCR, which may introduce mutations.
true
true
true
true
true
647
2
INTRODUCTION
1
12
[ "B12", "B13" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
Two alternative rare cutting restriction enzymes are used.
[ "12", "13" ]
58
3,864
0
false
Two alternative rare cutting restriction enzymes are used.
[]
Two alternative rare cutting restriction enzymes are used.
true
true
true
true
true
647
2
INTRODUCTION
1
12
[ "B12", "B13" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
Inserts to be cloned are unlikely to contain both sites.
[ "12", "13" ]
56
3,865
0
false
Inserts to be cloned are unlikely to contain both sites.
[]
Inserts to be cloned are unlikely to contain both sites.
true
true
true
true
true
647
2
INTRODUCTION
1
12
[ "B12", "B13" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
The method is limited to co-expression of two proteins.
[ "12", "13" ]
55
3,866
0
false
The method is limited to co-expression of two proteins.
[]
The method is limited to co-expression of two proteins.
true
true
true
true
true
647
3
INTRODUCTION
0
null
null
17,311,810
null
We have designed a modified version of the LINK sequence cloning technique.
null
75
3,867
0
false
null
null
We have designed a modified version of the LINK sequence cloning technique.
true
true
true
true
true
648
3
INTRODUCTION
0
null
null
17,311,810
null
Vectors with two modified LINK sequences were created that allow the creation of co-expression plasmids by the established LINK cloning procedure but avoid the duplication of the vector backbone.
null
195
3,868
0
false
null
null
Vectors with two modified LINK sequences were created that allow the creation of co-expression plasmids by the established LINK cloning procedure but avoid the duplication of the vector backbone.
true
true
true
true
true
648
3
INTRODUCTION
0
null
null
17,311,810
null
In principle, the vectors can accept an unlimited number of genes to be co-expressed.
null
85
3,869
0
false
null
null
In principle, the vectors can accept an unlimited number of genes to be co-expressed.
true
true
true
true
true
648
4
INTRODUCTION
1
14
[ "B14", "B15", "B16" ]
17,311,810
pmid-15331598|pmid-16275660|pmid-10698928|pmid-15568020
To demonstrate the usefulness of the method, co-expression and binding of VCP and the C-terminus of AMFR (14,15) is demonstrated.
[ "14", "15", "16" ]
129
3,870
0
false
To demonstrate the usefulness of the method, co-expression and binding of VCP and the C-terminus of AMFR is demonstrated.
[ "14,15" ]
To demonstrate the usefulness of the method, co-expression and binding of VCP and the C-terminus of AMFR is demonstrated.
true
true
true
true
true
649
4
INTRODUCTION
1
16
[ "B14", "B15", "B16" ]
17,311,810
pmid-15331598|pmid-16275660|pmid-10698928|pmid-15568020
In addition, the co-expression of four subunits of the human transport protein particle (TRAPP) (16) from a single plasmid and an analysis of their stoichiometry is shown.
[ "14", "15", "16" ]
171
3,871
1
false
In addition, the co-expression of four subunits of the human transport protein particle (TRAPP) from a single plasmid and an analysis of their stoichiometry is shown.
[ "16" ]
In addition, the co-expression of four subunits of the human transport protein particle (TRAPP) from a single plasmid and an analysis of their stoichiometry is shown.
true
true
true
true
true
649
0
DISCUSSION
0
null
null
17,311,810
pmid-10346817|pmid-16828797|pmid-16025134|pmid-12641472|pmid-15998469
The vectors described here allow generation of expression clones for His-tag and GST-tag fusion proteins and untagged proteins by restriction enzyme or Gateway recombination-based methods.
null
188
3,872
0
false
null
null
The vectors described here allow generation of expression clones for His-tag and GST-tag fusion proteins and untagged proteins by restriction enzyme or Gateway recombination-based methods.
true
true
true
true
true
650
0
DISCUSSION
0
null
null
17,311,810
pmid-10346817|pmid-16828797|pmid-16025134|pmid-12641472|pmid-15998469
The vectors are capable of expressing single proteins and can be converted into co-expression plasmids by a simple, PCR-free LIC reaction that is suitable for high-throughput projects.
null
184
3,873
0
false
null
null
The vectors are capable of expressing single proteins and can be converted into co-expression plasmids by a simple, PCR-free LIC reaction that is suitable for high-throughput projects.
true
true
true
true
true
650
0
DISCUSSION
0
null
null
17,311,810
pmid-10346817|pmid-16828797|pmid-16025134|pmid-12641472|pmid-15998469
Any combination of pQLink plasmids is possible.
null
47
3,874
0
false
null
null
Any combination of pQLink plasmids is possible.
true
true
true
true
true
650
0
DISCUSSION
0
null
null
17,311,810
pmid-10346817|pmid-16828797|pmid-16025134|pmid-12641472|pmid-15998469
The use of different tags or the combination of tagged and untagged complex subunits facilitates the production of homogenous complex preparations.
null
147
3,875
0
false
null
null
The use of different tags or the combination of tagged and untagged complex subunits facilitates the production of homogenous complex preparations.
true
true
true
true
true
650
1
DISCUSSION
0
null
null
17,311,810
pmid-11515368|pmid-11483011|pmid-15766881|pmid-9415447|pmid-15133160|pmid-17001100
The presence of an internal SwaI or PacI site in the gene of interest would prevent the use of the system.
null
106
3,876
0
false
null
null
The presence of an internal SwaI or PacI site in the gene of interest would prevent the use of the system.
true
true
true
true
true
651
1
DISCUSSION
0
null
null
17,311,810
pmid-11515368|pmid-11483011|pmid-15766881|pmid-9415447|pmid-15133160|pmid-17001100
However, SwaI and PacI are rarely cutting enzymes with eight base pair recognition sites, and one is free to choose either PacI or SwaI for a given gene.
null
153
3,877
0
false
null
null
However, SwaI and PacI are rarely cutting enzymes with eight base pair recognition sites, and one is free to choose either PacI or SwaI for a given gene.
true
true
true
true
true
651
1
DISCUSSION
0
null
null
17,311,810
pmid-11515368|pmid-11483011|pmid-15766881|pmid-9415447|pmid-15133160|pmid-17001100
Therefore we expect that almost all genes of interest can be converted into co-expression clones.
null
97
3,878
0
false
null
null
Therefore we expect that almost all genes of interest can be converted into co-expression clones.
true
true
true
true
true
651
1
DISCUSSION
0
null
null
17,311,810
pmid-11515368|pmid-11483011|pmid-15766881|pmid-9415447|pmid-15133160|pmid-17001100
The comparison of yields showed that this expression system works equally well as the pETDuet system.
null
101
3,879
0
false
null
null
The comparison of yields showed that this expression system works equally well as the pETDuet system.
true
true
true
true
true
651
2
DISCUSSION
1
20
[ "B20" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
The specific interaction of a C-terminal region of AMFR with VCP was confirmed.
[ "20" ]
79
3,880
0
false
The specific interaction of a C-terminal region of AMFR with VCP was confirmed.
[]
The specific interaction of a C-terminal region of AMFR with VCP was confirmed.
true
true
true
true
true
652
2
DISCUSSION
1
20
[ "B20" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
Co-expression of the four TRAPP subunits Bet3, Tpc6, Mum2 and synbindin was demonstrated.
[ "20" ]
89
3,881
0
false
Co-expression of the four TRAPP subunits Bet3, Tpc6, Mum2 and synbindin was demonstrated.
[]
Co-expression of the four TRAPP subunits Bet3, Tpc6, Mum2 and synbindin was demonstrated.
true
true
true
true
true
652
2
DISCUSSION
1
20
[ "B20" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
Figure 3 shows that co-expression generally does not decrease the yield of individual proteins.
[ "20" ]
95
3,882
0
false
Figure 3 shows that co-expression generally does not decrease the yield of individual proteins.
[]
Figure 3 shows that co-expression generally does not decrease the yield of individual proteins.
true
true
true
true
true
652
2
DISCUSSION
1
20
[ "B20" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
On the contrary, all four proteins were obtained with similar or increased yield upon co-expression and affinity purification.
[ "20" ]
126
3,883
0
false
On the contrary, all four proteins were obtained with similar or increased yield upon co-expression and affinity purification.
[]
On the contrary, all four proteins were obtained with similar or increased yield upon co-expression and affinity purification.
true
true
true
true
true
652
2
DISCUSSION
1
20
[ "B20" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
Gel filtration revealed that the four TRAPP subunits form a heterotetramer containing one molecule of each of the four TRAPP subunits.
[ "20" ]
134
3,884
0
false
Gel filtration revealed that the four TRAPP subunits form a heterotetramer containing one molecule of each of the four TRAPP subunits.
[]
Gel filtration revealed that the four TRAPP subunits form a heterotetramer containing one molecule of each of the four TRAPP subunits.
true
true
true
true
true
652
2
DISCUSSION
1
20
[ "B20" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
Bet3, Tpc6 and Mum2 without synbindin form a complex of similar size, which suggests that this complex is also a tetramer that might include two Mum2 molecules.
[ "20" ]
160
3,885
0
false
Bet3, Tpc6 and Mum2 without synbindin form a complex of similar size, which suggests that this complex is also a tetramer that might include two Mum2 molecules.
[]
Bet3, Tpc6 and Mum2 without synbindin form a complex of similar size, which suggests that this complex is also a tetramer that might include two Mum2 molecules.
true
true
true
true
true
652
2
DISCUSSION
1
20
[ "B20" ]
17,311,810
pmid-15568020|pmid-15240823|pmid-17027922
These findings agree with a recent study that identified TRAPP subcomplexes consisting of Bet3:Tpc6:Mum2 and Mum2:synbindin, respectively (20).
[ "20" ]
143
3,886
1
false
These findings agree with a recent study that identified TRAPP subcomplexes consisting of Bet3:Tpc6:Mum2 and Mum2:synbindin, respectively.
[ "20" ]
These findings agree with a recent study that identified TRAPP subcomplexes consisting of Bet3:Tpc6:Mum2 and Mum2:synbindin, respectively.
true
true
true
true
true
652
3
DISCUSSION
0
null
null
17,311,810
null
In addition to the co-expressions documented here, we generated co-expression constructs for 20 other pairs of human proteins using the Gateway pQLink vectors.
null
159
3,887
0
false
null
null
In addition to the co-expressions documented here, we generated co-expression constructs for 20 other pairs of human proteins using the Gateway pQLink vectors.
true
true
true
true
true
653
3
DISCUSSION
0
null
null
17,311,810
null
Cloning was robust and expression levels of individual and co-expressed proteins were similar in virtually all cases (data not shown).
null
134
3,888
0
false
null
null
Cloning was robust and expression levels of individual and co-expressed proteins were similar in virtually all cases (data not shown).
true
true
true
true
true
653
3
DISCUSSION
0
null
null
17,311,810
null
This further demonstrates the robustness of our method.
null
55
3,889
0
false
null
null
This further demonstrates the robustness of our method.
true
true
true
true
true
653
4
DISCUSSION
1
12
[ "B12" ]
17,311,810
pmid-15331598|pmid-16275660|pmid-10698928|pmid-15568020
In principle, there is no limit to the number of proteins that can be co-expressed, even though one should expect that the cloning efficiency decreases as the size of the plasmid constructs increases.
[ "12" ]
200
3,890
0
false
In principle, there is no limit to the number of proteins that can be co-expressed, even though one should expect that the cloning efficiency decreases as the size of the plasmid constructs increases.
[]
In principle, there is no limit to the number of proteins that can be co-expressed, even though one should expect that the cloning efficiency decreases as the size of the plasmid constructs increases.
true
true
true
true
true
654
4
DISCUSSION
1
12
[ "B12" ]
17,311,810
pmid-15331598|pmid-16275660|pmid-10698928|pmid-15568020
It seems likely that our method can be transferred to expression host systems other than E. coli.
[ "12" ]
97
3,891
0
false
It seems likely that our method can be transferred to expression host systems other than E. coli.
[]
It seems likely that our method can be transferred to expression host systems other than E. coli.
true
true
true
true
true
654
4
DISCUSSION
1
12
[ "B12" ]
17,311,810
pmid-15331598|pmid-16275660|pmid-10698928|pmid-15568020
For Baculovirus vectors, a co-expression system that also relies on duplication of expression cassettes including promoters and transcription terminators has been described (12).
[ "12" ]
178
3,892
1
false
For Baculovirus vectors, a co-expression system that also relies on duplication of expression cassettes including promoters and transcription terminators has been described.
[ "12" ]
For Baculovirus vectors, a co-expression system that also relies on duplication of expression cassettes including promoters and transcription terminators has been described.
true
true
true
true
true
654
4
DISCUSSION
1
12
[ "B12" ]
17,311,810
pmid-15331598|pmid-16275660|pmid-10698928|pmid-15568020
This demonstrates that duplication of promoters and terminators in a Baculovirus vector is unproblematic as has been shown by Alexandrov et al.
[ "12" ]
143
3,893
0
false
This demonstrates that duplication of promoters and terminators in a Baculovirus vector is unproblematic as has been shown by Alexandrov et al.
[]
This demonstrates that duplication of promoters and terminators in a Baculovirus vector is unproblematic as has been shown by Alexandrov et al.
true
true
true
true
true
654
4
DISCUSSION
1
12
[ "B12" ]
17,311,810
pmid-15331598|pmid-16275660|pmid-10698928|pmid-15568020
and in our work with E. coli vectors.
[ "12" ]
37
3,894
0
false
and in our work with E. coli vectors.
[]
and in our work with E. coli vectors.
false
true
true
true
false
654
0
INTRODUCTION
1
1–3
[ "B1 B2 B3", "B4 B5 B6 B7", "B6", "B8", "B6", "B9 B10 B11 B12 B13 B14 B15" ]
17,344,318
pmid-9097727|pmid-10630639|pmid-9407023|pmid-10921899|pmid-15829953|pmid-15372092|NA|pmid-15372092|pmid-9233789|pmid-15372092|pmid-9727977|pmid-10201372|pmid-10318916|pmid-10514384|pmid-12183361|pmid-12200448|pmid-15592430|pmid-9097727|pmid-10630639|pmid-9407023|pmid-10921899|pmid-15829953|pmid-15372092|NA
β-Catenin is a key component of the canonical Wnt signaling pathway, which regulates a variety of developmental processes including cell growth and differentiation (1–3).
[ "1–3", "4–7", "6", "8", "6", "9–15" ]
170
3,895
1
false
β-Catenin is a key component of the canonical Wnt signaling pathway, which regulates a variety of developmental processes including cell growth and differentiation.
[ "1–3" ]
β-Catenin is a key component of the canonical Wnt signaling pathway, which regulates a variety of developmental processes including cell growth and differentiation.
false
true
true
true
false
655
0
INTRODUCTION
1
4–7
[ "B1 B2 B3", "B4 B5 B6 B7", "B6", "B8", "B6", "B9 B10 B11 B12 B13 B14 B15" ]
17,344,318
pmid-9097727|pmid-10630639|pmid-9407023|pmid-10921899|pmid-15829953|pmid-15372092|NA|pmid-15372092|pmid-9233789|pmid-15372092|pmid-9727977|pmid-10201372|pmid-10318916|pmid-10514384|pmid-12183361|pmid-12200448|pmid-15592430|pmid-9097727|pmid-10630639|pmid-9407023|pmid-10921899|pmid-15829953|pmid-15372092|NA
Inappropriate activation of the Wnt signaling pathway is implicated in the development of certain cancers, such as colon cancer (4–7).
[ "1–3", "4–7", "6", "8", "6", "9–15" ]
134
3,896
1
false
Inappropriate activation of the Wnt signaling pathway is implicated in the development of certain cancers, such as colon cancer.
[ "4–7" ]
Inappropriate activation of the Wnt signaling pathway is implicated in the development of certain cancers, such as colon cancer.
true
true
true
true
true
655
0
INTRODUCTION
1
1–3
[ "B1 B2 B3", "B4 B5 B6 B7", "B6", "B8", "B6", "B9 B10 B11 B12 B13 B14 B15" ]
17,344,318
pmid-9097727|pmid-10630639|pmid-9407023|pmid-10921899|pmid-15829953|pmid-15372092|NA|pmid-15372092|pmid-9233789|pmid-15372092|pmid-9727977|pmid-10201372|pmid-10318916|pmid-10514384|pmid-12183361|pmid-12200448|pmid-15592430|pmid-9097727|pmid-10630639|pmid-9407023|pmid-10921899|pmid-15829953|pmid-15372092|NA
In the absence of Wnt ligands, cytoplasmic β-catenin levels are kept low through continuous proteasome-mediated degradation, which is controlled by a complex that contains adenomatous polyposis coli (APC), axin and glycogen synthase kinase-3β (GSK-3).
[ "1–3", "4–7", "6", "8", "6", "9–15" ]
251
3,897
0
false
In the absence of Wnt ligands, cytoplasmic β-catenin levels are kept low through continuous proteasome-mediated degradation, which is controlled by a complex that contains adenomatous polyposis coli (APC), axin and glycogen synthase kinase-3β (GSK-3).
[]
In the absence of Wnt ligands, cytoplasmic β-catenin levels are kept low through continuous proteasome-mediated degradation, which is controlled by a complex that contains adenomatous polyposis coli (APC), axin and glycogen synthase kinase-3β.
true
true
true
true
true
655
0
INTRODUCTION
1
1–3
[ "B1 B2 B3", "B4 B5 B6 B7", "B6", "B8", "B6", "B9 B10 B11 B12 B13 B14 B15" ]
17,344,318
pmid-9097727|pmid-10630639|pmid-9407023|pmid-10921899|pmid-15829953|pmid-15372092|NA|pmid-15372092|pmid-9233789|pmid-15372092|pmid-9727977|pmid-10201372|pmid-10318916|pmid-10514384|pmid-12183361|pmid-12200448|pmid-15592430|pmid-9097727|pmid-10630639|pmid-9407023|pmid-10921899|pmid-15829953|pmid-15372092|NA
These proteins promote the phosphorylation of serine and threonine residues in the NH2-terminal region of β-catenin, and target it for degradation by the ubiquitin-dependent proteasome degradation pathway (6,8).
[ "1–3", "4–7", "6", "8", "6", "9–15" ]
211
3,898
0
false
These proteins promote the phosphorylation of serine and threonine residues in the NH2-terminal region of β-catenin, and target it for degradation by the ubiquitin-dependent proteasome degradation pathway.
[ "6,8" ]
These proteins promote the phosphorylation of serine and threonine residues in the NH2-terminal region of β-catenin, and target it for degradation by the ubiquitin-dependent proteasome degradation pathway.
true
true
true
true
true
655
0
INTRODUCTION
1
1–3
[ "B1 B2 B3", "B4 B5 B6 B7", "B6", "B8", "B6", "B9 B10 B11 B12 B13 B14 B15" ]
17,344,318
pmid-9097727|pmid-10630639|pmid-9407023|pmid-10921899|pmid-15829953|pmid-15372092|NA|pmid-15372092|pmid-9233789|pmid-15372092|pmid-9727977|pmid-10201372|pmid-10318916|pmid-10514384|pmid-12183361|pmid-12200448|pmid-15592430|pmid-9097727|pmid-10630639|pmid-9407023|pmid-10921899|pmid-15829953|pmid-15372092|NA
Upon Wnt signaling, the degradation pathway is inhibited, and subsequently β-catenin accumulates in the cytoplasm and nucleus.
[ "1–3", "4–7", "6", "8", "6", "9–15" ]
126
3,899
0
false
Upon Wnt signaling, the degradation pathway is inhibited, and subsequently β-catenin accumulates in the cytoplasm and nucleus.
[]
Upon Wnt signaling, the degradation pathway is inhibited, and subsequently β-catenin accumulates in the cytoplasm and nucleus.
true
true
true
true
true
655