software-based image registration matlab version 9.0.0 Search Results


matlab 2015 software  (MathWorks Inc)
90
MathWorks Inc matlab 2015 software
Matlab 2015 Software, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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matlab 2019b software  (MathWorks Inc)
90
MathWorks Inc matlab 2019b software
Matlab 2019b Software, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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matlab/simulink software  (MathWorks Inc)
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MathWorks Inc matlab/simulink software
Matlab/Simulink Software, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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matlab r2016a  (MathWorks Inc)
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MathWorks Inc matlab r2016a
Matlab R2016a, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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3t siemens magnetom trio tim  (Siemens AG)
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Siemens AG 3t siemens magnetom trio tim
The veganbagel workflow. Standardized preprocessing (yellow box) of a <t>3D</t> <t>T1w</t> MRI results in a normalized, smoothed gray matter map, which is compared to its age- and sex-specific gray matter templates (green box) to generate a z-map (red box). The z-map is afterwards color-coded and fused with the original T1w images
3t Siemens Magnetom Trio Tim, supplied by Siemens AG, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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cat12  (MathWorks Inc)
90
MathWorks Inc cat12
The veganbagel workflow. Standardized preprocessing (yellow box) of a <t>3D</t> <t>T1w</t> MRI results in a normalized, smoothed gray matter map, which is compared to its age- and sex-specific gray matter templates (green box) to generate a z-map (red box). The z-map is afterwards color-coded and fused with the original T1w images
Cat12, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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r2015a  (MathWorks Inc)
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MathWorks Inc r2015a
KEY RESOURCES TABLE
R2015a, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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aluminum tube  (Eppendorf AG)
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Eppendorf AG aluminum tube
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Aluminum Tube, supplied by Eppendorf AG, used in various techniques. Bioz Stars score: 96/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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e. coli tuner ™ (de3  (Millipore)
90
Millipore e. coli tuner ™ (de3
(A) 3-dimensional structure of <t>E.</t> <t>coli</t> 30S ribosomal subunit with labeling sites for Cy5-S3 and Cy5.5-S7 (PDB accession code: 4V9P); the Cy3 dye of the labeled DNA oligonucleotide binding to the 3’-end of the nascent RNA is modeled into the structure. (B) Experimental setup: 100 nM Cy5-S3, 5 nM Cy5.5-S7 and 400 nM of all the other unlabeled 3’domain r-proteins were injected; 35 °C. (C) Representative single-molecule trace with Cy5-S3 (red), Cy5.5-S7 (purple) and Cy3-oligo (green). The trace was not corrected for fluorescence spectral bleed-through from the Cy5 into the Cy5.5 channel and the reverse. (D) The first Cy5-S3 binding event always follows the final Cy5.5-S7 binding event demonstrating sequential ribosome assembly. (E) The assembly process from stable S7 incorporation until 3’domain completion is slow, indicating that RNA conformational changes are also required later in assembly. Number of molecules analyzed in (D and E) (n) = 64. See also Figure S7 and Data S2.
E. Coli Tuner ™ (De3, supplied by Millipore, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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protocatechuate-3,4-dioxygenase (pcd  (Pacific Biosciences)
90
Pacific Biosciences protocatechuate-3,4-dioxygenase (pcd
(A) 3-dimensional structure of <t>E.</t> <t>coli</t> 30S ribosomal subunit with labeling sites for Cy5-S3 and Cy5.5-S7 (PDB accession code: 4V9P); the Cy3 dye of the labeled DNA oligonucleotide binding to the 3’-end of the nascent RNA is modeled into the structure. (B) Experimental setup: 100 nM Cy5-S3, 5 nM Cy5.5-S7 and 400 nM of all the other unlabeled 3’domain r-proteins were injected; 35 °C. (C) Representative single-molecule trace with Cy5-S3 (red), Cy5.5-S7 (purple) and Cy3-oligo (green). The trace was not corrected for fluorescence spectral bleed-through from the Cy5 into the Cy5.5 channel and the reverse. (D) The first Cy5-S3 binding event always follows the final Cy5.5-S7 binding event demonstrating sequential ribosome assembly. (E) The assembly process from stable S7 incorporation until 3’domain completion is slow, indicating that RNA conformational changes are also required later in assembly. Number of molecules analyzed in (D and E) (n) = 64. See also Figure S7 and Data S2.
Protocatechuate 3,4 Dioxygenase (Pcd, supplied by Pacific Biosciences, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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prsf 1b s7 s83c delta157  (Addgene inc)
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Addgene inc prsf 1b s7 s83c delta157
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Prsf 1b S7 S83c Delta157, supplied by Addgene inc, used in various techniques. Bioz Stars score: 91/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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prsf 1b s13 c85s p112c  (Addgene inc)
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Addgene inc prsf 1b s13 c85s p112c
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Prsf 1b S13 C85s P112c, supplied by Addgene inc, used in various techniques. Bioz Stars score: 91/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Image Search Results


The veganbagel workflow. Standardized preprocessing (yellow box) of a 3D T1w MRI results in a normalized, smoothed gray matter map, which is compared to its age- and sex-specific gray matter templates (green box) to generate a z-map (red box). The z-map is afterwards color-coded and fused with the original T1w images

Journal: European Radiology

Article Title: Automated age- and sex-specific volumetric estimation of regional brain atrophy: workflow and feasibility

doi: 10.1007/s00330-020-07196-8

Figure Lengend Snippet: The veganbagel workflow. Standardized preprocessing (yellow box) of a 3D T1w MRI results in a normalized, smoothed gray matter map, which is compared to its age- and sex-specific gray matter templates (green box) to generate a z-map (red box). The z-map is afterwards color-coded and fused with the original T1w images

Article Snippet: 3D T1w cerebral MRIs (3T Siemens MAGNETOM Trio Tim, TR = 1900 ms, TE = 2.52 ms, TI = 900 ms, flip angle = 9°, FoV = 250 mm, matrix = 256x256, 176 slices, slice thickness = 1.0 mm) of 693 healthy subjects aged between 16 and 77 years from the publicly available, population-based enhanced NKI Rockland Sample were preprocessed in a standardized way: T1w images were segmented and normalized to MNI152 standard reference space [ ] as implemented in the Computational Anatomy Toolbox (CAT12; http://www.neuro.uni-jena.de/cat/index.html ) for SPM12 ( https://www.fil.ion.ucl.ac.uk/spm/software/spm12/ ) in MATLAB (The MathWorks, Inc).

Techniques:

KEY RESOURCES TABLE

Journal: Cell

Article Title: Transient protein-RNA interactions guide nascent ribosomal RNA folding

doi: 10.1016/j.cell.2019.10.035

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: Further information and requests for resources and reagents should be directed to and will be fulfilled by the Lead Contact. table ft1 table-wrap mode="anchored" t5 caption a7 REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and Virus Strains E. coli BL21-Gold (DE3) Agilent Cat#230132 E. coli Tuner ™ (DE3) Novagen Cat#70623-3 Chemicals, Peptides, and Recombinant Proteins Protocatechuic acid (PCA) Pacific Biosciences Cat#100-215-400 Protocatechuate-3,4-dioxygenase (PCD) Pacific Biosciences Cat#001-028-310 TSY Pacific Biosciences Cat#100-214-900 Cy5 Maleimide Mono-Reactive Dye 5-Pack GE Healthcare Cat#PA25031 Cy5.5 Sulfo-Cyanine5 maleimide Lumiprobe Cat#13380 Cy3 Maleimide Mono-Reactive Dye 5-Pack GE Healthcare Cat#PA23031 E. coli RNA polymerase holoenzyme NEB Cat#M0551S Biolipidure-203 NOF America Corporation Cat#Biolipidure-203 Biolipidure-206 NOF America Corporation Cat#Biolipidure-206 Purified ribosomal proteins of 16S rRNA 3’domain This paper N/A Oligonucleotides Primers, geneBlocks-based DNA transcription templates, labeled DNA oligonucleotides See Data S1 N/A ACU RNA trinucleotide Dharmacon N/A Recombinant DNA pRSF-1b Novagen Cat#71330-3 pRSF-1b-S2 This paper Addgene Plasmid #128590 pRSF-1b-S3 This paper Addgene Plasmid #128591 pRSF-1b-S7-S83C/delta157-178 This paper Addgene Plasmid #128592 pRSF-1b-S10 This paper Addgene Plasmid #128594 pRSF-1b-S13-C85S/P112C This paper Addgene Plasmid #128595 pRSF-1b-S14 This paper Addgene Plasmid #128596 pRSF-1b-S19-T48C This paper Addgene Plasmid #128597 pET-S9 This paper Addgene Plasmid #132948 pRSF-1b-S3-M129C This paper Addgene Plasmid #132949 pRSF-1b-S15-T79C This paper Addgene Plasmid #133048 Software and Algorithms MATLAB R2015a Matworks Inc http://matlab.com Open in a separate window KEY RESOURCES TABLE

Techniques: Recombinant, Purification, Labeling, Plasmid Preparation, Software

(A) 3-dimensional structure of E. coli 30S ribosomal subunit with labeling sites for Cy5-S3 and Cy5.5-S7 (PDB accession code: 4V9P); the Cy3 dye of the labeled DNA oligonucleotide binding to the 3’-end of the nascent RNA is modeled into the structure. (B) Experimental setup: 100 nM Cy5-S3, 5 nM Cy5.5-S7 and 400 nM of all the other unlabeled 3’domain r-proteins were injected; 35 °C. (C) Representative single-molecule trace with Cy5-S3 (red), Cy5.5-S7 (purple) and Cy3-oligo (green). The trace was not corrected for fluorescence spectral bleed-through from the Cy5 into the Cy5.5 channel and the reverse. (D) The first Cy5-S3 binding event always follows the final Cy5.5-S7 binding event demonstrating sequential ribosome assembly. (E) The assembly process from stable S7 incorporation until 3’domain completion is slow, indicating that RNA conformational changes are also required later in assembly. Number of molecules analyzed in (D and E) (n) = 64. See also Figure S7 and Data S2.

Journal: Cell

Article Title: Transient protein-RNA interactions guide nascent ribosomal RNA folding

doi: 10.1016/j.cell.2019.10.035

Figure Lengend Snippet: (A) 3-dimensional structure of E. coli 30S ribosomal subunit with labeling sites for Cy5-S3 and Cy5.5-S7 (PDB accession code: 4V9P); the Cy3 dye of the labeled DNA oligonucleotide binding to the 3’-end of the nascent RNA is modeled into the structure. (B) Experimental setup: 100 nM Cy5-S3, 5 nM Cy5.5-S7 and 400 nM of all the other unlabeled 3’domain r-proteins were injected; 35 °C. (C) Representative single-molecule trace with Cy5-S3 (red), Cy5.5-S7 (purple) and Cy3-oligo (green). The trace was not corrected for fluorescence spectral bleed-through from the Cy5 into the Cy5.5 channel and the reverse. (D) The first Cy5-S3 binding event always follows the final Cy5.5-S7 binding event demonstrating sequential ribosome assembly. (E) The assembly process from stable S7 incorporation until 3’domain completion is slow, indicating that RNA conformational changes are also required later in assembly. Number of molecules analyzed in (D and E) (n) = 64. See also Figure S7 and Data S2.

Article Snippet: Further information and requests for resources and reagents should be directed to and will be fulfilled by the Lead Contact. table ft1 table-wrap mode="anchored" t5 caption a7 REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and Virus Strains E. coli BL21-Gold (DE3) Agilent Cat#230132 E. coli Tuner ™ (DE3) Novagen Cat#70623-3 Chemicals, Peptides, and Recombinant Proteins Protocatechuic acid (PCA) Pacific Biosciences Cat#100-215-400 Protocatechuate-3,4-dioxygenase (PCD) Pacific Biosciences Cat#001-028-310 TSY Pacific Biosciences Cat#100-214-900 Cy5 Maleimide Mono-Reactive Dye 5-Pack GE Healthcare Cat#PA25031 Cy5.5 Sulfo-Cyanine5 maleimide Lumiprobe Cat#13380 Cy3 Maleimide Mono-Reactive Dye 5-Pack GE Healthcare Cat#PA23031 E. coli RNA polymerase holoenzyme NEB Cat#M0551S Biolipidure-203 NOF America Corporation Cat#Biolipidure-203 Biolipidure-206 NOF America Corporation Cat#Biolipidure-206 Purified ribosomal proteins of 16S rRNA 3’domain This paper N/A Oligonucleotides Primers, geneBlocks-based DNA transcription templates, labeled DNA oligonucleotides See Data S1 N/A ACU RNA trinucleotide Dharmacon N/A Recombinant DNA pRSF-1b Novagen Cat#71330-3 pRSF-1b-S2 This paper Addgene Plasmid #128590 pRSF-1b-S3 This paper Addgene Plasmid #128591 pRSF-1b-S7-S83C/delta157-178 This paper Addgene Plasmid #128592 pRSF-1b-S10 This paper Addgene Plasmid #128594 pRSF-1b-S13-C85S/P112C This paper Addgene Plasmid #128595 pRSF-1b-S14 This paper Addgene Plasmid #128596 pRSF-1b-S19-T48C This paper Addgene Plasmid #128597 pET-S9 This paper Addgene Plasmid #132948 pRSF-1b-S3-M129C This paper Addgene Plasmid #132949 pRSF-1b-S15-T79C This paper Addgene Plasmid #133048 Software and Algorithms MATLAB R2015a Matworks Inc http://matlab.com Open in a separate window KEY RESOURCES TABLE

Techniques: Labeling, Binding Assay, Injection, Fluorescence

(A) Secondary structure of E. coli S7 binding site. (B) 3-dimensional structure of E. coli 30S ribosomal subunit with labeling sites (PDB accession code: 4V9P); the Cy3 dye of the labeled DNA oligonucleotide binding to the 3’-end of the nascent RNA is modeled into the structure. (C and D) Single-molecule fluorescence approach (Duss et al., 2018). (E) Representative single-molecule trace with fluorescence intensity (top) and FRET efficiency (bottom); transcription (TC; orange), Cy5-S7 (red), Cy3-oligo (green). See also Figure S1.

Journal: Cell

Article Title: Transient protein-RNA interactions guide nascent ribosomal RNA folding

doi: 10.1016/j.cell.2019.10.035

Figure Lengend Snippet: (A) Secondary structure of E. coli S7 binding site. (B) 3-dimensional structure of E. coli 30S ribosomal subunit with labeling sites (PDB accession code: 4V9P); the Cy3 dye of the labeled DNA oligonucleotide binding to the 3’-end of the nascent RNA is modeled into the structure. (C and D) Single-molecule fluorescence approach (Duss et al., 2018). (E) Representative single-molecule trace with fluorescence intensity (top) and FRET efficiency (bottom); transcription (TC; orange), Cy5-S7 (red), Cy3-oligo (green). See also Figure S1.

Article Snippet: Further information and requests for resources and reagents should be directed to and will be fulfilled by the Lead Contact. table ft1 table-wrap mode="anchored" t5 caption a7 REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and Virus Strains E. coli BL21-Gold (DE3) Agilent Cat#230132 E. coli Tuner ™ (DE3) Novagen Cat#70623-3 Chemicals, Peptides, and Recombinant Proteins Protocatechuic acid (PCA) Pacific Biosciences Cat#100-215-400 Protocatechuate-3,4-dioxygenase (PCD) Pacific Biosciences Cat#001-028-310 TSY Pacific Biosciences Cat#100-214-900 Cy5 Maleimide Mono-Reactive Dye 5-Pack GE Healthcare Cat#PA25031 Cy5.5 Sulfo-Cyanine5 maleimide Lumiprobe Cat#13380 Cy3 Maleimide Mono-Reactive Dye 5-Pack GE Healthcare Cat#PA23031 E. coli RNA polymerase holoenzyme NEB Cat#M0551S Biolipidure-203 NOF America Corporation Cat#Biolipidure-203 Biolipidure-206 NOF America Corporation Cat#Biolipidure-206 Purified ribosomal proteins of 16S rRNA 3’domain This paper N/A Oligonucleotides Primers, geneBlocks-based DNA transcription templates, labeled DNA oligonucleotides See Data S1 N/A ACU RNA trinucleotide Dharmacon N/A Recombinant DNA pRSF-1b Novagen Cat#71330-3 pRSF-1b-S2 This paper Addgene Plasmid #128590 pRSF-1b-S3 This paper Addgene Plasmid #128591 pRSF-1b-S7-S83C/delta157-178 This paper Addgene Plasmid #128592 pRSF-1b-S10 This paper Addgene Plasmid #128594 pRSF-1b-S13-C85S/P112C This paper Addgene Plasmid #128595 pRSF-1b-S14 This paper Addgene Plasmid #128596 pRSF-1b-S19-T48C This paper Addgene Plasmid #128597 pET-S9 This paper Addgene Plasmid #132948 pRSF-1b-S3-M129C This paper Addgene Plasmid #132949 pRSF-1b-S15-T79C This paper Addgene Plasmid #133048 Software and Algorithms MATLAB R2015a Matworks Inc http://matlab.com Open in a separate window KEY RESOURCES TABLE

Techniques: Binding Assay, Labeling, Fluorescence

KEY RESOURCES TABLE

Journal: Cell

Article Title: Transient protein-RNA interactions guide nascent ribosomal RNA folding

doi: 10.1016/j.cell.2019.10.035

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: Further information and requests for resources and reagents should be directed to and will be fulfilled by the Lead Contact. table ft1 table-wrap mode="anchored" t5 caption a7 REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and Virus Strains E. coli BL21-Gold (DE3) Agilent Cat#230132 E. coli Tuner ™ (DE3) Novagen Cat#70623-3 Chemicals, Peptides, and Recombinant Proteins Protocatechuic acid (PCA) Pacific Biosciences Cat#100-215-400 Protocatechuate-3,4-dioxygenase (PCD) Pacific Biosciences Cat#001-028-310 TSY Pacific Biosciences Cat#100-214-900 Cy5 Maleimide Mono-Reactive Dye 5-Pack GE Healthcare Cat#PA25031 Cy5.5 Sulfo-Cyanine5 maleimide Lumiprobe Cat#13380 Cy3 Maleimide Mono-Reactive Dye 5-Pack GE Healthcare Cat#PA23031 E. coli RNA polymerase holoenzyme NEB Cat#M0551S Biolipidure-203 NOF America Corporation Cat#Biolipidure-203 Biolipidure-206 NOF America Corporation Cat#Biolipidure-206 Purified ribosomal proteins of 16S rRNA 3’domain This paper N/A Oligonucleotides Primers, geneBlocks-based DNA transcription templates, labeled DNA oligonucleotides See Data S1 N/A ACU RNA trinucleotide Dharmacon N/A Recombinant DNA pRSF-1b Novagen Cat#71330-3 pRSF-1b-S2 This paper Addgene Plasmid #128590 pRSF-1b-S3 This paper Addgene Plasmid #128591 pRSF-1b-S7-S83C/delta157-178 This paper Addgene Plasmid #128592 pRSF-1b-S10 This paper Addgene Plasmid #128594 pRSF-1b-S13-C85S/P112C This paper Addgene Plasmid #128595 pRSF-1b-S14 This paper Addgene Plasmid #128596 pRSF-1b-S19-T48C This paper Addgene Plasmid #128597 pET-S9 This paper Addgene Plasmid #132948 pRSF-1b-S3-M129C This paper Addgene Plasmid #132949 pRSF-1b-S15-T79C This paper Addgene Plasmid #133048 Software and Algorithms MATLAB R2015a Matworks Inc http://matlab.com Open in a separate window KEY RESOURCES TABLE

Techniques: Recombinant, Purification, Labeling, Plasmid Preparation, Software

KEY RESOURCES TABLE

Journal: Cell

Article Title: Transient protein-RNA interactions guide nascent ribosomal RNA folding

doi: 10.1016/j.cell.2019.10.035

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: Further information and requests for resources and reagents should be directed to and will be fulfilled by the Lead Contact. table ft1 table-wrap mode="anchored" t5 caption a7 REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and Virus Strains E. coli BL21-Gold (DE3) Agilent Cat#230132 E. coli Tuner ™ (DE3) Novagen Cat#70623-3 Chemicals, Peptides, and Recombinant Proteins Protocatechuic acid (PCA) Pacific Biosciences Cat#100-215-400 Protocatechuate-3,4-dioxygenase (PCD) Pacific Biosciences Cat#001-028-310 TSY Pacific Biosciences Cat#100-214-900 Cy5 Maleimide Mono-Reactive Dye 5-Pack GE Healthcare Cat#PA25031 Cy5.5 Sulfo-Cyanine5 maleimide Lumiprobe Cat#13380 Cy3 Maleimide Mono-Reactive Dye 5-Pack GE Healthcare Cat#PA23031 E. coli RNA polymerase holoenzyme NEB Cat#M0551S Biolipidure-203 NOF America Corporation Cat#Biolipidure-203 Biolipidure-206 NOF America Corporation Cat#Biolipidure-206 Purified ribosomal proteins of 16S rRNA 3’domain This paper N/A Oligonucleotides Primers, geneBlocks-based DNA transcription templates, labeled DNA oligonucleotides See Data S1 N/A ACU RNA trinucleotide Dharmacon N/A Recombinant DNA pRSF-1b Novagen Cat#71330-3 pRSF-1b-S2 This paper Addgene Plasmid #128590 pRSF-1b-S3 This paper Addgene Plasmid #128591 pRSF-1b-S7-S83C/delta157-178 This paper Addgene Plasmid #128592 pRSF-1b-S10 This paper Addgene Plasmid #128594 pRSF-1b-S13-C85S/P112C This paper Addgene Plasmid #128595 pRSF-1b-S14 This paper Addgene Plasmid #128596 pRSF-1b-S19-T48C This paper Addgene Plasmid #128597 pET-S9 This paper Addgene Plasmid #132948 pRSF-1b-S3-M129C This paper Addgene Plasmid #132949 pRSF-1b-S15-T79C This paper Addgene Plasmid #133048 Software and Algorithms MATLAB R2015a Matworks Inc http://matlab.com Open in a separate window KEY RESOURCES TABLE

Techniques: Recombinant, Purification, Labeling, Plasmid Preparation, Software

KEY RESOURCES TABLE

Journal: Cell

Article Title: Transient protein-RNA interactions guide nascent ribosomal RNA folding

doi: 10.1016/j.cell.2019.10.035

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: Further information and requests for resources and reagents should be directed to and will be fulfilled by the Lead Contact. table ft1 table-wrap mode="anchored" t5 caption a7 REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and Virus Strains E. coli BL21-Gold (DE3) Agilent Cat#230132 E. coli Tuner ™ (DE3) Novagen Cat#70623-3 Chemicals, Peptides, and Recombinant Proteins Protocatechuic acid (PCA) Pacific Biosciences Cat#100-215-400 Protocatechuate-3,4-dioxygenase (PCD) Pacific Biosciences Cat#001-028-310 TSY Pacific Biosciences Cat#100-214-900 Cy5 Maleimide Mono-Reactive Dye 5-Pack GE Healthcare Cat#PA25031 Cy5.5 Sulfo-Cyanine5 maleimide Lumiprobe Cat#13380 Cy3 Maleimide Mono-Reactive Dye 5-Pack GE Healthcare Cat#PA23031 E. coli RNA polymerase holoenzyme NEB Cat#M0551S Biolipidure-203 NOF America Corporation Cat#Biolipidure-203 Biolipidure-206 NOF America Corporation Cat#Biolipidure-206 Purified ribosomal proteins of 16S rRNA 3’domain This paper N/A Oligonucleotides Primers, geneBlocks-based DNA transcription templates, labeled DNA oligonucleotides See Data S1 N/A ACU RNA trinucleotide Dharmacon N/A Recombinant DNA pRSF-1b Novagen Cat#71330-3 pRSF-1b-S2 This paper Addgene Plasmid #128590 pRSF-1b-S3 This paper Addgene Plasmid #128591 pRSF-1b-S7-S83C/delta157-178 This paper Addgene Plasmid #128592 pRSF-1b-S10 This paper Addgene Plasmid #128594 pRSF-1b-S13-C85S/P112C This paper Addgene Plasmid #128595 pRSF-1b-S14 This paper Addgene Plasmid #128596 pRSF-1b-S19-T48C This paper Addgene Plasmid #128597 pET-S9 This paper Addgene Plasmid #132948 pRSF-1b-S3-M129C This paper Addgene Plasmid #132949 pRSF-1b-S15-T79C This paper Addgene Plasmid #133048 Software and Algorithms MATLAB R2015a Matworks Inc http://matlab.com Open in a separate window KEY RESOURCES TABLE

Techniques: Recombinant, Purification, Labeling, Plasmid Preparation, Software