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| Name | Authors | DOI | Group |
Summary |
Associated Publications |
RRIDs used | ||||||
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Restriction Digest of Plasmid DNA Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.cd2s8d | Please see the Addgene website for additional details. | Addgene | http://www.addgene.org/plasmid_protocols/restriction_digest/ | 1 | 2014 | Addgene The Nonprofit Plasmid Repository 2014. Restriction Digest of Plasmid DNA. protocols.io dx.doi.org/10.17504/protocols.io.cd2s8d | 2021-03-29 03:14:32 | |||
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AAV Purification by Iodixanol Gradient Ultracentrifugation Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bawqifdw | This protocol goes through AAV purification by Iodixanol gradient ultracentrifugation. To see the full abstract and additional resources, visit the Addgene protocol page.Sample Data | Addgene | https://www.addgene.org/protocols/aav-purification-iodixanol-gradient-ultracentrifugation/ | 2 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. AAV Purification by Iodixanol Gradient Ultracentrifugation. protocols.io dx.doi.org/10.17504/protocols.io.bawqifdw | 2021-03-29 03:12:55 | |||
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Plasmid Cloning by PCR Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bawhifb6 | This protocol describes plasmid cloning by Polymerase Chain Reaction (PCR). To see the full abstract and additional resources, please visit the Addgene protocol page. | Addgene | https://www.addgene.org/protocols/pcr-cloning/ | 2 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Plasmid Cloning by PCR. protocols.io dx.doi.org/10.17504/protocols.io.bawhifb6 | 2021-03-29 03:12:57 | |||
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Streaking and Isolating Bacteria on an LB Agar Plate - CHEM 584 Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository, Ken Christensen | 10.17504/protocols.io.bj5mkq46 | This protocol describes how to streak and isolate (single colony) bacteria on an LB agar plate. To see the full abstract and additional resources, please visit https://www.addgene.org/protocols/streak-plate/.Sample Data | Addgene, Brigham Young University | https://www.addgene.org/protocols/streak-plate/ | 1 | 2020 | Addgene The Nonprofit Plasmid Repository, Ken Christensen 2020. Streaking and Isolating Bacteria on an LB Agar Plate - CHEM 584. protocols.io dx.doi.org/10.17504/protocols.io.bj5mkq46 | 2021-03-29 03:13:53 | |||
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COVID-19 Addgene Operating Procedures Resource Report Resource Website |
Joanne Kamens, Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bhvej63e | Re-Entering Labs Post COVID-19 Shutdown | Addgene, Addgene | 1 | 2020 | Joanne Kamens, Addgene The Nonprofit Plasmid Repository 2020. COVID-19 Addgene Operating Procedures. protocols.io dx.doi.org/10.17504/protocols.io.bhvej63e | 2021-03-29 03:13:57 | ||||
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Bacterial transformation Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bawgifbw | The following protocol is for bacterial transformation. To see the full abstract and additional resources, visit the Addgene protocol page. | Addgene | https://www.addgene.org/protocols/bacterial-transformation/ | 2 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Bacterial transformation. protocols.io dx.doi.org/10.17504/protocols.io.bawgifbw | 2021-03-29 03:12:34 | |||
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Pouring LB Agar Plates Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.63khgkw | The following protocol is for making LB agar plates for the purpose of bacterial selection (500mL of LB agar makes about 25 LB agar plates). For the full abstract and additional resources, please visit https://www.addgene.org/plasmid_protocols/bacterial_plates/ | Addgene | https://www.addgene.org/plasmid_protocols/bacterial_plates/ | 3 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Pouring LB Agar Plates. protocols.io dx.doi.org/10.17504/protocols.io.63khgkw | 2021-03-29 03:12:07 | |||
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Polymerase Chain Reaction (PCR) Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.betyjepw | This protocol is for performing Polymerase Chain Reaction (PCR). To see the full abstract and additional resources, visit https://www.addgene.org/protocols/pcr/.Basic PCR ProgramInitial Denaturation for at : This initiation step heats the double stranded DNA template strand to the point where the strands start denaturing and the hydrogen bonds are broken between the nucleotide base pairs.Denature at : Continued denaturation of double stranded DNA.Anneal primers for at : The forward and reverse primers are stable within this temperature range to anneal to each of the single stranded DNA template strands. The DNA polymerase is also stable enough to now bind to the primer DNA sequence.Extend DNA for at : The Taq polymerase has an optimal temperature around - so this step enables the DNA polymerase to synthesize and elongate the new target DNA strand accurately and rapidly.Repeat steps 2-5, 25-30 times.Final Extension for at : A final extension to fill-in any protruding ends of the newly synthesized strands. | Addgene | https://www.addgene.org/protocols/pcr/ | 2 | 2020 | Addgene The Nonprofit Plasmid Repository 2020. Polymerase Chain Reaction (PCR). protocols.io dx.doi.org/10.17504/protocols.io.betyjepw | 2021-03-29 03:09:56 | |||
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How to Design a Primer Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bjq3kmyn | This protocol describes how to design a primer. To see the full abstract and additional resources, visit https://www.addgene.org/protocols/primer-design/. | Addgene | https://www.addgene.org/protocols/primer-design/ | 2 | 2020 | Addgene The Nonprofit Plasmid Repository 2020. How to Design a Primer. protocols.io dx.doi.org/10.17504/protocols.io.bjq3kmyn | 2021-03-29 03:09:57 | |||
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Purifying DNA from an Agarose Gel Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.4wigxce | This protocol is for purifying DNA from an agarose gel. To see the full abstract and additional resources, please visit https://www.addgene.org/protocols/gel-purification/. | Addgene | https://www.addgene.org/protocols/gel-purification/ | 1 | 2020 | Addgene The Nonprofit Plasmid Repository 2020. Purifying DNA from an Agarose Gel. protocols.io dx.doi.org/10.17504/protocols.io.4wigxce | 2021-03-29 03:10:19 | |||
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Sequence Analysis of a Plasmid Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.43ngyme | This protocol is for sequence analysis of a plasmid. To see the full abstract and additional resources, please visit https://www.addgene.org/protocols/sequence-analysis/.Sample dataA good sequencing reaction will produce between 300-900 base pairs of useable sequence. You should receive your sequencing results as a trace file (.ab1) which graphically depicts the sequence as a series of colored peaks corresponding to one of the four nucleotide bases. This is an example of a trace file from a high-quality portion of a sequencing reaction:Sequence near the beginning or end of a sequencing reaction is often unreliable. Although your sequencing results may indicate bases at specific locations, by looking at the trace file, you will see that these base calls are unreliable. This is an example of a trace file from a portion of a sequencing reaction with high background: | Addgene | https://www.addgene.org/protocols/sequence-analysis/ | 1 | 2020 | Addgene The Nonprofit Plasmid Repository 2020. Sequence Analysis of a Plasmid. protocols.io dx.doi.org/10.17504/protocols.io.43ngyme | 2021-03-29 03:10:30 | |||
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Agarose Gel Electrophoresis Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.3ssgnee | This protocol is for agarose gel electrophoresis. To see the full abstract and additional resources, visit the Addgene protocol page. | Addgene | https://www.addgene.org/protocols/gel-electrophoresis/ | 1 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Agarose Gel Electrophoresis. protocols.io dx.doi.org/10.17504/protocols.io.3ssgnee | 2021-03-29 03:11:57 | |||
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Over-Agar Antibiotic Plating Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.4r6gv9e | This protocol is for over-agar antibiotic plating. To see the full abstract and additional resources, visit https://www.addgene.org/protocols/over-agar-antibiotic-plating/Sample Data: Selection of E.coli on LB-agar using different concentrations of carbenicillin plated over-agar.Control Plate with No CarbenicillinPlate shows a lawn of E. coli and no selection.150 µL of 0.1 mg/mL Carbenicillin plated over-agarPlate shows a lawn of E. coli and no apparent selection.150 µL of 1 mg/mL Carbenicillin plated over-agarPlate shows several individual colonies and effective selection.150 µL of 2 mg/mL Carbenicillin plated over-agarPlate shows less individual colonies than the 1 mg/mL plate and effective selection.150 µL of 4 mg/mL Carbenicillin plated over-agarPlate shows several individual colonies with smaller size than the 1 mg/mL and 2 mg/mL plates and effective selection.Selection Curve of Transformed E. coli after Over-Agar Plating of Carbenicillin. The above graph displays the stock concentration of Carbenicillin stock used (150 µL per plate). Please note we have found that there is generally a broad range of antibiotic concentrations that will work for this assay, and the above result represents a single experiment. For publishable data, the experiment would need to be repeated to account for variability. | Addgene | https://www.addgene.org/protocols/over-agar-antibiotic-plating/ | 1 | 2020 | Addgene The Nonprofit Plasmid Repository 2020. Over-Agar Antibiotic Plating. protocols.io dx.doi.org/10.17504/protocols.io.4r6gv9e | 2021-03-29 03:12:04 | |||
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Cloning shRNA Oligos into pLKO.1 Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bawmifc6 | This is the protocol accompanying the "pLKO.1 – TRC Cloning Vector". For information about the PLKO.1-TRC cloning vector and tips on designing shRNA oligos for pLKO.1 see Addgene's website: http://www.addgene.org/tools/protocols/plko/ | Addgene | http://www.addgene.org/tools/protocols/plko/ | 2 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Cloning shRNA Oligos into pLKO.1. protocols.io dx.doi.org/10.17504/protocols.io.bawmifc6 | 2021-03-29 03:12:02 | |||
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Diagnostic Restriction Digest Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.4gvgtw6 | This protocol is for running a diagnostic restriction digest. To see the full abstract and other resources, visit the Addgene protocol page. | Addgene | https://www.addgene.org/protocols/diagnostic-digest/ | 1 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Diagnostic Restriction Digest. protocols.io dx.doi.org/10.17504/protocols.io.4gvgtw6 | 2021-03-29 03:09:28 | |||
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Ligation Independent Cloning Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.43tgynn | This protocol describes Ligation Independent Cloning (LIC). To see the full abstract and additional resources, please visit the Addgene protocol page. | Addgene | https://www.addgene.org/protocols/lic/ | 1 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Ligation Independent Cloning. protocols.io dx.doi.org/10.17504/protocols.io.43tgynn | 2021-03-29 03:09:41 | |||
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Ligation Independent Cloning Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bawjifcn | This protocol describes Ligation Independent Cloning (LIC). To see the full abstract and additional resources, please visit the Addgene protocol page. | Addgene | https://www.addgene.org/protocols/lic/ | 2 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Ligation Independent Cloning. protocols.io dx.doi.org/10.17504/protocols.io.bawjifcn | 2021-03-29 03:09:37 | |||
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Streaking and Isolating Bacteria on an LB Agar Plate Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.43pgymn | This protocol describes how to streak and isolate (single colony) bacteria on an LB agar plate. To see the full abstract and additional resources, please visit https://www.addgene.org/protocols/streak-plate/.Sample Data | Addgene | https://www.addgene.org/protocols/streak-plate/ | 1 | 2020 | Addgene The Nonprofit Plasmid Repository 2020. Streaking and Isolating Bacteria on an LB Agar Plate. protocols.io dx.doi.org/10.17504/protocols.io.43pgymn | 2021-03-29 03:09:54 | |||
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Gibson Assembly Cloning Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bawiifce | This protocol describes Gibson Assembly cloning (Nat Methods 2009;6(5):343-5). To see the full abstract and additional resources, please visit the Addgene protocol page. | Addgene | https://www.addgene.org/protocols/gibson-assembly/ | 2 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Gibson Assembly Cloning. protocols.io dx.doi.org/10.17504/protocols.io.bawiifce | 2021-03-29 03:08:37 | |||
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Restriction Digest of Plasmid DNA Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.63shgne | This protocol is for restriction digest of plasmid DNA. To see the full abstract and additional resources, please visit http://www.addgene.org/plasmid_protocols/restriction_digest/. | Addgene | http://www.addgene.org/plasmid_protocols/restriction_digest/ | 3 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Restriction Digest of Plasmid DNA. protocols.io dx.doi.org/10.17504/protocols.io.63shgne | 2021-03-29 03:08:40 |
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