Searching the RRID Resource Information Network
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
| Name | Authors | DOI | Group |
Summary |
Associated Publications |
RRIDs used | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
AAV Purification by Iodixanol Gradient Ultracentrifugation Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.47jgzkn | 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/ | 1 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. AAV Purification by Iodixanol Gradient Ultracentrifugation. protocols.io dx.doi.org/10.17504/protocols.io.47jgzkn | 2021-03-29 03:10:37 | |||
|
AAV Titration by qPCR Using SYBR Green Technology Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bawrifd6 | This protocol goes through AAV titration by qPCR using SYBR Green Technology. To see the full abstract and additional resources, visit the Addgene protocol page.Sample DataReferencesAurnhammer C, Haase M, Muether N, Hausl M, Rauschhuber C, Huber I, Nitschko H, Busch U, Sing A, Ehrhardt A, Baiker A. Universal real-time PCR for the detection and quantification of adeno-associated virus serotype 2-derived inverted terminal repeat sequences. Hum Gene Ther Methods. 2012 Feb;23(1):18-28.PMID: 22428977 | Addgene | https://www.addgene.org/protocols/aav-titration-qpcr-using-sybr-green-technology/ | 2 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. AAV Titration by qPCR Using SYBR Green Technology. protocols.io dx.doi.org/10.17504/protocols.io.bawrifd6 | 2021-03-29 03:10:55 | |||
|
How to Design a Primer Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.4r5gv86 | 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/ | 1 | 2020 | Addgene The Nonprofit Plasmid Repository 2020. How to Design a Primer. protocols.io dx.doi.org/10.17504/protocols.io.4r5gv86 | 2021-03-29 03:09:28 | |||
|
Lentivirus Production Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.4xwgxpe | This protocol is for Lentivirus production. To see the full abstract and additional resources, visit the Addgene protocol page.Sample Data | Addgene | https://www.addgene.org/protocols/lentivirus-production/ | 1 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Lentivirus Production. protocols.io dx.doi.org/10.17504/protocols.io.4xwgxpe | 2021-03-29 03:09:34 | |||
|
Plasmid Modification by Annealed Oligo Cloning Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bawkifcw | This protocol describes plasmid modification by annealed oligo cloning. To see the full abstract and additional resources, please visit the Addgene protocol page. | Addgene | https://www.addgene.org/protocols/annealed-oligo-cloning/ | 2 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Plasmid Modification by Annealed Oligo Cloning. protocols.io dx.doi.org/10.17504/protocols.io.bawkifcw | 2021-03-29 03:09:52 | |||
|
DNA Quantification Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.4g8gtzw | This protocol is for DNA quantification. To see the full abstract and additional resources, please visit https://www.addgene.org/protocols/dna-quantification/. | Addgene | https://www.addgene.org/protocols/dna-quantification/ | 1 | 2020 | Addgene The Nonprofit Plasmid Repository 2020. DNA Quantification. protocols.io dx.doi.org/10.17504/protocols.io.4g8gtzw | 2021-03-29 03:10:01 | |||
|
Lentivirus Production Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bawxiffn | This protocol is for Lentivirus production. To see the full abstract and additional resources, visit the Addgene protocol page.Sample Data | Addgene | https://www.addgene.org/protocols/lentivirus-production/ | 2 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Lentivirus Production. protocols.io dx.doi.org/10.17504/protocols.io.bawxiffn | 2021-03-29 03:10:18 | |||
|
Isolating a Monoclonal Cell Population by Limiting Dilution Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.4xvgxn6 | This protocol is for isolating monoclonal cell population by limiting dilution. To see the full abstract and additional resources, please visit the Addgene protocol page.Sample Data1lentiCas9-Blast was a gift from Feng Zhang (Addgene plasmid #52962) and is described in Improved vectors and genome-wide libraries for CRISPR screening. Sanjana NE, Shalem O, Zhang F. Nature Methods. 2014 Aug;11(8):783-4. | Addgene | https://www.addgene.org/protocols/limiting-dilution/ | 1 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Isolating a Monoclonal Cell Population by Limiting Dilution. protocols.io dx.doi.org/10.17504/protocols.io.4xvgxn6 | 2021-03-29 03:08:48 | |||
|
Plasmid Cloning by PCR Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.43rgym6 | 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/ | 1 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Plasmid Cloning by PCR. protocols.io dx.doi.org/10.17504/protocols.io.43rgym6 | 2021-03-29 03:08:53 | |||
|
Plasmid Modification by Annealed Oligo Cloning Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.47tgznn | This protocol describes plasmid modification by annealed oligo cloning. To see the full abstract and additional resources, please visit the Addgene protocol page. | Addgene | https://www.addgene.org/protocols/annealed-oligo-cloning/ | 1 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Plasmid Modification by Annealed Oligo Cloning. protocols.io dx.doi.org/10.17504/protocols.io.47tgznn | 2021-03-29 03:08:57 | |||
|
ddPCR Titration of Lentivirus Vectors Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.be7ijhke | This protocol describes ddPCR titration of Lentivirus vectors. To see the full abstract and additional resources, visit https://www.addgene.org/protocols/lentivirus-ddpcr-titration/.This protocol was modified from the publication Wang Y, Bergelson S, Feschenko M, 2018. Sample Data: When analyzing data there should be a clear distinction between negative droplets (black) and positive droplets (blue/green).The concentration of RRE positive droplets in the untransduced control should be close to zero (A01).In this protocol, the lentiviral particles are serially diluted and used to transduce HEK293T cells. Genomic DNA is extracted from the target cells and assayed for integrated copies of RRE. Since the samples that are assayed are diluted 2-fold serially, the concentration of RRE positive droplets should decrease by a factor of 2 across the dilutions. RPP30 copies should be relatively constant across samples.In the RRE example below, 2-fold serial dilutions of a sample were loaded in wells B01-H01.As shown in the image and table below, the concentration of RRE positive droplets increases by a factor of ~2 as you progress from the higher dilutions to the lower dilutions (blue).The concentration of RPP30 positive droplets stays relatively even across samples (green).To increase the accuracy of the titer, calculate and average of several dilutions. | Addgene | https://www.addgene.org/protocols/lentivirus-ddpcr-titration/ | 1 | 2020 | Addgene The Nonprofit Plasmid Repository 2020. ddPCR Titration of Lentivirus Vectors. protocols.io dx.doi.org/10.17504/protocols.io.be7ijhke | 2021-03-29 03:08:56 | |||
|
Agarose Gel Electrophoresis-Chem 584 Resource Report Resource Website |
Ken Christensen, Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bjvnkn5e | This protocol is for agarose gel electrophoresis. To see the full abstract and additional resources, visit the Addgene protocol page. | Brigham Young University, Addgene | https://www.addgene.org/protocols/gel-electrophoresis/ | 1 | 2020 | Ken Christensen, Addgene The Nonprofit Plasmid Repository 2020. Agarose Gel Electrophoresis-Chem 584 . protocols.io dx.doi.org/10.17504/protocols.io.bjvnkn5e | 2021-03-29 03:08:42 | |||
|
Gibson Assembly Cloning Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.43sgyne | 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/ | 1 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Gibson Assembly Cloning. protocols.io dx.doi.org/10.17504/protocols.io.43sgyne | 2021-03-29 03:09:23 | |||
|
Addgene Covid-19, Back To Work Training Resource Report Resource Website |
Joanne Kamens, Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bhukj6uw | Re-Entering Labs Post COVID-19 Shutdown | Disclaimer: The SOP presented here has been designed by the Addgene nonprofit plasmid repository and is being shared outside of Addgene for informational purposes only. If you choose to reuse or repurpose this SOP in another location, please note that you do so at your own risk; you should ensure that any local guidance is also adhered to. None of the authors, contributors, administrators, or anyone else associated with protocols.io, can be held responsible for your use of the information contained in or linked to from these web pages. | Addgene, Addgene | 1 | 2020 | Joanne Kamens, Addgene The Nonprofit Plasmid Repository 2020. Addgene Covid-19, Back To Work Training. protocols.io dx.doi.org/10.17504/protocols.io.bhukj6uw | 2021-03-29 03:12:05 | |||
|
Bacterial transformation Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.4f9gtr6 | 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/ | 1 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Bacterial transformation. protocols.io dx.doi.org/10.17504/protocols.io.4f9gtr6 | 2021-03-29 03:12:05 | |||
|
Isolating a Monoclonal Cell Population by Limiting Dilution Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bawwiffe | This protocol is for isolating monoclonal cell population by limiting dilution. To see the full abstract and additional resources, please visit the Addgene protocol page.Sample Data1lentiCas9-Blast was a gift from Feng Zhang (Addgene plasmid #52962) and is described in Improved vectors and genome-wide libraries for CRISPR screening. Sanjana NE, Shalem O, Zhang F. Nature Methods. 2014 Aug;11(8):783-4. | Addgene | https://www.addgene.org/protocols/limiting-dilution/ | 2 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Isolating a Monoclonal Cell Population by Limiting Dilution. protocols.io dx.doi.org/10.17504/protocols.io.bawwiffe | 2021-03-29 03:07:56 | |||
|
Pouring LB Agar Plates Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.5icg4aw | 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). Please see the Addgene website for additional details. | Addgene | https://www.addgene.org/plasmid_protocols/bacterial_plates/ | 2 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. Pouring LB Agar Plates. protocols.io dx.doi.org/10.17504/protocols.io.5icg4aw | 2021-03-29 03:07:56 | |||
|
ddPCR titration of AAV vectors Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.bef8jbrw | This protocol describes ddPCR titration of AAV vectors. To see the full abstract and additional resources, visit https://www.addgene.org/protocols/aav-ddpcr-titration/.Sample Data: When analyzing data there should be a clear distinction between negative droplets (black) and positive droplets (blue).The no template control (NTC) should be close to zero (B08). At Addgene, runs with an NTC >5 are invalid.To reduce NTC values, we recommend wiping down all pipettes and equipment with 10% bleach prior to use and keeping all reagents and samples on ice or pre-chilled 96-well freezer blocks during use.In this protocol, a dilution series is prepared for each AAV sample and the 3 final dilutions are assayed. The samples that are assayed are diluted 2-fold serially therefore, the concentration obtained by ddPCR should decrease by a factor of 2 across the dilutions. In the example below, 2-fold serial dilutions of a sample were loaded in wells A04, A05 and A06. As shown in the image and table below, the concentration of positive droplets decreases by a factor of ~2.To increase the accuracy of the titer, calculate an average of several dilutions. For additional tips on AAV titering using ddPCR, read our blog post. | Addgene | https://www.addgene.org/protocols/aav-ddpcr-titration/ | 1 | 2020 | Addgene The Nonprofit Plasmid Repository 2020. ddPCR titration of AAV vectors. protocols.io dx.doi.org/10.17504/protocols.io.bef8jbrw | 2021-03-29 03:07:59 | |||
|
Recovering Plasmid DNA from Bacterial Culture Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.4gtgtwn | This protocol is for recovering plasmid DNA from Bacterial Culture. To see the full abstract and other resources, visit https://www.addgene.org/protocols/purify-plasmid-dna/. | Addgene | https://www.addgene.org/protocols/purify-plasmid-dna/ | 1 | 2020 | Addgene The Nonprofit Plasmid Repository 2020. Recovering Plasmid DNA from Bacterial Culture. protocols.io dx.doi.org/10.17504/protocols.io.4gtgtwn | 2021-03-29 03:08:14 | |||
|
AAV Titration by qPCR Using SYBR Green Technology Resource Report Resource Website |
Addgene The Nonprofit Plasmid Repository | 10.17504/protocols.io.47kgzkw | This protocol goes through AAV titration by qPCR using SYBR Green Technology. To see the full abstract and additional resources, visit the Addgene protocol page.Sample DataReferencesAurnhammer C, Haase M, Muether N, Hausl M, Rauschhuber C, Huber I, Nitschko H, Busch U, Sing A, Ehrhardt A, Baiker A. Universal real-time PCR for the detection and quantification of adeno-associated virus serotype 2-derived inverted terminal repeat sequences. Hum Gene Ther Methods. 2012 Feb;23(1):18-28.PMID: 22428977 | Addgene | https://www.addgene.org/protocols/aav-titration-qpcr-using-sybr-green-technology/ | 1 | 2019 | Addgene The Nonprofit Plasmid Repository 2019. AAV Titration by qPCR Using SYBR Green Technology. protocols.io dx.doi.org/10.17504/protocols.io.47kgzkw | 2021-03-29 03:08:21 |
Can't find your Protocol?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. If you want to find a specific protocol and you know the DOI of the protocol already, it's easier to enter a DOI to search. You can refine the search results using Facets on the left side of the search results page. If you are on the table view, you can also search in a specific column by clicking the column title and enter the keywords.
If you still could not find your protocol in the search results, please help us by adding it into the system — it's easy. Create and publish your protocols at Protocols.io.
Welcome to the dkNET Resources search. From here you can search through a compilation of resources used by dkNET and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that dkNET has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on dkNET then you can log in from here to get additional features in dkNET such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
If you are logged into dkNET you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the facets that you can filter the data by.
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
Email: info_at_ dknet.org
