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Showing: 41 - 80 of 242 results

  1. Negative Can Be Positive: Open AAV Data with Addgene

    Type
    Blog Post
    ...., Thomas, D., Stamnes, S., Holt, K., Sinn, P., May, A. P., & Paulk, N. K. (2020). Methods Matter: Standard... F., Le, T., Prado, J., Bahr-Davidson, J., Smith, P. H., Zhen, Z., Sommer, J. M., Pierce, G. F., & Qu,... https://doi.org/10.1016/j.ymthe.2005.02.021 Zuk, P., Sanchez, C. E., Kostick, K., Torgerson, L., Muñoz...

  2. The AAVantages of AAV in CRISPR Screens

    Type
    Blog Post
    ...y Hanlon, K. S., Kleinstiver, B. P., Garcia, S. P., Zaborowski, M. P., Volak, A., Spirig, S. E., Muller... C., Ingelsson, M., Chamberlain, J. S., Corey, D. P., Aryee, M. J., Joung, J. K., Breakefield, X. O., ...

  3. Lentiviral Vector Uses and Overview

    Type
    Blog Post
    ... a lentiviral vector. Naldini L, Blömer U, Gallay P, Ory D, Mulligan R, Gage FH, Verma IM, Trono D. Science...Greenberg RN, Kinder C, Zolopa A, Binder-Scholl G, Tebas P, June CH, Humeau LM, Rebello T. J Gene Med. 2013 Feb...Gourmel B, Socie G, Chrétien S, Cartier N, Aubourg P, Fischer A, Cornetta K, Galacteros F, Beuzard Y, Gluckman...Gluckman E, Bushman F, Hacein-Bey-Abina S, Leboulch P. Nature. 2010 Sep 16;467(7313):318-22. PubMed PMID...

  4. Plasmids 101: How to Name Your Plasmid in 3 Easy Steps

    Type
    Blog Post
    ...and other important information. Tip: A lowercase "p" is often used as the first letter of a plasmid name...and simply denotes that the object is a ‘plasmid’. “p” is for plasmid. pXXXXX-XXXX Step 1: Backbone name...

  5. Deep Dive: Statistical Tests (Comparisons)

    Type
    Blog Post
    ...which identifies a p value cut off. This method entails arranging all calculated p values from smallest...this by establishing a significance threshold at a p value less than or equal to the alpha value divided...the cut off for significance by finding the largest p value where its rank divided by the total number of...multiplied by the alpha value is less than or equal to the p value. There are drawbacks to these tests as they ...

  6. CRISPR 101: Cytosine and Adenine Base Editors

    Type
    Blog Post
    ...., Feliciano, P. R., Arif, A., Bohnuud, T., Fernandez, T. P., Gehrke, J. M., Grayson, P., Lee, K. D., ...updated by Jennifer Tsang in August 2020 and by Emily P. Bentley in September 2025. References and Resources...Grünewald, J., Zhou, R., Lareau, C. A., Garcia, S. P., Iyer, S., Miller, B. R., Langner, L. M., Hsu, J...., Levy, J. M., Tay, T., Newby, G. A., Maianti, J. P., Raguram, A., & Liu, D. R. (2018). Improving cytidine...McElroy, A. N., Pandey, S., Doman, J. L., Huang, T. P., Raguram, A., Banskota, S., Newby, G. A., Tolar, ...Christie, K. A., Whittaker, M. N., & Kleinstiver, B. P. (2020). Unconstrained genome targeting with near-...

  7. Antibodies 101: Monoclonal Antibodies

    Type
    Blog Post
    ... J, Glanville J, Wolf P, Frenzel A, Wong J, Koh XY, Eng H-Y, Lane D, Lefranc M-P, Clark M, Dübel S (2018...doi.org/10.1080/19420862.2018.1445456  Holzlöhner P, Hanack K (2017) Generation of Murine Monoclonal Antibodies...

  8. Antibody Validation for Flow Cytometry

    Type
    Blog Post
    ...Fotouhi, M., Bolivar, S. G., Ruiz Moleon, V., Eckmann, P., Worrall, D., McDowell, I., Southern, K., Reintsch...Bandrowski, A., Virk, H., Edwards, A. M., McPherson, P., & Laflamme, C. (2023). Scaling of an antibody validation...10.12688/f1000research.154034.1 Laflamme, C., McKeever, P. M., Kumar, R., Schwartz, J., Kolahdouzan, M., Chen... A. M., Healy, L. M., Robertson, J., & McPherson, P. S. (2019). Implementation of an antibody characterization...McCarthy, J., Amrani, Y., Duffy, S. M., Bradding, P., & Roach, K. M. (2021). TGFβ1 induces resistance ...Weston, C. A., Chachi, L., Roach, K. M., & Bradding, P. (2019). Validation of antibodies for the specific...

  9. The PAM Requirement and Expanding CRISPR Beyond SpCas9

    Type
    Blog Post
    ...References Abudayyeh OO, Gootenberg JS, Essletzbichler P, Han S, Joung J, Belanto JJ, Verdine V, Cox DBT, Kellner...from this paper at Addgene. Amrani N, Gao XD, Liu P, Edraki A, Mir A, Ibraheim R, Gupta A, Sasaki KE, ...Settle AH, Lied AM, McGovern K, Fuller CK, Cameron P, Fazzio TG, Zhu LJ, Wolfe SA, Sontheimer EJ (2018)...Abudayyeh OO, Slaymaker IM, Makarova KS, Essletzbichler P, Volz SE, Joung J, van der Oost J, Regev A, Koonin...

  10. Hot Plasmids: Fall 2024

    Type
    Blog Post
    ...recognizes a short, linear epitope derived from the P and V proteins of Simian virus 5 (SV5) (Randall et...doi.org/10.57733/addgene.l0ulu4. Hanke, T., Szawlowski, P., & Randall, R. E. (1992). Construction of solid matrix-antibody-antigen...reporting of mechanical forces with PILATeS By Emily P. Bentley Time to get flexible! Alex Dunn’s lab and...plasmids here! Zhong, B. L., Elliot, J. M., Wang, P., Li, H., Hall, R. N., Wang, B., Prakash, M., & Dunn...

  11. An Introduction to Adenovirus

    Type
    Blog Post
    ...10.1016/B978-0-12-801238-3.02523-X. Hofmann, C., Löser, P., Cichon, G., Arnold, W., Both, G. W., & Strauss, ...doi.org/10.1136/jcp.s3-6.1.39. PMID: 4376152. Rowe, W. P., Huebner, R. J., Gilmore, L. K., Parrott, R. H., ...R. L., Garcia, K. Y., Goodrich, J. S., Lovett, S. P., Parker, K., Radune, D., Hatada, A., Pan, C. Y., ...Rizzo, K., Bertumen, J. B., Morales, C., Oluniyi, P. E., Nguyen, J., … Chiu, C. Y. (2023). Adeno-associated...

  12. Reagent Repositories Are Speeding up Science During the Pandemic

    Type
    Blog Post
    ...Y, Chik KK-H, Zhang X, Fung AY-F, Tsoi H-W, Cai J-P, Chan W-M, Ip JD, Chu AW-H, Zhou J, Lung DC, Kok K-H...Jia HP, Halabi C, Sigmund CD, Meyerholz DK, Kirby P, Look DC, Perlman S (2006) Lethal Infection of K18...doi.org/10.1128/jvi.02012-06 Ou X, Liu Y, Lei X, Li P, Mi D, Ren L, Guo L, Guo R, Chen T, Hu J, Xiang Z,...

  13. 7 Tips to Secure a STEAM Internship This Summer

    Type
    Blog Post
    ...bloggers Roodolph (Roo) P. St Pierre and Rose C. St Pierre! Roodolph (Roo) P. St Pierre is currently ... was contributed by guest bloggers Roodolph (Roo) P. St Pierre and Rose C. St Pierre, founders of STEAMid...

  14. Bacterial Expression Systems

    Type
    Collection
    ..., gram-positive bacteria Gary Dunny 48095 pQF PQ5 p -isopropyl benzoate (cumate) Sphingomonas sp. , Caulobacter... smegmatis Matthias Wilmanns 44447 pLC290 pR/cmtO p -isopropyl benzoate (cumate) Methylobacterium extorquens...

  15. Allen Institute for Brain Science AAV Enhancer Collection

    Type
    Collection
    ..., S., Amster, A., Arbuckle, J., Ayala, A., Baker, P. M., . . . Tasic, B. (2025). A suite of enhancer AAVs...., Fong, O., Yao, S., Mortrud, M., . . . Levi, B. P. (2021). Functional enhancer elements drive subclass-selective...

  16. Illuminating Choices: A Guide to Selecting Fluorescent Dyes and Ligands

    Type
    Blog Post
    ...N., Flad, K., Schmidt, M. F., Tabor, A., Gmeiner, P., Hübner, H., & Weikert, D. (2020). Fluorescent ligands...78827-9  Breen, C. J., Raverdeau, M., & Voorheis, H. P. (2016). Development of a quantitative fluorescence-based...W. C., Patel, R., Lu, R., Macklin, J. J., Keller, P. J., Ji, N., & Lavis, L. D. (2017). A general method...., Parisi, M., Cincotti, G., Rampioni, G., Visca, P., & Kolmakov, K. (2023). Expanding the microbiologist...Grondin, Y., Rogers, R., Bousfield, D., & Demokritou, P. (2019). Development & characterization of fluorescently...

  17. The Advances Behind The World's First Personalized CRISPR Treatment

    Type
    Blog Post
    ..., Cox, D., Lin, S., Barretto, R., Habib, N., Hsu, P. D., Wu, X., Jiang, W., Marraffini, L. A., & Zhang...., Dahl, G. A., Correia, B. E., … Kleinstiver, B. P. (2025). Custom CRISPR-Cas9 PAM variants via scalable...Christie, K. A., Whittaker, M. N., & Kleinstiver, B. P. (2020). Unconstrained genome targeting with near-... Emily P. Bentley...

  18. Antibodies 101: Choosing the Right Isotype

    Type
    Blog Post
    ....org/10.1177/002215549804600813 Erickson, P. A., Lewis, G. P., & Fisher, S. K. (1993). Chapter 15 Postembedding...In J. Sturtevant (Ed.), PLoS ONE (Vol. 7, Issue 6, p. e38313). Public Library of Science (PLoS). https:...

  19. Four Ways to Package Transgenes That Exceed the Size Limit of Adeno-associated Virus

    Type
    Blog Post
    ...References: Allocca M, Doria M, Petrillo M, Colella P, Garcia-Hoyos M, Gibbs D, Kim SR, Maguire A, Rex TS...https://doi.org/10.1038/nbt1153 Odom GL, Gregorevic P, Allen JM, Chamberlain JS (2011) Gene Therapy of mdx...://doi.org/10.1038/mt.2010.205 Trapani I, Colella P, Sommella A, Iodice C, Cesi G, Simone S, Marrocco ....201302948 Trapani I, Toriello E, de Simone S, Colella P, Iodice C, Polishchuk EV, Sommella A, Colecchi L, ...

  20. Mobile-CRISPRi: Bringing CRISPRi to Diverse Bacteria

    Type
    Blog Post
    ...colonies, but some bacteria, including E. faecalis and P. mirabilis, had only ~1 transfer per 1,000,000 colonies...human disease (S. aureus, Klebsiella pneumoniae, and P. aeruginosa) in addition to Vicrio casei, a bacteria...Enterobacter aerogenes, Klebsiella pneumoniae, and P. aeruginosa (all opportunistic pathogens) were grown...

  21. AAV Vector Quality Control: Going the Extra Mile with NGS

    Type
    Blog Post
    ...resources References Chadeuf G, Ciron C, Moullier P, Salvetti A (2005) Evidence for Encapsidation of Prokaryotic...Lecomte E, Tournaire B, Cogné B, Dupont J-B, Lindenbaum P, Martin-Fontaine M, Broucque F, Robin C, Hebben M,...Merten O-W, Blouin V, François A, Redon R, Moullier P, Léger A (2015) Advanced Characterization of DNA Molecules...

  22. Viral Vectors 101: Chemogenetics

    Type
    Blog Post
    ... and Resources References Chen X, Choo H, Huang X-P, Yang X, Stone O, Roth BL, Jin J (2015) The First .../doi.org/10.1038/s41598-019-41088-2 Magnus C, Lee P, Bonaventura J, Zemla R, Gomez J, Ramirez M, Hu X,...content/364/6436/eaav5282.long Redfern CH, Coward P, Degtyarev MY, Lee EK, Kwa AT, Hennighausen L, Bujard...

  23. Cpf1 Update: Comparison to Cas9 and NgAgo

    Type
    Blog Post
    ...publication at Addgene. 2. Kleinstiver, Benjamin P., et al. "Genome-wide specificities of CRISPR-Cas ...Abudayyeh OO, Slaymaker IM, Makarova KS, Essletzbichler P, Volz SE, Joung J, van der Oost J, Regev A, Koonin...Barrangou R, Brouns SJ, Charpentier E, Haft DH, Horvath P, Moineau S, Mojica FJ, Terns RM, Terns MP, White MF...

  24. CRISPR 101: Cytosine Transversion Editors

    Type
    Blog Post
    ... References Chen, L., Park, J. E., Paa, P., Rajakumar, P. D., Prekop, H.-T., Chew, Y. T., Manivannan..., Levy, J. M., Tay, T., Newby, G. A., Maianti, J. P., Raguram, A., & Liu, D. R. (2018). Improving cytidine....4172 Kurt, I. C., Zhou, R., Iyer, S., Garcia, S. P., Miller, B. R., Langner, L. M., Grünewald, J., & ... Emily P. Bentley...

  25. A Needle in a Base-Stack: Cas9 Structural Biology

    Type
    Blog Post
    ... Other Cases Further reading Wang, J. Y., Pausch, P., & Doudna, J. A. (2022). Structural biology of CRISPR–Cas...doi.org/10.1038/s41579-022-00739-4 References Bravo, J. P. K., Liu, M.-S., Hibshman, G. N., Dangerfield, T. ...annurev-biophys-062215-010822 Nishimasu, H., Ran, F. A., Hsu, P. D., Konermann, S., Shehata, S. I., Dohmae, N., Ishitani....201796941 Pattanayak, V., Lin, S., Guilinger, J. P., Ma, E., Doudna, J. A., & Liu, D. R. (2013). High-throughput...  Emily P. Bentley...

  27. Build Your CRISPR Vocabulary

    Type
    Blog Post
    ...! Resources Further reading Wang, J. Y., Pausch, P., & Doudna, J. A. (2022). Structural biology of CRISPR–Cas... Emily P. Bentley...

  28. Tag Your Favorite Yeast Genes with Ease

    Type
    Blog Post
    ...NG, McKenzie A 3rd, Steever AB, Wach A, Philippsen P, Pringle JR. Yeast. 1998 Jul;14(10):943-51. Longtine...Demarini DJ, Shah NG, Wach A, Brachat A, Philippsen P, Pringle JR. Yeast. 1998 Jul;14(10):953-61. Note:...

  29. Magnetic Control of Proteins: More than a Dream

    Type
    Blog Post
    ...A. M., Grippo, R. M., Gaykema, R. P., Spano, A. J., Beenhakker, M. P., Kucenas, S., Patel, M. K., Deppmann..., M. I., Mackenzie, S. R., Timmel, C. R., & Hore, P. J. (2016). Chemical amplification of magnetic field...

  31. Tips for Screening with Yeast Two Hybrid Systems

    Type
    Blog Post
    ...Chen, Y.C., Rajagopala S.V., Stellberger T., Uetz P.  Exhaustive Benchmarking of the yeast two-hybrid ...668. Pubmed PMID: 20805792. 7. Stynen B., Van Dijck P., Tournu H. A CUG codon adapted two-hybrid system ...20719741. Pubmed Central PMCID: PMC2965261. 8. Obrdlik, P., El-Bakkoury, M., Hamacher, T., Cappellaro, C., Vilarino...

  32. Light Sheet Fluorescence Microscopy

    Type
    Blog Post
    ...point the direction of the specimen, A= anterior, P= posterior, D= dorsal, V= ventral Developments in ...et al. (2007). Nature Methods, 4, 331–336. Pubmed. P. Keller, M.B. Ahrens.  (2015) Neuron, 85, 462-483....Development, 105.61-74. Pubmed. J. Sharpe, U. Ahlgren, P. Perry, Hill B, Ross A, J. Hecksher-Sorensen, R. Baldock...

  33. RNA Interference in Plant Biology: New Tools for an Old Favorite

    Type
    Blog Post
    ...scale.     References Bezanilla M, Perroud P ‐F., Pan A, Klueh P, Quatrano RS (2005) An RNAi System in Physcomitrella...Clauder-Münster S, Eberhard D, Fälth Savitski M, Grandi P, Jakob P, Michon A-M, Sun H, Tessmer K, Bürckstümmer T...

  34. Antibodies 101: Antibody Engineering and Directed Evolution

    Type
    Blog Post
    ...https://doi.org/10.3390/antib8040055 Holliger, P., & Hudson, P. J. (2005). Engineered antibody fragments and...References and Resources References Chan, A. C., & Carter, P. J. (2010). Therapeutic antibodies for autoimmunity...394. https://doi.org/10.1038/nrg3927 Wang, Y., Xue, P., Cao, M., Yu, T., Lane, S. T., & Zhao, H. (2021)....

  35. Viral Production

    Type
    Collection
    ... element (RRE) gene and the cellular ribonuclease P/MRP 30 kDa subunit (RPP30) as a control for normalization...

  36. Antibodies 101: Affinity Tags

    Type
    Blog Post
    ...J. E., Dunn, B. M., Speicher, D. W., & Wingfield, P. T. (Eds.). (2001). Current Protocols in Protein Science...Maltose-Binding Protein as a Solubility Enhancer. In P. E. Vaillancourt, E. coli Gene Expression Protocols...

  37. Live and Let Dye: Self-Labeling Protein Tags

    Type
    Blog Post
    ....2019.01.003  Gallagher, S. S., Sable, J. E., Sheetz, M. P., & Cornish, V. W. (2009). An In Vivo Covalent TMP-Tag...better-dyeing-through-chemistry-small-molecule-fluorophores  Los, G. V., Encell, L. P., McDougall, M. G., Hartzell, D. D., Karassina, N....M., Simpson, D., Mendez, J., Zimmerman, K., Otto, P., Vidugiris, G., Zhu, J., Darzins, A., Klaubert, D...10.1021/cb800025k  Miller, L. W., Cai, Y., Sheetz, M. P., & Cornish, V. W. (2005). In vivo protein labeling...

  38. Lentivirus ddPCR Titration

    Type
    Protocol
    ...Primers and a probe against the cellular ribonuclease P/MRP 30 kDa subunit (RPP30) are used as a control for...

  39. Controlling for Off-target Effects with a New Genome-wide CRISPR Screen Design

    Type
    Blog Post
    ...guides are used to call hits from the growth screen, p-values were less significant than when non-targeting...non-targeting guides are used as controls. Less significant p-values lead to more false-negatives results (i.e. ... library resulted in both increased and decreased p-values of known ricin regulation genes compared to...

  40. Overcoming the AAV Size Limitation for CRISPR Delivery

    Type
    Blog Post
    ...Villion M, Romero DA, Barrangou R, Boyaval P, Fremaux C, Horvath P, Magadán AH, Moineau S (2010) The CRISPR...References Chew WL, Tabebordbar M, Cheng JKW, Mali P, Wu EY, Ng AHM, Zhu K, Wagers AJ, Church GM (2016)...
Showing: 41 - 80 of 242 results