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We narrowed to 868 results for: REN

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  1. Plasmid Preps: Different Purity, Different Quantities, Different Uses

    Type
    Blog Post
    Published
    June 16, 2020, 1:25 p.m.
    ...premises we can classify a plasmid preparation in 3 different ways: Transformation grade DNA Cloning grade ... our Plasmids 101 blog posts Learn about the differences between transformation, transduction, conjugation...Resources on Addgene.org Read the molecular biology reference Find plasmids for your research Brush up on molecular...
  2. The Strength of Story Telling

    Type
    Blog Post
    Published
    Dec. 19, 2017, 2 p.m.
    ...but when it came time to add author details a different person in the lab wanted to be the first author...
  3. Bringing Renewable Energy to Addgene

    Type
    Blog Post
    Published
    Aug. 27, 2019, 1:08 p.m.
    ...beginning of September all will be powered by 100% renewable electricity! A (not so) shocking transition  ...bulk purchase energy from a higher percentage of renewable sources. This program offers options of between...between 14% - 100% electricity supplied from renewable sources and we have chosen to participate at the highest... will be drawing 100% of our electricity from renewable energy projects right here in New England- the...attempt to save energy. The transition to 100% renewable electricity will allow us to maintain these particularly...the office more eco-friendly The switch to 100% renewable electricity is certainly not the only sustainability...as well. For a more in-depth look at Addgene’s current lab-oriented environmental efforts check out Leila...
  4. Trends in CRISPR and SynBio Technologies

    Type
    Blog Post
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    Feb. 4, 2015, 3:58 p.m.
    ...comparing Addgene global deposit and distribution trends for Zinc Finger, TALE, CRISPR, and SynBio plasmids...
  5. Tips to Make the Most of a Scientific Conference

    Type
    Blog Post
    Published
    May 23, 2019, 12:26 p.m.
    ...Before the conference Is the conference you are attending on the larger side? At large conferences, chances...once in different rooms. Before arriving at the conference, plan out your agenda. Some conferences even ... the entire conference, in general). After the conference Review your favorite conference moments on social...present your findings at a conference. But what you get out of a conference depends on what you put into...introduction. During the conference When you meet someone new at a conference, one of the first things... the conference, you can end by asking them to come to your poster or talk. After the conference After...elevator pitch several times at the conference, you might notice some trends. Were there parts of your elevator...
  6. Addgene at the ASM Microbe 2016 Conference

    Type
    Blog Post
    Published
    July 7, 2016, 2:30 p.m.
    ... of the conference Addgenies were lucky enough to meet hundreds of the over 11,000 conference registrants...Check Out Our Microbiology Page! The start of the conference After setting up the Addgene booth on Thursday...involved with was one of the highlights of the conference. It was inspiring to see how microbiology research...were happy to chat with lots of researchers who weren’t aware of Addgene’s plasmid sharing services, as...out many of the posters being presented at the conference and talked to some scientists who stopped by ...from the nearly 4000 posters presented at the conference, it looks like there are plenty more exciting...Engineering Learn how to Network at Scientific Conferences Resources on Addgene.org Check out Our Microbiology...
  7. A Conference By Postdocs For Postdocs: Future of Research

    Type
    Blog Post
    Published
    Sept. 2, 2014, 3:05 p.m.
    ...Research" conference. You can register for the conference here. The Future of Research conference is organized...training. One of the best recent discussions of this apparently worsening crisis recently appeared in eLife: ...
  8. Addgene's a Nonprofit? Nonprofit Awareness Day 2017

    Type
    Blog Post
    Published
    June 5, 2017, 3:19 p.m.
    ...public, not private interests. On this nonprofit awareness day, we layout the ways in which we promote our...build reserves so the company is sustainable. The difference is what nonprofits do with their revenue. A nonprofit... offices trust us to work for them with full transparency. We don’t have to explain that the materials...collaboration, and fun Addgene believes there is strength in diversity and in empowering team members to... Jane, Jason, Jessica, Joel, Jonathan, Justine, Karen, Kate, Kayla, Kelly, Kory, Kris, Leila, Lianna, ...Pamela, Racheal, Ramsey, Randall, Ray, Rebecca, Renee, Shannon, Susanna, Tenisha, Thomas, Tony, Tracy,... nonprofit awareness day...
  9. The Scientific Conference Poster Session: Tips for Success

    Type
    Blog Post
    Published
    Aug. 29, 2019, 12:50 p.m.
    ... the conference, map out which posters you are interested in viewing. For most larger conferences, poster...ensure you have the most beneficial scientific conference experience possible. Tips for poster session ... times while standing at your poster – it’s a different experience to practice while seated or with your...Dress for the venue and professionalism of the conference, and remember to wear comfortable shoes, as you...your poster board well ahead of time ensures you aren’t scrambling to tack up your poster seconds before...this, and have many times answered a completely different question than the intended one. Take a deep breath...tips and tricks for presenting at scientific conferences, so let us know your own ways to successfully...
  10. Embracing Serendipity: A Crucial Element in the PhD Journey

    Type
    Blog Post
    Published
    April 25, 2024, 1:15 p.m.
    ...revolutionizing your research. Why serendipity matters Serendipity is not just a stroke of luck; it's ...redefine the course of one's research journey — serendipity. The best scientific breakthroughs often occur...delve into the importance of leaving room for serendipity during your PhD studies and offer two simple ... your search The first step towards inviting serendipity into your research lies in expanding the scope...from looking beyond its confines. The beauty of serendipity often emerges at the intersections of disciplines...sparking innovative thinking that may benefit your current project. Another strategy could entail immersing...Widening your search creates fertile ground for serendipitous encounters that could spark unforeseen connections...
  11. Plasmids 101: Expressing shRNAs for RNA Interference

    Type
    Blog Post
    Published
    June 17, 2025, 1:15 p.m.
    ...umbrella term for a number of different applications that involve different types of small RNA molecules...maybe you’ll consider using RNAi! References and Resources References Bartel, D. P. (2004). MicroRNAs. ...preferred method for many labs. However, RNA interference (RNAi) remains steadfast in the background, ..., a handy “oldie” as you might say. RNA interference (RNAi) is, as the name might suggest, an RNA-mediated...most popular choices for gene silencing. RNA interference RNAi is a useful tool to investigate the roles...processing and silencing pathways. Created on BioRender.com.   Expressing shRNAs using plasmids The ... show flanking genomic sequence. Created on BioRender.com. When it comes to the backbone, shRNAs are...
  12. Four Factors that Differentiate the Stem Cell Field

    Type
    Blog Post
    Published
    Sept. 28, 2016, 2:35 p.m.
    ...types in the body from otherwise terminally differentiated cells simply by expressing four proteins Oct4... usually I only get to scratch the surface of different fields. This meeting has given me an opportunity...can often take the back burner at scientific conferences. In my nearly 20-year career in science, I have...Shinya Yamanaka, George Q. Daley, Christine Mummery, Lorenz Studer, and Deepak Srivastava--addressed a battery...trial patients with advanced macular degeneration; Laurenz Studer discussed his work with Parkinson's Disease...
  13. Future of Research Conference - Remarkable Opening Session

    Type
    Blog Post
    Published
    Oct. 7, 2014, 3 p.m.
    ...second day of the conference included workshops which were framed in advance by the conference organizing team...the amazing, postdoc-driven Future of Research Conference at Boston University last week.  This fantastic...past practices and mores.  His list is dire:  The current system is unsustainable, hypercompetition is corroding...cited the oft quoted statistic that only 15% of current postdocs will be academic principal investigators...
  14. How to Make Friends and Meet People at a Scientific Conference

    Type
    Blog Post
    Published
    Aug. 7, 2014, 1:58 p.m.
    ...spending on a conference? One thing to consider is the size of the conference. Large conferences have many...make new relationships than at scientific conferences. Conferences provide the opportunity to meet people...especially when solving problems.  During the conference The conference may start in the airport. If you see ...programs. After the conference Follow up with the new people you met at the conference. If you promised ...overwhelming as far as meeting new people. At large conferences, look for smaller events or meet-ups to connect...sessions that match your interests. I favor small conferences where the attendees stay onsite and eat together...face it, you see enough of them).  Before the conference Make sure you have a business card – even students...
  15. RNA Interference in Plant Biology: New Tools for an Old Favorite

    Type
    Blog Post
    Published
    Oct. 27, 2020, 1:15 p.m.
    ...enzymes and these different Dicer-like enzymes are involved in the biogenesis of different small RNAs (Figure...choice of tool requires careful balancing of the inherent advantages and limitations of any technique in...that function downstream of DNA, such as RNA interference, can reversibly exert their effect independent...independent of gene copy number. RNA interference (RNAi) is a conserved eukaryotic process where approximately...transcriptionally or post-transcriptionally. In plants, different dicer-like enzymes (DCL) process the dsRNA into...equivalently precise, but each method recovered different genes known to be required for viability (Morgens...subsequent two. Consequently, I will focus on different approaches and considerations present at the first...
  16. Virtual Science Conference Coming Up? Three Addgenies Share Their Experience

    Type
    Blog Post
    Published
    June 30, 2020, 1:15 p.m.
    ...sessions The poster session from conference to conference can be wildly different. There can be no presenter...participants used the conference hashtag after the conference was over. Depending on the conference, organizers ...scientific conferences. Plan your sessions, not your walks between sessions Like many large conferences with...can use to help plan your conference experience.One of the biggest differences: you don't have to build..., requiring you to zoom in to different parts of the poster. Conferences, such as Photonics Online Meetup..., 2020 Final thoughts on virtual conferences Virtual conferences remove many barriers of participation...spend with the conference. “If you want to have the same experience as an on-site conference, you really ...
  17. Tips from the Repository Trenches: Using Barcodes to Track Samples

    Type
    Blog Post
    Published
    Oct. 6, 2015, 2:30 p.m.
    ...freezers that the samples can be stored in? Different shelves? Different racks on each shelf? Give each container...about location, location, location There are many different types of samples at Addgene - DNA sent from depositors... that we never run out. There are a number of different strains of E. coli that can be used for transformation... concentration or need to be transformed into different cells than were originally requested. Most of ...analysis from our protocols and molecular biology reference pages! Resources Avaliable on the Addgene Blog...
  18. Natural or synthetic? How Addgene’s dataset reveals trends in biological innovation

    Type
    Blog Post
    Published
    Nov. 8, 2018, 3:47 p.m.
    ...codon usage biases of different organisms. Different species have different preferences for the codons they...scientists from MIT tapped into this data to learn about trends in synthetic biology and DNA synthesis. They published...the gene may not express well because of these different codon usage biases. But if a gene’s sequence was...could be determined through comparisons with a reference sequence database. Through a series of simulations...Kunjapur says. Percent sequence identity was a different story - the team found that the percent sequence...sequences in Addgene’s database. They showed a growing trend of sourcing genes from distantly related organisms...and synthetic biology is expanding rapidly.  References 1. Kunjapur, Aditya M., Philipp Pfingstag, and...
  19. Q&A with Karen Katz and Carl Paratore, the Newest Members of the Addgene Board of Directors

    Type
    Blog Post
    Published
    Feb. 19, 2019, 1:36 p.m.
    ...We’re excited to welcome Karen Katz, Esq and Carl Paratore, MBA, CPA to the Addgene Board of Directors...scientific community manage those plasmids so scientists aren’t bogged down with distributing them and spending... enjoying that immensely. Paratore: I have two children active in sports, so I enjoy watching their games... Daisy, or out on golf course! Learn more about Karen Katz, Esq Ms. Katz is the Director of Intellectual...Property Programs at Suffolk University Law School. Karen graduated with highest honors from the University...associated with Hale & Dorr and Crowell & Morning. Karen was a founding member of Mass Medical Angels, a ...
  20. Advice on Career Paths and the Green Card Process for International Researchers and Entrepreneurs

    Type
    Blog Post
    Published
    Dec. 20, 2017, 2:33 p.m.
    ...green cards and citizenship.   Lauren Celano, CEO Propel Careers. Lauren is passionate about working with...This post was contributed by guest bloggers Lauren Celano of Propel Careers and Rachel Casseus, Esq. ...information presented may not reflect the most current legal developments.  Further, this post may contain...development for foreign national researchers and entrepreneurs who are looking to continue their careers in...tasked with working with US immigration in its current state. As of September 2017, USCIS received 116,224... As an international researcher and aspiring entrepreneur, you have many career options available to you...skills overtime for success. Many people will have different roles, titles, and responsibilities during their...
  21. Michael Koeris' Journey from Grad Student to Entrepreneur: The Story of Sample 6

    Type
    Blog Post
    Published
    Jan. 21, 2016, 4:52 p.m.
    ...Koeris' own transition from graduate student to entrepreneur, listen to our full interview with Dr. Koeris...contrasts being a graduate student with being an entrepreneur 29:00 - 32:20 : What did It mean for Dr. Koeris...developing a diagnostic? 36:53 - 38:00 : As an entrepreneur, is it more important to develop something that...Board and how he hopes to help young biotech entrepreneurs.   We'd like to thank Dr. Koeris for taking... entrepreneur...
  22. Advice for Starting a Biotech Company from a Grad Student turned Entrepreneur

    Type
    Blog Post
    Published
    July 10, 2014, 7:17 p.m.
    .... I spoke with Dr. Mike Koeris, co-founder and current VP of Business Development & Operations of Sample6...roles and skills necessary to be a succesful entrepreneur? As a co-founder of a biotech startup, Mike ...its pitch the best, wins. He explained that entrepreneurs must clearly communicate their idea at various...be reproducible by someone else. Second, "an entrepreneur must be OK with the constant fear of failure...are only successful if they are 100X better than current technology and get customers to change behavior...
  23. Starter Guide to induced Pluripotent Stem Cells (iPSCs) Part 2:  Reprogramming and Transdifferentiation

    Type
    Blog Post
    Published
    Nov. 6, 2018, 1:12 p.m.
    ...proliferates and is redifferentiated to a different cell type. Transdifferentiation In this process, differentiated...reversal of a differentiated cell type to an undifferentiated state and then redifferentiation into the cell...variety of plasmids for differentiation here. Transdifferentiation Dedifferentiation to an intermediate pluripotent...ability to convert a differentiated cell to a different cell type. While transdifferentiation is suited for ... are converted to cells of a different lineage, without dedifferentiating into a pluripotent stage. Cellular...pluripotent state. Redifferentiation - Conversion of the pluripotent cells into differentiated cells of choice...control the cell fate of iPSCs and differentiate them into different cell lineages [13]. Over the last ...
  24. Binning Singletons: Tackling Conference Networking When You Don’t Know Anyone

    Type
    Blog Post
    Published
    Feb. 18, 2020, 2:15 p.m.
    ...Goldschmidt conference, Coastal & Estuarine Research Federation (CERF) Biennial Conference, Gordon Research...Science’s (SACNAS) annual conference all foster mentorship in different but successful ways. Scientific ...Binning Singletons. The sheer scale of a large conference can be intimidating. And it can be exacerbated...other and what to do.  Saved by the Tweet - The conference hashtag I had, however, started a Twitter account...at an institution where training opportunities weren’t always available. Even more valuable, however, ...like anyone at a meeting who felt isolated at a conference for any reason was a Singleton. Figure ... gene transfer, which occurs when bacteria of different evolutionary lineages share genes that can improve...
  25. Announcing the Winners of the 2021 Michael Davidson and Roger Tsien Commemorative Conference Awards

    Type
    Blog Post
    Published
    Aug. 5, 2021, 12:15 p.m.
    ...supporting in-person conference attendance, the award now supports virtual conference attendance. We also...Michael Davidson and Roger Tsien Commemorative Conference Awards. Congratulations to the five winners! ...awards help early career researchers attend a conference of their choice while honoring the late Michael...faster and more sensitive than its predecessors. Currently, Aggarwal, and colleagues Filip Tomaska and Tim...CR neurons of the spinal cord. Created with BioRender.com. Image from Haoyi Qiu.   He Tian: Directed...had improved performance in live mouse brains. Currently, she is using the improved voltage indicator coming...
  26. Starter guide to induced pluripotent stem cells (iPSCs) part 1:  A renaissance in regenerative medicine

    Type
    Blog Post
    Published
    Oct. 30, 2018, 1:04 p.m.
    ...Their ability to self-renew or replicate while maintaining the undifferentiated “stem” state and, Their...to self-renew is greatly diminished. Embryonic and adult stem cells can be used for different research...contributed by Kusumika (Kushi) Mukherjee, editor of Trends in Pharmacological Sciences, a Cell Press reviews...special types of cells that can develop or “differentiate” into more specialized cells with specific functions...function adequately [1]. Stem cells’ ability to differentiate into multiple cell types makes them useful models...Their potency or capability to differentiate into specialized cell types [2]. We general speak of 4 levels... cell has the ability to produce all of the differentiated cells in an organism, including the embryonic...
  27. Sonic Hedgehog? Sleeping Beauty? Learn About the Genes Behind Addgene’s Conference Room Names

    Type
    Blog Post
    Published
    April 2, 2019, 1:44 p.m.
    ...comes the need for new conference room names. The Addgenie’s favorite conference room naming scheme? Gene...largest conference room at Addgene is named Sonic Hedgehog but this is not a direct reference to the video...community. Not surprising, this is where most of our conference room names originated from. Let’s take a look...Groucho, a transcriptional co-repressor The first conference room, that is actually used as a break room for...diffuses down a concentration gradient exerting a different effect on the developing embryo depending on its...required for spermatogenesis One of our smaller conference rooms is named Cookie Monster. cookie monster... bagpipe, two genes important for mesoderm differentiation Now, let's turn tinman and bagpipe, two genes...
  28. Genetically-encoded Sparse Cell Labeling - A SPARC of Innovation

    Type
    Blog Post
    Published
    May 21, 2020, 1:15 p.m.
    ...788679 Lin R, Wang R, Yuan J, Feng Q, Zhou Y, Zeng S, Ren M, Jiang S, Ni H, Zhou C, Gong H, Luo M (2018) Cell-type-specific...in decreased efficiency of recombination and preferentially leads to gene constructs where the stop cassette...likely generalizable to other systems as well. References: del Valle Rodríguez A, Didiano D, Desplan C...plasmids at Addgene Read our Molecular Biology Reference ...
  29. Reagent Repositories Are Speeding up Science During the Pandemic

    Type
    Blog Post
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    Aug. 4, 2020, 1:15 p.m.
    ...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, Mu Z, Chen... investigate the susceptibility of cells from different organisms to SARS-CoV-2 (Chu et al., 2020). An... of the scientific research infrastructure. References Chu H, Chan JF-W, Yuen TT-T, Shuai H, Yuan S,...(2006) Is there an ideal animal model for SARS? Trends in Microbiology 14:299–303 . https://doi.org/10.1016...
  30. CRISPR 101: Making a Knock-In Cell Line

    Type
    Blog Post
    Published
    Dec. 22, 2022, 2:15 p.m.
    ...10535 (2018). 1 10.1074/jbc.TM118.000372 Yang, H., Ren, S., Yu, S., Pan, H., et al. Methods favoring homology-directed...park. Happy editing!   Resources and References References Yu, Y., Guo, Y., Tian, Qigi, Lan, Y., et...overhangs at the break site – an early HR step (Moreno-Mateos, et al., Nat Com). Another method used ...the break, potentially shuttling repair down a different pathway (Charpentier et al., Nat Com).   ...Cas9 delivery. eLIFE. (2014) 10.7554/eLife.04766 Moreno-Mateos, M. A., Fernandez, J. P., Rouet, R., Vejnar...
  31. CRISPR 101: Any Base Transversion Editors

    Type
    Blog Post
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    April 1, 2025, 1:15 p.m.
    ...-023-02050-w Yi, Z., Zhang, X., Wei, X., Li, J., Ren, J., Zhang, X., Zhang, Y., Tang, H., Chang, X., Yu...) enzymes. Various other proteins included in different CGBE tools allow the researcher to direct the ...component of the nucleoside inosine. Created with BioRender.com. Inosine excision leads to the first adenine...a translesion synthesis polymerase known to preferentially incorporate A bases across from abasic sites...indicate natural cellular processes. Created with BioRender.com. The first deaminase-free base editor allows... Figure 3: Mechanism of gGBE. Created with BioRender.com. Base excision editing extends to thymine...recognize thymine (T) or cytosine (C). Several different teams succeeded with this approach around the ...
  32. Deep Dive: qPCR

    Type
    Blog Post
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    Sept. 29, 2022, 1:15 p.m.
    ...melting profiles (Dwight, 2011).  Reference Genes  Choosing a set of reference genes deserves more attention...attention than it usually receives. Different reference genes have shown to have as much as sixfold variation...of Connect Four! Image created in BioRender.   Passive Reference Dyes Whatever your pipetting method...occur. A passive reference dye, such as ROX, can help normalize for that. Passive reference dyes are inert...Liu and Saint No Raw Data Reference and target genes can have different efficacies DART-PCR No ...will soon become a qPCR master. References and Resources  References Biassoni R; Raso A. (eds.), Quantitative...mRNA, which can be used as a proxy measure for differences in protein expression. (If you're just getting...
  33. Custom CRISPR Screens & the Green Listed Software

    Type
    Blog Post
    Published
    July 11, 2017, 2:30 p.m.
    ...heterogeneous population, cells behaving differently (e.g. different growth properties, migration abilities...targeting all differentially expressed genes that are known drug targets, or all differentially expressed ... by choosing which “Reference Library” you’d like to use in your screen. Currently, eleven published libraries...best gRNAs by the depositing lab. The different labs use different algorithms to calculate which would ...favorite Reference Library, for example related to strategies beyond SpCas9, or species not currently included...were not found in the reference library. It’s not uncommon that genes have different names, and the software...generation sequencing to identify which gRNAs are differentially expressed in the separate groups and, as a ...
  34. Antibody Validation for Flow Cytometry

    Type
    Blog Post
    Published
    Sept. 10, 2024, 1:15 p.m.
    ...For CD365, they examined two different antibody clones produced by different vendors. The specific epitope... panels, where different manufacturers may have the same clone available with different conjugates. Summary...commercial antibody manufacturers. References and resources References Ayoubi, R., Ryan, J., Biddle, M. ...include a discussion of the Human Leucocyte Differentiation Antigens (HCDM) workshop approach, which focuses...one size fits all. The approaches used will be different depending on the sample and target type. To start...an approach that prioritizes more reproducible/renewable reagents, such as recombinant or hybridoma-derived...(e.g. DepMap) – you’ll need to ensure that the parental cell lines of your chosen KO line are likely to...
  35. Plasmids 101: Codon usage bias

    Type
    Blog Post
    Published
    Sept. 27, 2018, 1:09 p.m.
    ...most organisms on Earth, but different organisms have different preferences for the codons they use to ...have different codon usage biases? The reasons for varied codon preferences among organisms aren’t completely...poorly charged tRNAs, different regions of the protein may be translated at different rates. The ribosome...Organisms often need to express genes at different levels under different conditions. With varied codon usage...constraints have molded which codons are used preferentially in which organisms - organisms have codon usage...your organism of choice. Unfortunately, codon preferences make it so you cannot choose among the possible... evolutionary constraints that lead to these preferences and what can we do about them? Read on to find...
  36. Multiplexed Overexpression of Regulatory Factors (MORF) collection

    Type
    Blog Post
    Published
    March 30, 2023, 1:15 p.m.
    ... directed differentiation To understand how each human TF can contribute to differentiation, the Zhang... scientist at [email protected]! References and Resources  References Joung J. et al., A transcription...patterns determine everything from stem cell differentiation fate to tumor suppression (and most everything...construct. Cells were cultured following a differentiation protocol before performing single-cell RNA ...embryonic stem cells. Transduced stem cells were differentiated and single cell RNA-seq was performed to map...    This atlas linked TF expression to differentiation outcomes as well as global transcriptional ...program changes from this screen successfully differentiated cells resembling all three germ layers (ectoderm...
  37. Antibodies 101: Normalization and Loading Controls for Western Blots

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    Blog Post
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    April 8, 2025, 1:15 p.m.
    ...reflect massive differences in protein abundance. Validating the assumptions for different loading controls...detection range be linear! Resources and References References Aldridge, G. M., Podrebarac, D. M., Greenough... that lanes are loaded evenly. Created with BioRender.com. Loading controls are even more important...entire blot. So how can you accurately compare different lanes? In relative quantification, the POI bands... the two conditions are equal. Created with BioRender.com. This kind of normalization is a nearly ...with separate controls (green). Created with BioRender.com. Researchers often rely on assumptions that...normalize your results, you are assuming that all differences in the loading control are due to loading and...
  38. The CRISPR Software Matchmaker: A New Tool for Choosing the Best CRISPR Software for Your Needs

    Type
    Blog Post
    Published
    Nov. 3, 2015, 3:30 p.m.
    ...organism. Output diversity: Different tools provide results to the user in different formats. This can have...the piñata beating party goers are altogether different. They are filled with blind anticipation. Their...spill to the ground. There is something akin to a frenzy as the crowd tries to weigh and determine the value...response; and, it is the stage I think we are currently at in the CRISPR software space. The CRISPR research...year.   Breaking down the barriers: My view on current sgRNA design tools The goal of this post is to ... sgRNA and represents the lion’s share of the currently available tools (we will focus on these tools ...required to fully evaluate off-targeting, but currently no software has been designed for this purpose...
  39. Antibodies 101: Reading a Flow Plot

    Type
    Blog Post
    Published
    Feb. 6, 2024, 3:13 p.m.
    ... with biorender.com.   Of course, this is quite easy to do on a plot generated in Biorender! While...with that…and happy flowing!    References and resources  References Alyamani, A., Kalamegam, G., Ahmed...read from Marker A and Marker B. Created with biorender.com.   The goal of flow cytometry is to use ...usually tell where this point is by looking at the different populations. In the case of Figure 2, one population...and one population that is B-. Created with biorender.com.   If it’s hard to conceptualize where the...   Figure 3: It's often easier to identify different populations by imagining (or drawing) a quadrant...population and everything outside the gate is a different population.  Gating and plot orders  As the gates...
  40. Five Popular Model Organisms

    Type
    Blog Post
    Published
    April 11, 2019, 12:39 p.m.
    ...utilized mice to study how different mutations in leukemia impact different treatment regimens (Zuber ...β-cells that originate in different regions of the pancreas and produce different levels of insulin (Hesselson...1970s when Sydney Brenner brought it into the lab to study neuronal development (Brenner, 1973). C. elegans... developed for emerging model organisms! References Brenner, Sydney. "The genetics of Caenorhabditis ...injecting mice with retroviral vectors that harbored different mutations found in leukemia, the Lowe lab was ...development studies as their embryos are completely transparent. Thus scientists can easily observe early developmental...can be difficult in other vertebrate species. Transparency also allows scientists to easily observe fluorescently...
  41. What Good Citizenship Can Do for Reproducibility in Science

    Type
    Blog Post
    Published
    Nov. 7, 2019, 2:18 p.m.
    ...research program (think a subtle difference in mouse chow, a different water filtration system, environmental...were doing something differently. Communication comes in many forms—from transparency about data to allow...make for a transparent and collaborative research environment. Journals as enforcers Currently, most of ...original paper that everyone in your lab has been referencing for the last 10 years, and everything will be...original researchers actually did. Admittedly, the differences are often very subtle, and it can take a lot ...of the burden for pushing for more transparency in science communication falls on the shoulders of journals...developed STAR Methods to improve the structure and transparency of methods sections, including clear information...
  42. Channelrhodopsins with improved light sensitivity for minimally-invasive optogenetics

    Type
    Blog Post
    Published
    Nov. 3, 2020, 2:15 p.m.
    ... well as predict the channelrhodopsin’s photocurrent strength, wavelength sensitivity, and off-kinetics...one region of the brain, which is needed since current channelrhodopsins tools have low conductance, but...activation to a small volume of brain tissue (~1 mm3). Current channelrhodopsins also need high-intensity light... neuron and causes it to fire. Created with BioRender.com. To make channelrhodopsin-based optogenetics...sensitive and have enhanced conductance compared to current channelrhodopsins. Their new channelrhodopsins,...engineering channelrhodopsins to have improved photocurrent properties: The sequence and structures that...electrophysiology, a technique that’s used to measure electric current of ion channels in living cells. Multiple properties...
  43. Antibodies 101: Polyclonal Antibodies

    Type
    Blog Post
    Published
    July 14, 2021, 1:15 p.m.
    ... immune system make different isotypes of antibodies that recognize many different epitopes of the target... and protein G each have different affinities for IgG subtypes from different animals so it’s important...variability in the strength of staining and background noise. If you do use different lots of your polyclonal...successful next experiment!     References and Resources References Ascoli CA, Aggeler B (2018) Overlooked... cover polyclonal antibodies, one of the many different types of antibodies available (others you’ll encounter...its serum several weeks later. Created with biorender.com. To generate polyclonal antibodies, an animal...polyclonal antibodies from the serum There are a few different ways the antibodies can be isolated from the serum...
  44. Troubleshooting and Optimizing a Western Blot

    Type
    Blog Post
    Published
    Sept. 17, 2024, 1:15 p.m.
    ...detergent like RIPA. You can try a few different lysing buffers and strengths. If that’s not working, consider...Membrane pore size Membranes come in different pore sizes for different proteins: try using a 0.2 µm (psi...Protein not properly lysed Different lysing buffer/adjust lysing buffer strength Sonication based lysing...Best of luck and happy gradients!  References and resources References Luo, H., Rankin, G., Straley, S.,... the antibody’s dynamic range. Created with biorender.com   Alternatively, you can run a reagent gradient...cut up the membrane to treat each lane with a different concentration of your reagent. Be aware that this...high signal with low background. Created with biorender.com   Both gradients can be informative, so ...
  45. Design Tips for Prime Editing

    Type
    Blog Post
    Published
    Jan. 23, 2025, 2:15 p.m.
    ...Created with BioRender.com. For specific prime editing tools There are a lot of different prime editing...offer two different strategies for protecting pegRNAs from degradation. Created with BioRender.com. ...software in the comments below! References and Resources References Anzalone, A. V., Randolph, P. B.,...Figure 1: Prime Editing schematic. Created with BioRender.com. The pegRNA specifies both the genomic location... These tips are a great starting point: Test different lengths of the primer binding site, starting with...still be optimized (Anzalone et al., 2019). Test different lengths of reverse transcriptase template, starting... templates, it is even more important to test different lengths and sequences, as unintended secondary...
  46. Live and Let Dye: Self-Labeling Protein Tags

    Type
    Blog Post
    Published
    April 16, 2024, 1:15 p.m.
    ...find lots of different plasmids containing the same protein of interest tagged with different fusion proteins...you the flexibility to choose different colors or ligands for different experiments without having to ...intracellular recordings, switching between different colored ligands at different time points.   Figure 3...or HaloTag have been shown to perform differently for different ligands (Wilhelm et al., 2021). While ...up for your next experiments!   References and resources References Bottanelli, F., Kromann, E. B., Allgeyer...proteins for different experiments over the years — a green fluorescent protein, a red fluorescent protein...binds a synthetic chloralkane (CA) ligand. The current standard version known as HaloTag is actually HaloTag7...
  47. Typing CRISPR Systems

    Type
    Blog Post
    Published
    March 18, 2025, 1:15 p.m.
    ...horizon (Altae-Tran et al., 2023)! References and Resources References Abudayyeh, O. O., Gootenberg, J. ...probably still edit genomes. Understanding the different types of CRISPR systems can be as confusing as...application of CRISPR-Cas9 kicked off over a decade of frenzied interest in bacterial and archaeal immune systems...multi-pronged analysis to sort effectively. The current classification system relies on a combination of...effector may have the same name but be completely different! They are merely linked by a similar function....typically based on species of origin. There are currently two classes, six types, 33 subtypes, and 17 variants...to variant (shown in italics). Created with BioRender.com.   Class 1 versus class 2 There are two ...
  48. Transferable Skills Guide: Career Planning Resources

    Type
    Blog Post
    Published
    Nov. 14, 2017, 2 p.m.
    ... attend conferences. Depending upon your discipline, there are different types of conferences that you...organizations that hold large, annual conferences. Gordon conferences offer more focused and discipline-specific...experiences, and several Gordon conferences are held every year in different locations all over the world...employer’s career pages to look for current job postings. You may then reference the connection you made at the...were so critical to me landing my own position! Conferences One of the single most important things you can...world. But simply attending the conference is usually not enough. How do you stand out from the hundreds ...people. Attend smaller talks within the bigger conference, especially ones that are more career-focused...
  49. Using AAV for Neuronal Tracing

    Type
    Blog Post
    Published
    Aug. 9, 2018, 1:04 p.m.
    ... events (see Jin & Maren, 2015). Directional flow of information between different parts of the brain ...Castle et al., 2014). Differences between AAV serotypes may be also linked to differences in viral uptake by...these different AAV vectors into a brain region, the AAV particles will infect neurons at different ratios...architecture, in particular the connections between different brain regions. For example, communication between...forming a neuronal loop which is activated and strengthened during memory formation and memory retrieval... for degradation. These two pathways also use different cytoskeletal machineries to facilitate transport...while anterograde transport relies on kinesin. Different rates of speed for various forms of retrograde...
  50. Deep Dive: Statistical Tests (Comparisons)

    Type
    Blog Post
    Published
    March 7, 2023, 2:15 p.m.
    ...test assesses the sum of differences between pairs). Samples arising from different subjects or populations...significant differences between the means of your groups. However, it will only tell you if differences exist...samples are different from each other, or if every permutation of pairs within the five is different. To identify...data – and it looks great! There are some exciting trends in your experimental groups, but how do you determine...groups to determine if they are statistically different. They are classic parametric tests and one of ... whether or not two samples are statistically different than one another, a two-tailed test should be ...control group. If you only care if one group is different in a certain direction (i.e., you just want to...
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