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genechip / microarray experiments – spending on analysis

Don’t scrimp on the analysis of your genechip / microarray experimental results! Genechip / microarray experiments are now very important and useful tools in biomedical research.  Genechips, while...

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a cool translational bioinformatics lab

For those of you interested in bioinformatics or taking advantage of cutting-edge bioinformatics to analyze your data (e.g. microarray, proteomics), check out the Chinnaiyan lab at the University of...

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scientist age and publishing–50 is the new 30?!?!!?

Here’s an interesting article suggesting that “older scientists publish more papers”: http://www.nature.com/news/2008/081029/pdf/4551161a.pdf (if the link is down, see the October 30 2008 issue of...

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predicting microRNA binding sites

Are you interested in or researching microRNA regulation of gene expression?  MicroInspector (written by Vesselin Baev and Ventsislav Rusinov at the University of Plovdiv in Bulgaria) is a web-based...

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sodium borate nucleic acid electrophoresis buffer

Sodium Borate Electrophoresis Buffer (SBE buffer) is an excellent alternative to traditional TBE (TRIS borate-EDTA) and TAE (TRIS acetate-EDTA) electrophoresis buffers. SBE buffer allows for higher...

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where to buy sodium borate electrophoresis buffer

There was some interest in the sodium borate buffer DNA electrophoresis so I thought that I would look around for companies that sell the stuff.  I actually had a hard time finding anyone who sells...

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western blotting reagent recipes

All reagents for western blot are mostly purchased by labs, but if you still make your own reagents, here are some recipes I used during graduate school. These reagents are compatible with all pre-made...

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game on

Okay, funding opportunities are searchable now.  It’s a work in progress!

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grants, scholarships, fellowships

There are now over 100 grants, scholarships, fellowships for research (or just for you!) for medical students, graduate students, postdocs, residents, clinical fellows and investigators now on my...

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DT40 cell culture media recipe

DT40s are a cell culture line of chicken lymphocyte B cells.  They exhibit a high rate of targeted (and random) integration of transfected DNA constructs and are ideal for stable transfection.  They...

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little magnetic beads saved my phd

One mainstay method for cell sorting is with flow cytometry. However, this can be a time intensive procedure and depends on the availability of a flow cytometer with sorting capability and someone who...

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antibody resources for experiments

Good antibodies are critical for any research involving qualitative or quantitative protein detection, isolation, localization and visualization (e.g. western blots, immunoprecipitation or...

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PhosphoPep – a database of protein phosphorylation data

PhosphoPep is a database of mass spectometry-derived phosphorylation data currently from 4 different organisms: the fly (Drosophila melanogaster), human (Homo sapiens), worm (Caenorhabditis elegans),...

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t cell homeostasis – more interesting than it sounds

Look–we all know that T cells are important right?  I mean, it happens when someone is infected with HIV and loses just the subset of CD4+ T cells: AIDS.  There you have it–case closed.  Okay, so in a...

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therapeutic interventions for endoplasmic reticulum stress

The endoplasmic reticulum (ER) is a subcellular organelle that is responsible for numerous functions including calcium homeostasis, protein secretion and lipid biosynthesis. However, cell death...

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“super” cytotoxic t-lymphocyte clones for control of hiv infection

One of the hallmarks of HIV infection is rapid mutation and subsequent “escape” from adaptive immune responses–in particular the CD8+ cytotoxic T lymphocyte (CTL) response, which has been shown to be...

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il-12 and il-23 inhibitor shows promise for severe psoriasis

Ustekinumab is a human monoclonal antibody that antagonizes signalling of the heterodimeric cytokines interleukin 12 (IL-12) and IL-23 by binding to their shared p40 subunit. Previous work has...

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how notch heals a broken heart

From the December 22nd issue of the Journal of Experimental Medicine: The Notch pathway helps a developing heart get into shape but also helps a damaged heart reshape itself and keep pumping. Weakened...

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non-parametric statistical tests

Nonparametric tests are also referred to as distribution-free tests. These tests are used when you cannot make the assumption of normality. Non-parametric tests compare medians rather than means and,...

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nash equilibrium article

You may have seen the movie “A Beautiful Mind” and heard about John Nash, the Princeton mathematician who won the Nobel prize in economics for his work on mathematically describing what has now been...

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intragenic microRNA scanner

For those of you who do work on miRNAs, here is another resource that you can use to look for intragenic miRNAs.  You can either enter a miRNA ID and look for which gene it is located in or search with...

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new product: miltenyi macsquant analyzer

For those of you to whom this might be useful, the company Miltenyi Biotec describes the MACSQuant analyzer as a novel compact benchtop cell analyzer for highly sensitive multicolor flow analysis with...

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phylogenetics resource

If any of you are interested in phylogeny, here is a link to an amazing collection of programs and software for phylogenetic analysis. I have also included this link in my “research resources” sidebar....

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a database of cell signaling

If you study cell signaling, here is a comprehensive database of cell signaling offered through the American Association for the Advancement of Science and Science Magazine:...

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to my regular readers

Sorry–it’s been a slow week for new content on mudphudder’s blog.  This has been a really busy week and I’m halfway home now.  I’ll write put some new material up this weekend and ask that you bare...

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scansite: an online resource for detecting motifs of protein kinase...

Scansite was developed by Michael Yaffe, a world reknowned cell signaling (in particular, protein phosphorylation) researcher at MIT.  Scansite is an online resource to search for motifs within...

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PCR resources

So one of the bread and butter techniques in science is PCR.  And while it can be oh so easy, there are a surprising number of subtleties to each of those steps we take for granted.  That is, until our...

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invitrogen promotion

In case anyone could use it, Invitrogen is offering a promo until March 20th, 2009 where they will give you a $20 VISA gift card if you buy $450 worth of supplies from them online.  Our lab used to...

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advances in cancer genomics webinar

From the Science/AAAS: Watch Live on Thursday, April 30, 2009 12 noon Eastern, 9 a.m. Pacific, 4 p.m. GMT Cancer is a complex family of diseases, characterized by the deregulation or dysregulation of...

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nih grant codes – is k08 a grant or a type of submarine ?

How many times have you heard people talking about R01 grants or K22 grants and you’re like, “what the hell is he talking about?”  A lot for me.  Many years went by in medical and graduate school where...

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CRISP – the nih grant database

Be honest, you want to know what NIH grants the PI down the hall has.  Right?  Of course you do.  You want to know how good he’s got it and how that compares to your NIH funding situation.  Well, the...

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non-r01 nih grants for new investigators

So if you’re starting out as a new investigator, you’re probably not going to get an R01 grant right off the bat.  There are, however, many NIH grants that are specifically aimed at new investigators...

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flow cytometry protocols, facilities and online protocols

Here’s a cool compilation of online flow cytometry resources offered by flow facilities from around the world that I found on website of the flow cytometry core at the Salk Institute in San Diego. For...

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who has a patent?!?!?!

Just like you want to know how many NIH grant the guy down the hall has, you’re probably also wondering if he has any patents.  While you toil away at the bench or in the clinic, this dude is probably...

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