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  • Main Page
    *[[Using Bioconductor To Analyse Beadarray Data]] *[[Using Bioconductor To Analyse Microarray Data]]
    4 KB (484 words) - 12:10, 15 August 2016
  • Surface Plasmon Resonance - Protein Lipid Interactions
    #Analyse the data using [[Using Scrubber2 | Scrubber2]] and/or a separate analysis graphing p
    5 KB (753 words) - 14:40, 14 April 2011
  • QPCR - Lin Lab
    ...ortcut to results”icon to open that window. Drag and drop the .sds (raw data) and .csv (Excel spreadsheet) files into the USB window. Right click on th
    3 KB (562 words) - 12:13, 28 May 2009
  • Insulin Tolerance Test
    ...epared above to rescue the mice and prevent hypoglycmic shock. Ignore the data from this mouse from that point on. *Analyze data by both % change from fasting glucose and absolute values. Our preferred o
    4 KB (717 words) - 15:19, 7 March 2022
  • Culturing RAW 264.7 Cells
    taken from [[http://www.signaling-gateway.org/data/cgi-bin/ProtocolFile.cgi/afcs_PP00000159.pdf?pid=PP00000159 Passage Procedu
    6 KB (860 words) - 15:28, 15 July 2009
  • Using Bioconductor To Analyse Microarray Data
    Meta(gds) #show extracted meta data ...log=TRUE) #convert to expression set, by default obtains annotation (GPL) data with log2 transformation
    2 KB (354 words) - 15:34, 2 September 2009
  • Using Bioconductor To Analyse Beadarray Data
    **annotation data for the array (normally illuminaMousev2BeadID.db) ==Loading Data==
    5 KB (766 words) - 15:34, 2 September 2009
  • Using Bioconductor To Analyse Beadarray Data (lumi)
    **annotation data for the array (normally either '''lumiMouseIDMapping''' or '''lumiHumanIDMa ==Loading Data==
    5 KB (722 words) - 15:34, 2 September 2009
  • HPLC - Designing a Method for a Sample or Series
    *Under Data Channels change sample rate if required (10pts/s is usually OK). Click '''
    3 KB (484 words) - 19:22, 14 May 2010
  • HPLC - Running a Sample or Series
    *Data will be collected, saved and processed automatically.
    3 KB (455 words) - 18:38, 14 May 2010
  • Quantification of Vacuolar Colocalization
    #On the popup window select copy and paste the data into an excel document #On the popup window select copy and paste the data into an excel document
    752 bytes (136 words) - 13:42, 11 June 2010
  • Using South To Migrate a Django Database
    #If there is pre-existing data in the database enter '''python manage.py migrate --fake''' to run a fake m
    628 bytes (86 words) - 19:39, 21 July 2010
  • Affinity Purification of Proteins - FPLC
    #Go to setup and choose where to save your data.
    3 KB (559 words) - 19:47, 9 February 2011
  • RNA-seq Pipeline for Known Transcripts
    ...are pre-built UCSC genomes and downloaded from ftp://ftp.cbcb.umd.edu/pub/data/bowtie_indexes/ ...enome in both .ebwt and fasta formats (e.g. /ccmb/CoreBA/BioinfCore/Common/DATA/BowtieData/H_Sapiens/hg19)> <reads file to be aligned (e.g. s_1_1_sequence.
    5 KB (760 words) - 16:08, 8 November 2011
  • Statistical Analysis
    ...or R for the analysis. To get data into R, the easiest way is to make the data in excel then import it into R with this command: * Using R, providing data is formatted in a dataframe named '''dataset''' with columns '''group''' an
    6 KB (1,029 words) - 18:10, 26 June 2012
  • Primer Design for qPCR
    # Check if the primer is available in the lab using the Primer Data sheet at https://docs.google.com/spreadsheets/d/1kQ1G52XuoqpAWHIWT5H2UDz4aD # Enter both primers in the Primer Data sheet used in Step 1
    1 KB (249 words) - 17:48, 29 June 2017
  • Quantifying Relative Expression from qRT-PCR
    ==Data Processing==
    2 KB (250 words) - 14:57, 2 December 2013
  • Lipolysis Assay from Primary Adipocytes
    * Present the data in glycerol (or FFA) released per hour per number of cells.
    2 KB (251 words) - 14:51, 11 November 2014
  • Measuring Grip Strength
    * Prepare a data sheet with one row per animal and space for 3-5 measurements per animal. * Record the peak grip on your data sheet
    1 KB (208 words) - 17:20, 14 February 2014
  • Pyruvate Tolerance Test
    * Analyse data by both % change from fasting glucose and absolute values. You may also wa
    3 KB (461 words) - 17:50, 6 April 2022
  • Locating ChIP-seq peaks from ENCODE
    # Click on the Explore ENCODE data at UCSC picture
    1 KB (272 words) - 17:15, 25 January 2016
  • Safety and Animal Training
    ==Human Subject Data== If you will be working with Human data you will have to take these classes. They are all offered through MLearnin
    2 KB (339 words) - 14:06, 25 January 2023
  • SOP - Flammables and Combustibles
    Flammability - Check Safety Data Sheet of the material for other hazards.
    11 KB (1,527 words) - 21:54, 12 June 2017
  • SOP - Electrophoresis
    Always review the Safety Data Sheet prior to working with any hazardous material.
    8 KB (1,122 words) - 13:16, 6 June 2022
  • SOP - Formalin and Paraformaldehyde
    *Consult your Safety Data Sheet for more information on hazards.
    9 KB (1,296 words) - 13:17, 6 June 2022
  • SOP - Compressed Gases
    ...ssed gases may also be toxic, flammable, or explosive – check the safety data sheet for more information. Safety considerations for these properties must
    8 KB (1,210 words) - 13:16, 6 June 2022
  • Using the echoMRI
    ==Exporting Data==
    1 KB (256 words) - 15:40, 2 January 2017
  • Set up qPCR Run on Thermo Cloud and QuantStudio
    ...shboard] using the login information for your lab (the Bridges Lab account data is located on the side of the machine.))
    2 KB (334 words) - 19:17, 18 December 2018
  • Data Management
    [[ Category: Data ]] ...ur saved data. Below are some best practices on how to save and store your data in our group.
    8 KB (1,328 words) - 14:59, 17 May 2017
  • General Statistics
    ...measurement in question. It is a good idea to keep a log of these for your data, so that you can approximate what this is. If you hope to detect a correlat ...want to do a pairwise test. This is '''not''' the case if you have paired data (before and after for example). The most common of these is something calle
    11 KB (1,555 words) - 02:11, 11 December 2017
  • QPCR Analysis on ThermoCloud
    ...shboard] using the login information for your lab (the Bridges Lab account data is located on the side of the machine.) *If you need to omit samples from the analysis, do so under the '''Data Review''' tab by clicking on the affected target, highlighting, and omittin
    2 KB (306 words) - 16:49, 4 December 2018
  • Using GSEA for Gene Set Analyses of Transcriptional Data
    * Click on Run on the bottom of the screen. Data will be saved in the folder noted under basic fields
    3 KB (434 words) - 13:31, 5 September 2018
  • Scanning and Analyzing Western Blots Using LiCor Odyssey
    *USB (for data and pictures) #Check that you have collected and saved all data and pictures to your '''Work Area''' and to your flash drive (later transfe
    5 KB (873 words) - 15:51, 26 March 2021
  • Ketone Body Tolerance Test
    *Analyze data by both % change from fasting ketones and absolute values. Our preferred ou
    3 KB (464 words) - 16:49, 8 August 2019
  • SOP - Corrosives
    Refer to the steps in the protocol and the Safety Data Sheet (SDS) for using the corrosive chemical in question for information re Review the Safety Data Sheet (SDS) of the material to determine if it is corrosive and to identify
    17 KB (2,440 words) - 12:54, 6 June 2022
  • Writing a Paper and Uploading Code to Github Repository
    ...and resource sharing policy see [http://bridgeslab.sph.umich.edu/posts/lab-data-and-resource-sharing-plan here]: ...ode. Use the existing directory structure to understand where to put your data.
    7 KB (1,268 words) - 19:16, 5 February 2020
  • Rate of drop analysis
    1. First, filter your ITT data to contain only the observations from where animals are in the initial drop 2. You then need to construct a model for your data. It should include 1 covariate for every experimental variable (eg, time, g
    2 KB (323 words) - 13:54, 1 September 2022
  • Weigh-Suckle-Weigh Milk Volume Measurement
    ...he dam and pups for all time points. This is an example to highlight the 3 data points for weight measurements.
    2 KB (312 words) - 17:42, 8 April 2021
  • Milk Creamatocrit
    ```{r data-manipulation} mutated.milk.data<-milk.data%>%
    3 KB (397 words) - 20:29, 18 March 2022
  • Analysing Data on Armis or Great Lakes using Rmd Files
    ...gan there are two clusters, one for human data (Armis) and one for non-PHI data (Great Lakes). Both of these are connected to a storage service called [ht .../precisionhealth.umich.edu/tools-resources/data-access-tools/how-to-access-data-tools-analytic-environments/ these instructions].
    6 KB (988 words) - 18:32, 5 September 2023
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