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Biopolymers Facility (Genetics) (HMS)

Director: Steen, Robert

Location: Biopolymers Facility NRB, Room 0088, 77 Avenue Louis Pasteur, Boston, MA 02115

Summary:

Our mission is to provide investigators with access to technologies and services that will help them speed along their research programs while conserving both time and money by not having to conduct certain experiments within their own labs. We strive to provide high quality data and a rapid turn-around time for all samples. In addition, we provide a wide variety of the most popular reagents and supplies for immediate pick up from our facility.

Affiliations:

People:

Resources:

Instruments

  • 10X Chromium Single Cell Controller ( DNA sequencer )

    "The Chromium Single Cell Controller gives every lab the power to perform single cell RNA sequencing. The new controller is part of our Chromium Single Cell Solution providing a comprehensive, scalable solution for cell characterization and gene expression profiling of hundreds to millions of cells. Affordable and with a simplified workflow, users can go from cell sample to sequencing library in less than one workday."

  • Agilent 2100 Bioanalyzer (3 instruments) ( Microfluidics platform )

    "The Agilent 2100 Bioanalyzer is a microfluidics-based platform for sizing, quantification and quality control of DNA, RNA, proteins and cells on a single platform. Results are delivered within 30-40 minutes in automated, high quality digital data."

  • Agilent 2200 TapeStation ( Electrophoresis system )

    "Developed by the company behind the industry-leading 2100 Bioanalyzer, the new Agilent 2200 TapeStation system offers scalable throughput and rapid results, making it an ideal solution for quality control of biological samples in next-generation sequencing (NGS), microrarray and qPCR workflows, as well as in protein purification and antibody production."

  • Agilent 4200 TapeStation ( Electrophoresis system )

    The Agilent 4200 TapeStation system offers automated sample processing for quick and reliable sample quality control within any Next Generation Sequencing (NGS), microarray (aCGH) or quantitative PCR (qPCR) workflow.

  • Covaris M220 Focused-Ultrasonicator ( DNA shearing instrument )

    M220 Focused-ultrasonicator™ is designed for Next-Gen Sequencing applications requiring fragment sizes between 150bp and 5kb. Compact size and ease-of-use make the M220 Focused-ultrasonicator the ideal DNA shearing solution for MiSeq™ and PGM™ users.

    The M220 runs a variety of DNA shearing protocols with Covaris SonoLab 7 software and uses both the Covaris microTUBE™ & miniTUBE™.

  • Fluidigm C1 Single Cell Autoprep ( Cell assay platform )

  • Illumina cBot ( Flow cell )

    Automated flow cell cluster generation station for Illumina HiSeq2000 next generation DNA sequencer.

    Instrument is a specialized robot that combines multiple functions of library development for next-gen sequencing including: immobilization of the sample to templates, "bridge"-amplification, linearization, blocking and primer hybridization.

  • Illumina HiSeq2500 Ultra High-Throughput Sequencer ( DNA sequencer )

    Automated high throughput next generation DNA sequencing instrument.

    Instrument is paired with Illumina cBot.

  • Illumina MiSeq Desktop Ultra High-Throughput Sequencer (3 instruments) ( Next generation sequencer )

    MiSeq is the only benchtop sequencer that can produce 2 x 250 paired-end reads and up to 8.5 Gb of data in a single run. Allowing you to assemble small genomes or target variants with unmatched accuracy, especially within homopolymer regions. Process more samples in less time. Generate higher read depths to get greater precision for variant detection. All using the shortest sample-to-data workflow among all benchtop sequencers.

  • Illumina NextSeq 500 High-Throughput Sequencer (4 instruments) ( Next generation sequencer )

  • Invitrogen Countess II Cell Counter ( Automatic cytometer )

    The Countess™ II Automated Cell Counter is a benchtop assay platform equipped with state-of-the-art optics, full autofocus, and image analysis software for rapid assessment of cells in suspension.

  • Life Technologies QuantStudio7 Real Time QPCR System ( Real-time PCR machine )

  • NanoDrop ND8000 UV / Vis Spectrophotometer ( UV/vis spectrophotometer )

    "The NanoDrop 8000 delivers full-spectrum UV-Vis absorbance measurements for up to eight samples at one time. Using the patented sample retention system* the NanoDrop 8000 provides the same accurate 1 µL DNA, RNA, and protein sample measurements as our single channel spectrophotometers.

    Displaying a full-spectrum for all samples, the NanoDrop 8000 is designed for higher throughput evaluation of precious samples when downstream requirements for sample QC are critical."

  • Perkin Elmer Sciclone Robotic Liquid Handler ( Liquid handler )

    "The Sciclone® workstation can be configured to automate many automated liquid handling applications. Its open-deck design can incorporate a 96-or a 384-channel pipetting head, an optional eight-channel pipettor, and/or a bulk reagent dispenser. PerkinElmer's "PING!" non-contact liquid level detection technology ensures that all samples are processed using vacuum or pressure filtration. Magnetic bead-based separations and a large variety of on-deck shaking, heating and cooling options are also supported with this liquid handling instrument."

  • Qiagen High-Precision Qiagility Robot ( Sample preparation system )

    "The QIAgility is a compact benchtop instrument that enables rapid, high-precision PCR setup. The unmatched versatility of the QIAgility means that almost all tube and plate formats are supported as well as Rotor-Discs for the Rotor-Gene Q."

  • Qiagen QiaCube Sample Prep Robot ( Sample preparation system )

    "The innovative QIAcube uses advanced technology to process QIAGEN spin columns, enabling seamless integration of automated, low-throughput sample prep into your laboratory workflow. No change of purification chemistry is required, assuring fast startup and immediate results. All steps in the purification procedure are fully automated – and up to 12 samples can be processed per run."

  • Takara Biosciences SMARTer Apollo Robotic Library Prep System ( Liquid extraction robot )

    Features:
    Eight deck positions enable flexible configuration of consumables and reagents;
    Two Peltier blocks hold samples at high or low temperatures;
    Automated magnetic bar effectively captures magnetic beads within the tips;
    Integrated touchscreen with helpful graphic user interface makes deck setup easy

  • Thermo Fisher Qubit 3 Fluorometer ( Fluorometer )

    "The Qubit® 3.0 Fluorometer is the next generation of the popular benchtop fluorometer that accurately measures DNA, RNA, and protein using the highly sensitive fluorescence-based Qubit® quantitation assays. The fluorogenic dyes used in these assays emit signals only when bound to specific target molecules, even at low concentrations, thus minimizing the effects of contaminants, including degraded DNA or RNA.

    The integrated design of the instrument and assays results in quantitation that is far more sensitive than UV absorbance, making this system essential for quantitation of precious samples (samples that are rare, difficult to purify, or expensive to either obtain or prepare) or samples for "delicate" applications (samples for downstream assays that are extremely sensitive to sample conditions)."

Protocols

Services

  • DNA and RNA Analysis ( Material analysis service )

    DNA analysis with as little as 5 pg and RNA analysis starting at 50 pg are available. Determine size, concentration and quality information using any of three multipurpose platforms, the 2100 Bioanalyzer or the 2200/4200 TapeStation, available as microfluidic alternatives to gel electrophoresis.

  • DNA and RNA Automated Extraction ( Material processing service )

    A variety of DNA and RNA preparation services are available using Qiagen kits compatible with the QIAcube robot to perform high quality, error-free automated sample preparation.

  • DNA Sanger Sequencing ( Material analysis service )

    Sequencing service includes bigdye reactions, cleanseq purification and 3730xL analysis. Runs for single samples or whole plates available.

  • Next Generation Sequencing Library Construction ( Material production service )

    Automated library preparation available using either the Perkin Elmer Sciclone or the Takara Biosciences SMARTer Apollo robots. Kits and services for a variety of applications are available (total-RNA, mRNA, Genomic DNA, ChIP, 16S and PCR-amplicon).

  • Next Generation Single Cell Analysis ( Material analysis service )

    A variety of Single Cell analysis applications are available on the 10X Chromium System for Genomic DNA, Exomes, RNA-Seq and Immune Profiling.

  • Next Generation Ultra-High Throughput Sequencing ( Material analysis service )

    Illumina HiSeq2500, NextSeq 500 and MiSeq sequencing services available by lane or full flow cell. Both single read and paired-end runs of varying lengths available.

  • Oligonucleotide Ordering  ( Support service )

    The BPF Portal links you to Integrated DNA Technologies (IDT) entire catalog of products including oligo ordering. Avoid shipping charges as oligos are bulk shipped to the core where you may pick them up in the morning or have them delivered to your laboratory mailbox in the afternoon at no additional charge. Our bulk purchasing agreement allows us to offer most IDT items at the lowest prices.

  • Self Service Supply Room (SSSC): ( Support service )

    The core operates a supply center that is open 24 hours, 7 days a week in Goldenson Room 142 on the Quad. Various automated freezers, fridges and room temperature units store many items available from a number of different vendors. Similar to our reagent stock room, you will avoid costly shipping charges and items are always available for immediate pick up. Bulk purchasing allows us to offer these products at low prices.

  • Stock Room for Reagents and Supplies ( Support service )

    Stock Room:
    The facility operates an on-site stock room with hundreds of products from over a dozen vendors. Avoid costly shipping charges and wait times. Items can be ordered online and picked up immediately. Bulk purchasing allows us to offer most products at the lowest prices.


Web Links:

Last updated: 2018-06-20T07:26:32.352-05:00

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The eagle-i Consortium is supported by NIH Grant #5U24RR029825-02 / Copyright 2016