Blue pippin.

SDS-GHS: Reagent Replacement Kit for Dye Free Pippin Prep Cassettes (RIP2010, RIK2010, RIK 1510) SDS-GHS: Pippin Prep Cassettes with Ethidium Homodimer, Reagent Replacement Kit (REK2010) SDS-GHS: 10X KBB Electrophoresis Buffer (KBB1001) SDS-GHS 0.5X KBB buffer (PN190039) SDS-GHS: DNA Control Kits for Pippin Prep and BluePippin.The Sage Science Pippin Pulse is an affordable tool allowing researchers to resolve DNA up to 430 kb. Pulsed-Field Technology. Utilises innovative pulsed field inversion electrophoresis that works by shuttling DNA back and forth in the gel, effectively slowing down large DNA fragments that would typically migrate at the same rate as smaller DNA ...Blue peaks indicate that the GC content of this region is lower than the average GC content of the genome; (7) GC skew, wherein dark gray represents areas with more G than C content and red represents areas with greater C than G content, respectively. (For interpretation of the references to colour in this figure legend, the reader is referred ...selected protocol will be highlighted in blue. g. For the target duration, enter the desired run time (typically 14 to 16 hours). Note that the default value is 2 hours. Consider optimizing the run time based on the ambient lab temperature since the Pippin Pulse Electrophoresis System does not regulate the temperature in the gel chamber.

1 Title Highly accurate long-read HiFi sequencing data for five complex genomes Authors Ting Hon1, Kristin Mars1, Greg Young1, Yu-Chih Tsai1, Joseph W. Karalius1 Jane M. Landolin2, Nicholas Maurer3, David Kudrna4, Michael A. Hardigan5, Cynthia C. Steiner6, Steven J. Knapp5, Doreen Ware7,8, Beth Shapiro3,9, Paul Peluso1, David R. Rank1* *Address correspondence to D.R.R. ([email protected])The synthesized cDNA was enriched by PCR amplification, the amplified cDNA fragments were divided into different size fractions using the Blue Pippin size selection system (Pacific Biosciences).Page 1 . Procedure & Checklist - Iso-Seq™ Template Preparation for Sequel™ Systems. Before You Begin . The long read lengths of the PacBio® System are well-suited for characterizing full -length transcripts produced from high-quality RNA samples.

For removal of the empty amplicons, we therefore introduced a final purification step using an automated agarose gel electrophoresis system (Blue Pippin, Sage Science). It allows the efficient depletion of empty amplicons prior to sequencing (Figure 3D & Supplementary Figure S3 ), decreasing their abundance from ∼70% (0.1 …High-molecular-weight (HMW) genomic DNA (>40 kb) was isolated from the agarose plugs using pulsed-field electrophoresis on a Blue Pippin instrument (Sage Science) following the high-pass protocol ...

Pippin depicted everyday events, historical figures, and religious themes using a simplified style of flat shapes and strong colors. In the American popular press of the 1910s and 1920s, the blue tiger was a recurring symbol of the unattainable, and the black bear signified the wilderness. The tiger and bear, rendered in contrasting tones, seem ...50 years ago, on October 23, 1972, the Broadway cast of a new musical called Pippin had parts to perform and hearts to warm on their opening night at the Imperial Theatre. For the show's composer and lyricist, Stephen Schwartz, fresh off the success of Godspell Off-Broadway, the opening marked the premiere of his first Broadway musical. Pippin follows the journey of a young prince searching ...The size range of our cassettes can be found in our Pippin HT cassette kit reference chart. All PippinHT cassettes can accept up to 1.5 μg DNA per lane. All PippinHT cassettes can accept up to 1.5 μg DNA per lane. Description. DNA Size Selection for Next-Gen Sequencing, with Pulsed-Field. (100bp – 50kb) Size-Select DNA Fragments up to 50kb Collect HMW DNA with High-Pass Filtering. The BluePippin has the DNA capabilities of the Pippin Prep, plus the extra benefit of pulsed-field electrophoresis for resolving and collecting high molecular weight DNA.

Pippin Prep DNA Size Selection System Selects 100 bp – 1.5 kb. SageELF Whole Sample Fractionation System DNA (up to 40 kb) or Proteins (up to 500 kDa). Pippin Pulse ...

The pooled libraries were subject to size selection (425-525 bp) to remove host DNA amplification products using a Blue Pippin Prep device (Sage Science, Beverly, MA) and employing a 2% agarose gel cassette. The pooled libraries were loaded onto an Illumina MiniSeq mid-output flow cell (2x150 paired-end reads) with a 20% phiX spike in. Based ...

Newtown Pippin & Bellflower . View fullsize. Blue Pippin. View fullsize. Five Mile Orchards. View fullsize. Newtown Pippin - Dry Single Varietal . 2017. View fullsize. Dancing Begonias. View fullsize. Lucked Out. View fullsizeThe published protocol 19 was used with minor modifications: size selection was performed using a Blue Pippin (Sage Science). In some instances we used rnh201-RED instead of rnh201::kan (see results).Sep 26, 2023 · SDS-GHS: Reagent Replacement Kit for Dye Free Pippin Prep Cassettes (RIP2010, RIK2010, RIK 1510) SDS-GHS: Pippin Prep Cassettes with Ethidium Homodimer, Reagent Replacement Kit (REK2010) SDS-GHS: 10X KBB Electrophoresis Buffer (KBB1001) SDS-GHS 0.5X KBB buffer (PN190039) SDS-GHS: DNA Control Kits for Pippin Prep and BluePippin. Libraries were prepared with Illumina TruSeq Stranded mRNA kit starting from 600 ng of total RNA, and samples were fragmented and amplified for 15 PCR cycles. Libraries were size selected with Blue Pippin (Sage Science) using 1.5% gel cassettes and 350-550 bp regions isolated.The DNA sample was fragmented with Megaruptor (Diagenode) to 15 kbp and size-selected (>10 kbp) using the Blue Pippin (Sage Science), and prepared for sequencing using the SMRTbell Express ...Sage-Scientific Blue Pippin; Life Technologies E-Gel System; Diagenode Bioruptor Standard Sonicator; Gene Expression. Quantitative PCR (qPCR) Affymetrix GeneChip Workstation; Imaging. Typhoon 9410 GE Healthcare; Biorad Gel Doc EZ; Incubators/Shakers. Labnet Vortemp 56 incubator; Mcconnell Research Mini-grow 384 Incubator; Larger IncubatorsBluePippin Operations Manual 460013 Rev B 1-2 1.2 How the System Works The BluePippin systems use pre-cast and disposable agarose gel cassettes.

The Blue Pippin is used to select DNA of certain sizes and effectively remove unwanted fragment sizes. If you intend to use Illumina technology, we will select fragments in a target size range …Sage-Scientific Blue Pippin; Life Technologies E-Gel System; Diagenode Bioruptor Standard Sonicator; Gene Expression. Quantitative PCR (qPCR) Affymetrix GeneChip Workstation; Imaging. Typhoon 9410 GE Healthcare; Biorad Gel Doc EZ; Incubators/Shakers. Labnet Vortemp 56 incubator; Mcconnell Research Mini-grow 384 Incubator; Larger IncubatorsFragments were purified again and filtered for 300-600 bp fragments using the Blue Pippin Prep System (Sage Science). Finally, fragments were amplified using a quantitative-PCR with 18 cycles (NEB Phusion high-fidelity polymerase, New England Biolabs), size-selected again for 300-600 bp fragments, and sequenced on an Illumina HiSeq 2500 system.... Blue · See More... SHOP BY METAL · Silver Chrome · Gold Chrome · Rose Gold Chrome · Rainbow Chrome · Black Chrome · Satin Chrome · Halloween ...The SageELF is an electrophoresis system that separates DNA or protein samples by size, and then fractionates the whole sample, or section of sample, into 12 fractions. The system is equipped with pulsed-field electrophoresis for resolving large DNA. Fractionation ranges are estimated and adjusted in software, and fractions are collected in buffer."The Pippin Prep gave very tight size distributions whereas those from the Labchip XT were much broader. … The distribution of recovered fragment sizes was much more reproducible with the Pippin Prep." Such tight sizing can lead to lower yield, the authors note, adding that "this can partially be overcome by setting the instrument to ...

Size selection (> 20 kb) was performed using 15 μg of genomic DNA and the Blue Pippin System (Sage Science, Beverly, MA, USA), and PCR-free libraries were constructed using the standard protocol of Nanopore (Oxford Nanopore, Oxford, UK). Libraries prepared in two flow cells were sequenced at Shanghai Biozeron Biotechnology Co., Ltd and ...

This video provides an overview of the basic types of DNA size selection protocols on the Pippin systems, and how they are programmed in the software interface.The repaired/modified DNA was used for V3 adapter Ligation. The adapter ligated library was treated with Enzyme mix for Nuclease treatment to remove damaged or non-intact SMRTbell templates. The purified library was then size selected using two-step size selection with Blue Pippin (Sage Science) generating 9–13 kb and > 15 kb fractions.The Blue Pippin has both standard and pulse field electrophoresis capability permitting a large range of fragment size selection. Cassettes can run up to 5 samples. Unused sample lanes can be used at a later time in some cases. Gel cassettes available are: 3% agarose 100-250bp isolation 2.5% agarose 100-600bp 1.5% agarose 250bp - 1.5KbThe Blue Pippin has both standard and pulse field electrophoresis capability permitting a large range of fragment size selection. Cassettes can run up to 5 samples. Unused sample lanes can be used at a later time in some cases. Gel cassettes available are: 3% agarose 100-250bp isolation 2.5% agarose 100-600bp 1.5% agarose 250bp - 1.5KbFor this reason, careful fragment size selection on the Blue Pippin during sample preparation can pay huge dividends during downstream data analysis. This instrument is also critical for the selection of high molecular weight DNA for 10X Whole Genome and PacBio long-read sequencing applications. BluePippin DNA size selection system. The Sage Science BluePippin system is an automated DNA size selection tool for NGS applications, plus the capability of pulsed-field electrophoresis …22 thg 10, 2012 ... Our genomics core recently received a new Blue Pippin instrument. Another user and myself each prepared TruSeq DNA whole genome libraries ( ...Check out the latest papers citing automated DNA size selection from Sage Science. Check out our new app note with @Diagenode! Best practices when using #Megaruptor3 w/ #PippinHT or #BluePippin. Includes our new Range+T size selection method & tips on getting tight HMW DNA in the 9-30kb range. #PacBio #HiFisequencing #nanopore #genomics https ...

BluePippin Prep. The Pippin Prep is an electrophoresis platform capable of size-selecting DNA fragments and automatically collects the fractions in buffer according to the user-specified size range. It is routinely used to size-select next generation sequencing libraries. It is capable of performing narrow size selections from 50bp to 50kb in ...

Description DNA Gel Cassettes Specifications Downloads Size Select Up To 24 Samples In One Run PippinHT incorporates the company’s highly regarded sizing technology and increases throughput to 24 samples per run, compared to a maximum of five with Pippin Prep or BluePippin.

The purified sample was size selected using the Blue Pippin with a dye-free, 0.75% agarose cassette and U1 marker (Sage Science, BUF7510, Mulgrave, Victoria, Australia) and the 0.75% DF Marker U1 high-pass 30–40 kb vs3 run protocol, with a BPstart cut-off of 35,000 bp. After size selection, the samples were purified with AMPure PB …Figure Legend Snippet: Fragment analysis of cDNA (after library preparation) Blue line: Amplified cDNA cleaned using 0.4× AMPure beads, Black line: Amplified cDNA size selected using agarose gel on a BluePippin Instrument. Samples were analyzed on a Fragment Analyzer system using the HS NGS Fragment assay reagents (1-6000 bp). RFU: Raw fluorescence value, LM/UM: Lower/Upper Marker needed ...The Pippin platform is typically used to construct genomic libraries for next-gen sequencing. The BluePippin is an updated version of Sage's Pippin Prep system, to which a pulsed-field power supply has been added. Pulsed field gel electrophoresis allows larger fragments of DNA separated with high resolution and accuracy. Using pre-cast gels ...Following ligation of SMRTbell adapters, sheared gDNA was size selected with a 4-kb cutoff using Blue Pippin electrophoresis (Sage Science) to generate a greater fraction of long reads capable of resolving repeat sequencing in the A. xylosoxidans genome. Sequencing was performed using the PacBio RS II platform.Not sure how much your old car is worth given the market? That's what Kelley Blue Book is for, right? How about your old TV, laptop, bicycle, and so on? By analyzing the going rates for 130 million listings across the internet, web site Pri...The Blue Pippin is utilized for DNA size selection (up to 50kb) for NGS. Desired target sizes or ranges of sizes are entered in software and fractions are collected in buffer. Up to 5 samples/gel cassette may be run, with no possibility of cross contamination....Sep 19, 2018 · The High Pass Plus cassette has a stocky separation column, so DNA has a shorter distance to travel. The wider column and increased taper provide higher resolution for a cleaner and more accurate size cut-off. The larger sample wells now allow a maximum load of 10ug (100% up from standard Blue Pippin cassettes). Blue Pippin Release notes: Date: 10/21/21 Version: 6.31 / 6.40 CD 33 What's new from 6.31 / 6.40 CD 33 to 6.31 / 6.40 CD 34 - Added a new cassette definition, "2% DF, Marker V2" for CFD2010 Marker V2 cassettes. Marker V1 is no longer available with new cassette purchases.

Library fragments in the 15–50-kb range were size-selected on a Blue Pippin (Sage Science) by using a 0.75% dye-free agarose gel cassette according to the ‘0.75% DF Marker S1 high-pass 15–20 ...For each isoform, blocks in blue represent exons, and lines between blocks represent introns. Red triangles indicate the position of primers used for RT-PCR. b RT-PCR validation of the differential intron retention level of PB.13680. cDNA from 5 h, 15 h and 30 h germinating seeds and leaf samples were used for RT-PCR. The gel bands show DNA ...Blue Pippin Instrument Pulsed-field automated DNA size selection system The Sage Science product portfolio combines pre-cast agarose cassettes with a high-precision, automated solution for the accurate and targeted size-selection of DNA fragments for library construction in NGS workflows FlexibilityInstagram:https://instagram. quiten grimescraigslist massena ny petschristine luwhere are clams found Pulse-field gel electrophoresis was performed with a Blue Pippin instrument by the University of Maryland Genomics Resource Center to select DNA fragments of the proper size. PacBio sequencing was carried out on the PacBio RS II platform with P6-C4 chemistry using nine SMRT cells and on the PacBio Sequel platform using nine additional SMRT ...For each Nanopore library, the gDNA was size-selected (10-50 kb) with a Blue Pippin system (Sage Science, USA) and processed using the Ligation Sequencing 1D kit (SQKLSK109, Oxford Nanopore Technologies, UK) according to the manufacturer's instructions. Library construction and sequencing were done by the GridION X5/PromethION sequencer ... kansas vs wvu mountaineerswiipedia If you'd like us to Pippin your samples for you (plus perform quantification and fragment analysis), the cost is $75 per sample. CLICK HERE to schedule a reservation on BluePippin! (Note, you will need to register for an iLab account.) Fragment Analyzer traces of 5 different Blue Pippin size selected Illumina libraries. kansas 2023 football schedule ANNOUNCEMENT. To obtain bacteria for use as prey in our studies of predatory Bdellovibrio (), we swabbed water from an urban stream in Providence, RI (41.835°N, 71.443°W), onto Trypticase soy agar and incubated at 28°C.After three rounds of picking and streaking, we grew pure culture overnight in Trypticase soy broth (TSB) at 28°C and then combined the culture 1:1 with 50% glycerol to ...Gels were run using the Pippin Pulse pulsed-˚eld electrophoresis power supply (PPI 0200). H. Collecting Fractions 2. Remove samples using a standard 100-200µl pippette. Aspirate slowly to minimize breakage of large DNA fragments. Samples will be in a Tris-TAPS buffer at a volume of approximately 80µl. 4. Remove the cassette and dispose of ...