Searching journal content for articles similar to Costa et al. 3 (6): 338.

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  1. ARTICLE: Protocols for cloning and analysis of blunt-ended PCR-generated DNA fragments.
    • G L Costa and
    • M P Weiner
    Genome Res. April 1994 3: S95-S106
    ...of blunt-ended PCR-generated DNA fragments. Protocols for cloning and analysis of blunt-ended PCR-generated DNA fragments. G L Costa and M P Weiner Stratagene Cloning Systems, La Jolla, California 92037. Footnotes Copyright © Cold Spring Harbor Laboratory Press References 1.. Costa, G.L., A. Grafsky, and M...
  2. Method: SelexGLM differentiates androgen and glucocorticoid receptor DNA-binding preference over an extended binding site
    • Liyang Zhang,
    • Gabriella D. Martini,
    • H. Tomas Rube,
    • Judith F. Kribelbauer,
    • Chaitanya Rastogi,
    • Vincent D. FitzPatrick,
    • Jon C. Houtman,
    • Harmen J. Bussemaker,
    • and Miles A. Pufall
    Genome Res. January 2018 28: 111-121; Published in Advance December 1, 2017, doi:10.1101/gr.222844.117
    ...to shift enough DNA using a limiting amount of protein (<1:5) to allow PCR generation of pools for subsequent rounds without generating high-molecular-weight artifacts. We therefore incubated the library with a high protein:DNA ratio (0.63 µM:1 µM) to select all potential binding sequences in early rounds...
  3. ARTICLE: Rapid construction of deleted DNA fragments for use as internal standards in competitive PCR.
    • C F Jin,
    • M Mata,
    • and D J Fink
    Genome Res. February 1994 3: 252-255
    ...nerve. MATERIALS AND METHODS Generation of cPCR Fragments All oligomers were synthesized on an Ap- plied Biosystems Automated DNA Syn- thesizer by the University of Michigan DNA Synthesis Core Facility. Clone pCrC3 (the gift from Dr. Georger Yanco- poulos, Regeneron Pharmaceuticals, Inc., Tarrytown, NY...
  4. METHODS: Linker-Mediated Recombinational Subcloning of Large DNA Fragments Using Yeast
    • Christopher K. Raymond,
    • Elizabeth H. Sims,
    • and Maynard V. Olson
    Genome Res. January 1, 2002 12: 190-197; doi:10.1101/gr.205201
    ...fragment subcloning. A plasmid-assembly assay, consisting of a chloramphenicol-resistant (CmR), PCR-generated donor fragment and an ampicillin-resistant (AmpR), URA3 -marked (Ura+) acceptor vector was used to quantify cloning efficiency. Linkers (Fig. 1 A) were made by simple mixing of complementary 80...
  5. LETTER: The molecular structure of the DNA fragments eliminated during chromatin diminution in Cyclops kolensis
    • Sergei Degtyarev,
    • Tatiana Boykova,
    • Andrei Grishanin,
    • Stepan Belyakin,
    • Nikolai Rubtsov,
    • Tatiana Karamysheva,
    • Grigory Makarevich,
    • Alexei Akifyev,
    • and Igor Zhimulev
    Genome Res. November 2004 14: 2287-2294; doi:10.1101/gr.2794604
    ...somatic cells. We cloned a fraction of the eDNA and sequenced 90 clones that total 32 kb. The following organizational patterns were demonstrated for the eDNA sequences. All do not contain open reading frames. Each fragment contains 1–3 families of short repeats (10–30 bp) highly homologous within...
  6. ARTICLES: Ligation-mediated PCR of restriction fragments from large DNA molecules.
    • D R Smith
    Genome Res. August 1992 2: 21-27; doi:10.1101/gr.2.1.21
    ...lambda DNA as a test system, unique PCR products could be generated consistently. Conditions of temperature, ionic strength, and substrate concentration in the adapter-tag ligations--which affect sequence specificity--were found to have a major influence on the purity of PCR-generated fragments...
  7. ARTICLE: Generation of competitor DNA fragments for quantitative PCR.
    • K Uberla,
    • C Platzer,
    • T Diamantstein,
    • and T Blankenstein
    Genome Res. November 1991 1: 136-139; doi:10.1101/gr.1.2.136
    ...-9051 Generation of competitor DNA fragments for quantitative PCR. Generation of competitor DNA fragments for quantitative PCR. K Uberla , C Platzer , T Diamantstein and T Blankenstein Institute of Immunology, Universitätsklinikum Steglitz, Freie Universitat Berlin, FRG. Abstract A convenient and generally...
  8. Research: Estrogen-induced chromatin looping changes identify a subset of functional regulatory elements
    • Hosiana Abewe,
    • Alexandra Richey,
    • Jeffery M. Vahrenkamp,
    • Matthew Ginley-Hidinger,
    • Craig M. Rush,
    • Noel Kitchen,
    • Xiaoyang Zhang,
    • and Jason Gertz
    Genome Res. March 2025 35: 393-403; Published in Advance March 3, 2025, doi:10.1101/gr.279699.124
    ...magnetic beads (Invitrogen). Tn5 (Illumina) was used to fragment captured biotin-labeled DNA and prepare molecules for PCR generation of sequencing libraries.HiChIP libraries were sequenced on an Illumina NovaSeq 6000 as paired-end 50 bp reads to an average depth of 300–400 million read-pairs per sample...
  9. METHODS: Genome-Scale Cloning and Expression of Individual Open Reading Frames Using Topoisomerase I-Mediated Ligation
    • John A. Heyman,
    • Jeremiah Cornthwaite,
    • Luis Foncerrada,
    • Jeremiah R. Gilmore,
    • Erin Gontang,
    • Kristen J. Hartman,
    • Cathy L. Hernandez,
    • Rhiannon Hood,
    • Heather M. Hull,
    • Wai-Yee Lee,
    • Robert Marcil,
    • Ed J. Marsh,
    • Kevin M. Mudd,
    • Mario J. Patino,
    • Thomas J. Purcell,
    • Jon J. Rowland,
    • Michelle L. Sindici,
    • and James P. Hoeffler
    Genome Res. April 1, 1999 9: 383-392; doi:10.1101/gr.9.4.383
    ...primer sets (see Methods). A single pass with these 288 primer pairs resulted in RT-PCR generation of 179 products of the predicted size. Topoisomerase I-mediated Cloning, Diagnostic PCR, and Plasmid Preparation The 179 RT-PCR products were cloned into the pcDNA3.1/GS vector using the protocol described...
  10. ARTICLE: Use of a simplified single-site PCR to facilitate cloning of genomic DNA sequences flanking a transgene integration site.
    • G R MacGregor and
    • P A Overbeek
    Genome Res. November 1991 1: 129-135; doi:10.1101/gr.1.2.129
    ...cloning: A laboratory manual , 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York. 21. Heery, D.M., , Gannon, F. , Powell. R. Heery, D.M., Gannon, F. and Powell. R. 1990 . A simple method for subcloning DNA fragments from gel slices. Trends. Genet. 6 : 173 . Genome Res Genome...
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