Searching journal content for articles similar to Liu and Sommer 4 (2): 97.

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  1. Method: Simulation of nanopore sequencing signal data with tunable parameters
    • Hasindu Gamaarachchi,
    • James M. Ferguson,
    • Hiruna Samarakoon,
    • Kisaru Liyanage,
    • and Ira W. Deveson
    Genome Res. May 2024 34: 778-783; Published in Advance May 1, 2024, doi:10.1101/gr.278730.123
    ...above (Supplemental Table S1). Anticipating that these processes may be affected by noise/warping in the amplitude and time domains, we next used Squigulator to model the impact of each noise parameter. To do so, we generated alternative simulated data sets in which the degree of noise in one domain...
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  2. Research: Conserved microRNA targeting reveals preexisting gene dosage sensitivities that shaped amniote sex chromosome evolution
    • Sahin Naqvi,
    • Daniel W. Bellott,
    • Kathy S. Lin,
    • and David C. Page
    Genome Res. April 2018 28: 474-483; Published in Advance February 15, 2018, doi:10.1101/gr.230433.117
    ...at predicted dosage-sensitive genes (Zimmer et al. 2016). By showing that such dosage sensitivities existed on the ancestral autosomes and consist of sensitivity to both increases and decreases, our findings highlight an additional aspect of dosage compensation that affects both birds and mammals.In addition...
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  3. ARTICLE: Multiple fluorescence-based PCR-SSCP analysis with postlabeling.
    • H Iwahana,
    • K Adzuma,
    • Y Takahashi,
    • R Katashima,
    • K Yoshimoto,
    • and M Itakura
    Genome Res. April 1995 4: 275-282
    .... 51 : 1386 – 1395 . 8. Sarkar, G., Yoon, H.-S. and Sommer. S.S. 1992 . Screening for mutations by RNA single-strand conformation polymorphism (rSSCP): Comparison with DNA-SSCP. Nucleic Acids Res. 20 : 871 – 878 . 9. Sarkar, G., Yoon, H.-S. and Sommer. S.S. 1992 . Dideoxy fingerprinting (ddF): A rapid...
  4. LETTER: Large-Scale Clustering of cDNA-Fingerprinting Data
    • Ralf Herwig,
    • Albert J. Poustka,
    • Christine Müller,
    • Christof Bull,
    • Hans Lehrach,
    • and John O'Brien
    Genome Res. November 1, 1999 9: 1093-1105; doi:10.1101/gr.9.11.1093
    ...is characteristic for the individual clone sequence, although there is a certain loss in information by representing sequences by fingerprints. An advantage of the fingerprinting procedure, however, is that it takes into account the whole clone sequence and is therefore more sensitive in gene discrimination than...
  5. Letter: Darwinian and demographic forces affecting human protein coding genes
    • Rasmus Nielsen,
    • Melissa J. Hubisz,
    • Ines Hellmann,
    • Dara Torgerson,
    • Aida M. Andrés,
    • Anders Albrechtsen,
    • Ryan Gutenkunst,
    • Mark D. Adams,
    • Michele Cargill,
    • Adam Boyko,
    • Amit Indap,
    • Carlos D. Bustamante,
    • and Andrew G. Clark
    Genome Res. May 2009 19: 838-849; Published in Advance March 11, 2009, doi:10.1101/gr.088336.108
    ...Darwinian and demographic forces affecting human protein coding genes Rasmus Nielsen 1 , 2 , 9 , Melissa J. Hubisz 3 , 4 , Ines Hellmann 1 , 2 , Dara Torgerson 3 , Aida M. Andrés 5 , Anders Albrechtsen 1 , 2 , Ryan...
  6. LETTER: Genome Mapping by Fluorescent Fingerprinting
    • Simon G. Gregory,
    • Gareth R. Howell,
    • and David R. Bentley
    Genome Res. December 1, 1997 7: 1162-1168; doi:10.1101/gr.7.12.1162
    ...-ready maps of overlapping genomic clones is central to large-scale genome sequencing. We have implemented a method for fluorescent fingerprinting of bacterial clones to assemble contig maps. The method utilizes three spectrally distinct fluorescently tagged dideoxy ATPs to specifically label the Hin d...
  7. METHODS: Software for Automated Analysis of DNA Fingerprinting Gels
    • Daniel R. Fuhrmann,
    • Martin I. Krzywinski,
    • Readman Chiu,
    • Parvaneh Saeedi,
    • Jacqueline E. Schein,
    • Ian E. Bosdet,
    • Asif Chinwalla,
    • LaDeana W. Hillier,
    • Robert H. Waterston,
    • John D. McPherson,
    • Steven J.M. Jones,
    • and Marco A. Marra
    Genome Res. May 1, 2003 13: 940-953; doi:10.1101/gr.904303
    ...restriction fragment amplitude as a function of mobility. In validation experiments conducted on fingerprinted and sequenced Bacterial Artificial Chromosome (BAC) clones, sensitivity and specificity of restriction fragment identification exceeded 96% on restriction fragments ranging in size from 600 base...
  8. REVIEW: DNA fingerprinting by arbitrarily primed PCR.
    • M McClelland and
    • J Welsh
    Genome Res. August 1994 4: S59-S65
    ...fingerprints resolved on SSCP gels. Nucleic Acids Res. 22 : 1770 – 1771 . 23. Hayashi, K. 1991 . PCR-SSCP: A simple and sensitive method for detection of mutations in the genomic DNA. PCR Methods Applic. 1 : 34 – 38 . 24. Meunier, J.R. and Grimont. P.A.D. 1993 . Factors affecting reproducibility of amplified...
  9. ARTICLES: F-SSCP: fluorescence-based polymerase chain reaction-single-strand conformation polymorphism (PCR-SSCP) analysis.
    • R Makino,
    • H Yazyu,
    • Y Kishimoto,
    • T Sekiya,
    • and K Hayashi
    Genome Res. August 1992 2: 10-13; doi:10.1101/gr.2.1.10
    .... The application of F-SSCP for detection of mutations and loss of heterozygosities of p53 in tumor tissues is reported. Footnotes Copyright © Cold Spring Harbor Laboratory Press References 1.. Hayashi, K. Hayashi, K. 1991 . PCR-SSCP: A simple and sensitive method for detection of mutations in genomic DNA. PCR...
  10. ARTICLE: Evaluation of running conditions for SSCP analysis: application of SSCP for detection of point mutations in the LDL receptor gene.
    • T P Leren,
    • K Solberg,
    • O K Rødningen,
    • L Ose,
    • S Tonstad,
    • and K Berg
    Genome Res. December 1993 3: 159-162
    ...conditions affect the sensitivity of the assay. These conditions were 15 W, 40 W, and 50 W in the absence of glycerol, and 50 W in the presence of 10% glycerol. SSCP analyses of the 18 PCR fragments for the 20 subjects revealed a total of 46 genotypes at 15 W, 45 at 50 W, 42 at 40 W, and 41 at 50 W with 10...
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