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ARTICLE: Panhandle PCR.
- D H Jones
Genome Res. April 1995 4: S195-S201
...protein coding region. Nucleic Acids Res. 19 : 7155 – 7160 . 22.. Sarkar, G., , Turner, R.T. , Bolander. M.E. Sarkar, G., Turner, R.T. and Bolander. M.E. 1993 . Restriction-site PCR: A direct method of unknown sequence retrieval adjacent to a known locus by using universal primers. PCR Methods Applic. 2...
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GENOME METHODS: Vector–Hexamer PCR Isolation of All Insert Ends from a YAC Contig of the Mouse Igh Locus
- Christopher D. Herring,
- Christophe Chevillard,
- Sean L. Johnston,
- Peter J. Wettstein,
- and Roy Riblet
Genome Res. June 1, 1998 8: 673-681; doi:10.1101/gr.8.6.673
...) Restriction-site PCR: A direct method of unknown sequence retrieval adjacent to a known locus by using universal primers. PCR Methods Appl. 2 : 318 – 322 . ↵ Schupp I.W. , Schlake T. , Kirschbaum T. , Zachau H.G. , Boehm T. ( 1997 ) A yeast artificial chromosome contig spanning the mouse immunoglobulin kappa...
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ARTICLES: Use of vectorette and subvectorette PCR to isolate transgene flanking DNA.
- M J Allen,
- A Collick,
- and A J Jeffreys
Genome Res. October 1994 4: 71-75
...- able by ethidium bromide staining fol- lowing agarose gel electrophoresis. This was too long for full double-stranded PCR sequencing. Restriction mapping of this product revealed a number of blunt- end restriction sites to which a universal blunt-end novel sequence vectorette (Vec3) could be annealed...
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ARTICLES: PCR with end trimming and cassette ligation: a rapid method to clone exon-intron boundaries and a 5'-upstream sequence of genomic DNA based on a cDNA sequence.
- H Iwahana,
- T Tsujisawa,
- R Katashima,
- K Yoshimoto,
- and M Itakura
Genome Res. August 1994 4: 19-25
...to a serotonin receptor protein coding region. Nucleic Acids Res. 19 : 7155 – 7160 . 15.. Sarkar, G., , Turner, R.T. , Bolander. M.E. Sarkar, G., Turner, R.T. and Bolander. M.E. 1993 . Restriction-site PCR: A direct method of unknown sequence retrieval adjacent to a known locus by using universal primers. PCR...
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Method: In silico phylogenomics using complete genomes: a case study on the evolution of hominoids
- Igor Rodrigues Costa,
- Francisco Prosdocimi,
- and W. Bryan Jennings
Genome Res. September 2016 26: 1257-1267; Published in Advance July 19, 2016, doi:10.1101/gr.203950.115
...(program “PhyML,” Guindon et al. 2010), substitution model selection (program “jModelTest”) (Posada 2008), loci chromosomal distribution (program “Circos”) (Krzywinski et al. 2009), and PCR primer design (program “eprimer”) (Rice et al. 2000). A manual explaining how to use the program is available...
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Method: Versatile and robust genome editing with Streptococcus thermophilus CRISPR1-Cas9
- Daniel Agudelo,
- Sophie Carter,
- Minja Velimirovic,
- Alexis Duringer,
- Jean-François Rivest,
- Sébastien Levesque,
- Jeremy Loehr,
- Mathilde Mouchiroud,
- Denis Cyr,
- Paula J. Waters,
- Mathieu Laplante,
- Sylvain Moineau,
- Adeline Goulet,
- and Yannick Doyon
Genome Res. January 2020 30: 107-117; Published in Advance January 3, 2020, doi:10.1101/gr.255414.119
..., Nitschko H, Busch U, Sing A, Ehrhardt A, et al. 2012. Universal real-time PCR for the detection and quantification of adeno-associated virus serotype 2-derived inverted terminal repeat sequences. Hum Gene Ther Methods 23: 18–28. doi:10.1089/hgtb.2011.034 ↵Barrangou R, Horvath P. 2017. A decade of discovery...
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LETTER: A novel mode of enhancer evolution: The Tal1 stem cell enhancer recruited a MIR element to specifically boost its activity
- Aileen M. Smith,
- Maria-Jose Sanchez,
- George A. Follows,
- Sarah Kinston,
- Ian J. Donaldson,
- Anthony R. Green,
- and Berthold Göttgens
Genome Res. September 2008 18: 1422-1432; Published in Advance August 7, 2008, doi:10.1101/gr.077008.108
...status and transcription factor occupancy in the Tal1 3′ flanking region. DNase I/ChIP assays were performed in the 416B cell line with either DNase I (black bars), AcK9 (gray bars), or GATA2 (white bars) and analyzed by real-time PCR using primers across a 4-kb segment of the Tal1 locus from +17 to +20...
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Resource: The genome of the pear (Pyrus bretschneideri Rehd.)
- Jun Wu,
- Zhiwen Wang,
- Zebin Shi,
- Shu Zhang,
- Ray Ming,
- Shilin Zhu,
- M. Awais Khan,
- Shutian Tao,
- Schuyler S. Korban,
- Hao Wang,
- Nancy J. Chen,
- Takeshi Nishio,
- Xun Xu,
- Lin Cong,
- Kaijie Qi,
- Xiaosan Huang,
- Yingtao Wang,
- Xiang Zhao,
- Juyou Wu,
- Cao Deng,
- Caiyun Gou,
- Weili Zhou,
- Hao Yin,
- Gaihua Qin,
- Yuhui Sha,
- Ye Tao,
- Hui Chen,
- Yanan Yang,
- Yue Song,
- Dongliang Zhan,
- Juan Wang,
- Leiting Li,
- Meisong Dai,
- Chao Gu,
- Yuezhi Wang,
- Daihu Shi,
- Xiaowei Wang,
- Huping Zhang,
- Liang Zeng,
- Danman Zheng,
- Chunlei Wang,
- Maoshan Chen,
- Guangbiao Wang,
- Lin Xie,
- Valpuri Sovero,
- Shoufeng Sha,
- Wenjiang Huang,
- Shujun Zhang,
- Mingyue Zhang,
- Jiangmei Sun,
- Linlin Xu,
- Yuan Li,
- Xing Liu,
- Qingsong Li,
- Jiahui Shen,
- Junyi Wang,
- Robert E. Paull,
- Jeffrey L. Bennetzen,
- Jun Wang,
- and Shaoling Zhang
Genome Res. February 2013 23: 396-408; Published in Advance November 13, 2012, doi:10.1101/gr.144311.112
..., Robert E. Paull 7 , Jeffrey L. Bennetzen 6 , Jun Wang 2 , 10 , 12 and Shaoling Zhang 1 , 12 1 Centre of Pear Engineering Technology Research, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing...
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LETTER: Noncoding regulatory sequences of Ciona exhibit strong correspondence between evolutionary constraint and functional importance
- David S. Johnson,
- Brad Davidson,
- Christopher D. Brown,
- William C. Smith,
- and Arend Sidow
Genome Res. December 2004 14: 2448-2456; Published in Advance November 15, 2004, doi:10.1101/gr.2964504
...promoter. All minimally sufficient regulatory region (tn.msrr) plasmids were derived from the Forkhead basal promoter construct (pCES) ( Harafuji et al. 2002 ). Constructs were generated by standard procedures ( Sambrook and Russell 2001 ) using PCR and subcloning. All truncation and deletion constructs...
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RESEARCH: Complete Genomic Sequence and Analysis of the Prion Protein Gene Region from Three Mammalian Species
- Inyoul Y. Lee,
- David Westaway,
- Arian F.A. Smit,
- Kai Wang,
- Jason Seto,
- Lei Chen,
- Chetana Acharya,
- Mike Ankener,
- Dale Baskin,
- Carol Cooper,
- Hong Yao,
- Stanley B. Prusiner,
- and Leroy E. Hood
Genome Res. October 1, 1998 8: 1022-1037; doi:10.1101/gr.8.10.1022
...of the 5′ UTR of the mRNA. The sequence of the new human exon 2 is 82% and 81% identical to exon 2 in the sheep and mouse, respectively. To determine whether mRNA containing this new exon 2 was expressed, Southern blot analysis was performed on RT–PCR products generated by a number of permutations of exon...

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