OligoMix® Oligonucleotide Mixture

OligoMix^® Application Publications

1. Targeted Sequencing

   Myllykangas S, Buenrostro JD, Natsoulis G, Bell JM, Ji HP. (2011) Efficient targeted resequencing of human germline and cancer genomes by oligonucleotide-selective sequencing. Nat Biotechnol 29, 1024-27. [abstract]

   Teer JK, Bonnycastle LL, Chines PS, Hansen NF, Aoyama N, Swift AJ, Abaan HO, Albert TJ; NISC Comparative Sequencing Program, Margulies EH, Green ED, Collins FS, Mullikin JC, Biesecker LG. (2010) Systematic comparison of three genomic enrichment methods for massively parallel DNA sequencing. Genome Res 20(10), 1420-31. [abstract]

2. Methylation Analysis

   Diep D, Plongthongkum N, Gore A, Fung H, Shoemaker R, Zhang K. (2012) Library-free methylation sequencing with bisulfite padlock probes. Nature Methods 9(3), 270-2. [abstract]

   Nautiyal S, Carlton VE, Lu Y, Ireland JS, Flaucher D, Moorhead M, Gray JW, Spellman P, Mindrinos M, Berg P, Faham M. (2010) High-throughput method for analyzing methylation of CpGs in targeted genomic regions. Proc Natl Acad Sci 107(28), 12587-92. [abstract]

3. Riboswitch Synthesis

   Sun HH, Zhu C, Wu Y, Guo JF. (2009) De novo synthesis and assembly of multiplex riboswitches in vitro. Biotechnol Prog 25(5), 1228-35. [abstract]

4. siRNA Target Library Preparation

   Dahlgren C, Zhang HY, Du Q, Grahn M, Norstedt G, Wahlestedt C, Liang Z. (2008) Analysis of siRNA specificity on targets with double-nucleotide mismatches. Nucleic Acids Res 36(9), e53. [abstract]

5. shRNA Library Preparation

   CE Meacham. (2012) In vivo pool-based shRNA screens to identify modulators of disease progression in hematopoietic malignancies. MIT Thesis [abstract]

6. Protein-Nucleic Acid Interaction Studies

   Tantin D, Gemberling M, Callister C, Fairbrother W. (2008) High-throughput Biochemical Analysis of in-vivo Location Data Reveals Novel Classes of POU5F1(Oct4)/DNA complexes. Genome Res 18(4), 631-39. [abstract]

7. Preparation of Synthetic DNA Constructs

   Baker SC, Bauer SR, Beyer RP, Brenton JD, Bromley B, Burrill J, Causton H, Conley MP, Elespuru R, Fero M, Foy C, Fuscoe J, Gao X, Gerhold DL, Gilles P, Goodsaid F, Guo X, Hackett J, Hockett RD, Ikonomi P, Irizarry RA, Kawasaki ES, Kaysser-Kranich T, Kerr K, Kiser G, Koch WH, Lee KY, Liu C, Liu ZL, Lucas A, Manohar CF, Miyada G, Modrusan Z, Parkes H, Puri RK, Reid L, Ryder TB, Salit M, Samaha RR, Scherf U, Sendera TJ, Setterquist RA, Shi L, Shippy R, Soriano JV, Wagar EA, Warrington JA, Williams M, Wilmer F, Wilson M, Wolber PK, Wu X, Zadro R; External RNA Controls Consortium. (2005) The External RNA Controls Consortium: a progress report. Nat Methods 2(10), 731-34.  [abstract] [sequences]

8. Gene Synthesis

   Eroshenko N, Kosuri S, Marblestone AH, Conway N, Church GM. (2012) Gene Assembly from Chip-Synthesized Oligonucleotides. Current Protocols in Chemical Biology 1–17. [abstract]

   Matzas M, Stähler PF, Kefer N, Siebelt N, Boisguérin V, Leonard JT, Keller A, Stähler CF, Häberle P, Gharizadeh B, Babrzadeh F, Church GM. (2010) High-fidelity gene synthesis by retrieval of sequence-verified DNA identified using high-throughput pyrosequencing. Nat Biotechnol 28(12), 1291-94. [abstract]

   Borovkov AY, Loskutov AV, Robida MD, Day KM, Cano JA, Le Olson T, Patel H, Brown K, Hunter PD, Sykes KF. (2010) High-quality gene assembly directly from unpurified mixtures of microarray-synthesized oligonucleotides. Nucleic Acids Res 38(19), e180. [article]

   Zhou X, Cai S, Hong A, Yu P, Sheng N, Srivannavit O, Yong Q, Muranjan S, Rouillard JM, Xia Y, Zhang X, Xiang Q, Ganesh R, Zhu Q, Makejko A, Gulari E, Gao,X. (2004) Microfluidic picoarray synthesis of oligodeoxynucleotides and simultaneously assembling of multiple DNA sequences. Nucleic Acids Res 32, 5409-5417.  [abstract ]  [article]

   Tian J, Gong H, Sheng N, Zhou X, Gulari E, Gao X, Church, GM. (2004) Accurate multiplex gene synthesis from programmable DNA chips. Nature 432, 1050-1054.  [abstract]

OligoMix^® Review Publications

1. Gulari, E., Gao, X., and Zhou, X. (2003) Light directed massively parallel on-chip synthesis of peptide arrays with t-Boc chemistry. Proteomics 3, 2135–2141.  [ abstract]
2. Gao, X., Gulari, E., and Zhou, X. (2004) In situ synthesis of oligonucleotide microarrays. Biopolymers 73, 579-596.  [ abstract]

OligoMix^® Synthesis Technology Publications

1. Zhou, X., Cai, S., Hong, A., Yu, P., Sheng, N., Srivannavit, O., Yong, Q., Muranjan, S., Rouillard, J. M., Xia, Y., Zhang, X., Xiang, Q., Ganesh, R., Zhu, Q., Makejko, A., Gulari, E., and Gao, X. (2004) Microfluidic picoarray synthesis of oligodeoxynucleotides and simultaneously assembling of multiple DNA sequences. Nucleic Acids Res 32, 5409-5417.  [ abstract]  [ article]
2. Gao, X., Gulari, E., and Zhou, X. (2004) In situ synthesis of oligonucleotide microarrays. Biopolymers 73, 579-596.  [ abstract]
3. Srivannavit, O., Gulari, M., Gulari, E., LeProust, E., Pellois, J. P., Gao, X., Zhou, X. (2004) Design and fabrication of microwell array chips for a solution-based, photogenerated acid-catalyzed parallel oligonucleotide DNA synthesis. Sensors and Actuators A. 116, 150-160.  [article]
4. Gao, X., LeProust, E., Zhang, H., Srivannavit, O., Gulari, E., Yu, P., Nishiguchi, C., Xiang, Q., Zhou, X. (2001) Flexible DNA chip synthesis gated by deprotection using solution photogenerated acids. Nucleic Acids Res 29, 4744-4750.  [ abstract]  [ article]
5. Leproust, E., Zhang, H., Yu, P., Zhou, X., Gao, X. (2001) Characterization of oligodeoxyribonucleotide synthesis on glass plates. Nucleic Acids Res 29, 2171-2180.  [ abstract] [article]
6. LeProust, E., Pellois, J. P, Yu, P., Zhang, H., Srivannavit, O., Gulari, E., Zhou, X., and Gao, X. (2000) Combinatorial screening method for synthesis optimization on a digital light-controlled microarray platform. J Comb Chem 2, 349-354.  [ abstract]
7. Gao, X., Yu, P. Y., LeProust, E., Sonigo, L., Pellois, J. P., and Zhang, H. (1998) Oligonucleotide synthesis using solution photogenerated acids. J Am Chem Soc 120, 12698-12699.