SynGen specifications


Unique identifier OMICS_19481
Name SynGen
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Advanced
Stability Stable
Maintained Yes


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  • person_outline Yang Xie <>
  • person_outline Andrea Califano <>
  • person_outline Gustavo Stolovitzky <>

Publication for SynGen

SynGen in publications

PMCID: 5919655
PMID: 29698518
DOI: 10.1371/journal.pone.0196010

[…] 100 μl of the 2% ninhydrin solution was added. the reaction mixture was vortexed and heated to 80°c for 15 min followed by cooling on ice for 2 min. the absorbance at 570 nm was recorded on a biotek syngen microplate reader., control reactions were carried out using glutamic acid as a primary amine model and sarcosine as a model secondary amine. uv/vis absorbances between 300 and 800 nm […]

PMCID: 5887019
PMID: 29623440
DOI: 10.1186/s13321-018-0273-z

[…] smith explicitly gives an algorithm based on dynamic programming for finding this in his setting., in terms of programs for synthesis planning, hendrickson’s line of work has led to a program syngen (synthetic generator) []. this program retrosynthetically expands all possible ways to synthesize the carbon skeleton of the target molecule, offering different ways to assist selection […]

PMCID: 5862891
PMID: 29563559
DOI: 10.1038/s41598-018-23311-8

[…] detailed descriptions of dna extraction, pcr amplification of 18 s rdna, and phylogenetic clustering for sea alga species identification are presented in supplemental materials., p. bursaria syngen i (bwk-4, mating type iv) collected from lake biwa (shiga, japan) and p. bursaria syngen i (as-2, mating type iv) collected from the ashida-kawa river (hiroshima prefecture, japan) were used […]

PMCID: 5820362
PMID: 29503658
DOI: 10.3389/fpls.2018.00185

[…] of the ntzip1-like cdna was deposited to the ncbi database (2015) under the accession number xm_016652513., total rna was extracted from samples stored in -80°c with the use of an rneasy plant kit (syngen, #sy341010) according to the manufacturer’s recommendations, followed by dnase i digestion (qiagen, #79254). the samples of rna were quantified at 260 nm using a nanodrop spectrophotometer nd […]

PMCID: 5807041
PMID: 29286165
DOI: 10.3892/ijo.2017.4234

[…] in order to inhibit the il-6-dependent proliferation of cells in the presence of human il-6 rα (research and diagnostic systems, inc., minneapolis, mn, usa)., total rna was extracted using the syngen blood/cell rna mini kit from co-cultured cell lines after day 5 as per the manufacturer's instructions (syngen, wroclaw, poland). total rna was purified with the rnase-free dnase set (qiagen, […]

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SynGen institution(s)
Department of Systems Biology, Columbia University, New York, NY, USA; Center for Computational Biology and Bioinformatics, Columbia University, New York, NY, USA; [etc.]
SynGen funding source(s)
Supported in part by the Multiscale Analysis of Genomic and Cellular Networks (MAGNet) grant (5U54CA121852-08) and Library of Integrated Network-based Cellular Signatures Program (LINCS) grants (1U01CA164184-02 and 3U01HL111566-02); National Institutes of Health (NIH) grant (5R01CA152301) and Cancer Prevention and Research Institute of Texas (CPRIT) grant (RP101251) and NIH, NCI grant (U54 CA112970).

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