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Protocols specifications


Unique identifier OMICS_16776
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes




  • person_outline Judice Koh <>
  • person_outline Charles Boone <>

Publications for citations


Investigating the role of Rts1 in DNA replication initiation

PMCID: 5897792
PMID: 29721551
DOI: 10.21956/wellcomeopenres.15094.r31562

[…] with a ts-orc2 mutant, which was previously reported in a large-scale genomic screen for genetic interactions (constanzo et al., 2010). firstly, the score actually reported in the cellmap website ( for this positive interaction is very low (0.07), below the default confidence threshold set for this study (0.08). secondly, such large-scale genomic screens are often populated […]


Bridge Induced Translocation between NUP145 and TOP2 Yeast Genes Models the Genetic Fusion between the Human Orthologs Associated With Acute Myeloid Leukemia

PMCID: 5626878
PMID: 29034209
DOI: 10.3389/fonc.2017.00231

[…] in budding yeast and nup145 has been reported as haploinsufficient in rich medium (). synthetic lethality (biogrid, biological general repository for interaction datasets) or genetic interactions (drygin, data repository of yeast genetic interactions) are not known between these two genes. thus, to verify the phenotype of the nup-top translocants in our genetic background, we performed […]


Study of the cytotoxic/toxic potential of the novel anticancer selenodiazoloquinolone on fibroblast cells and 3D skin model

PMCID: 5464683
PMID: 28652854
DOI: 10.1515/intox-2016-0014

[…] et al., ; huang et al., ; oriel, 1998). quinolones were shown to possess also antitumor and immunomodulatory activities (tawfik et al., ; xia et al., ; riesbeck, ; dalhoff & shalit, ; dalhoff, ; drygin et al., ; you et al., ; chou et al., ; azema et al., ; george & pilli, 2013)., quinolone derivatives are known as gyrase and topoisomerase i, ii, and iv inhibitors, tubulin assembly […]


Proteogenomics Reveals Enriched Ribosome Assembly and Protein Translation in Pectoralis major of High Feed Efficiency Pedigree Broiler Males

PMCID: 5432614
PMID: 28559853
DOI: 10.3389/fphys.2017.00306

[…] synthesis strongly correlates with cellular rrna and trna content, cells need to sustain high rates of rna polymerase i and iii transcription to synthesize as many as 2 million ribosomes per cell (drygin et al., ). ribosomes and trna enrichment was observed in the high fe phenotype (table ). although, no mitochondrial ribosomal proteins were detected with shotgun proteomics (table ), many […]


Genome Mutational and Transcriptional Hotspots Are Traps for Duplicated Genes and Sources of Adaptations

PMCID: 5433386
PMID: 28459980
DOI: 10.1093/gbe/evx085

[…] are available from the sequence read archive with the following accession number (srp074821)., we used the latest update of the genetic functional chart of s. cerevisiae (; , online from∼costanzo/; last accessed may 4, 2017). the genetic map is based on the synthetic genetic array methodology (). in this methodology, synthetic lethal genetic interactions […]


Advanced pancreatic ductal adenocarcinoma Complexities of treatment and emerging therapeutic options

PMCID: 5385394
PMID: 28428707
DOI: 10.3748/wjg.v23.i13.2276

[…] data for efficacy of cx-5461 in solid tumours, with pre-clinical data suggesting a role in prostate cancer[]. similarly, studies in pdac cell lines have also shown promise[], as documented by drygin et al[] using mia paca-2 cell lines. this study demonstrated a process of both autophagy and cell senescence in response to pol i inhibition. in xenograft mouse models of human mia paca-2 […]

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The Donnelly Centre, University of Toronto, Toronto, Canada; Department of Computer Science and Engineering, University of Minnesota-Twin Cities, Minneapolis, MN, USA; Simons Center for Data Analysis, Simons Foundation, New York, NY, USA; Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ, USA; Department of Molecular Genetics, University of Toronto, Toronto, Canada; Department of Developmental, Molecular and Chemical Biology, Tufts University School of Medicine, Boston, MA, USA; European Molecular Biology Laboratory (EMBL), Genome Biology Unit, Heidelberg, Germany; Division of Signaling and Functional Genomics, German Cancer Research Center (DKFZ) and Heidelberg University, Heidelberg, Germany; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, Canada; Program in Biomedical Informatics and Computational Biology, University of Minnesota–Twin Cities, Minneapolis, MN, USA; Chemical Genomics Research Group, RIKEN Center for Sustainable Resource Sciences (CSRS), Saitama, Japan; Princess Margaret Cancer Centre, University Health Network and Department of Medical Biophysics, University of Toronto, Toronto, Canada; Department of Integrated Biosciences, Graduate School of Frontier Sciences, University of Tokyo, Kashiwa, Chiba, Japan; Computer Science Department, University College London, London, UK; Department of Computing, Imperial College London, UK; School of Computing (RAF), Union University, Belgrade, Serbia; Department of Biochemistry, University of Toronto, Toronto, Canada; School of Electronic Information and Communications, Huazhong University of Science and Technology, Wuhan, China; Department of Genetics, School of Medicine and Stanford Genome Technology Center Stanford University, Palo Alto, CA, USA funding source(s)
Supported by the National Institutes of Health (R01HG005853), Canadian Institutes of Health Research (FDN-143264 and FDN-143265), RIKEN Strategic Programs for R&D, JSPS Kakenhi (15H04483), National Institutes of Health (R01HG005084 and R01GM104975), and the National Science Foundation (DBI\0953881), by the Canadian Institutes of Health Research), National Science Foundation (MCB\1244043), European Research Council (ERC) Advanced Investigator Grant (AdG-294542), ERC Advanced Grant (European Commission), Ministry of Education, Culture, Sports, Sciences and Technology, MEXT (15H04402), Canadian Institutes of Health Research (FDN143301), Genome Canada Genome Innovation network (through the Ontario Genomics Institute), the Ontario Genomics Institute, Canadian Cystic Fibrosis Foundation, Canadian Cancer Society, Pancreatic Cancer Canada, University Health Network, National Science Foundation, Cyber-Enabled Discover and Innovation (CDI) (OIA-1028394), ERC Starting Independent Researcher Grant (278212), ARRS project (J1-5424), Serbian Ministry of Education and Science Project 11144006, National Natural Science Foundation of China, RIKEN Foreign Postdoctoral Researcher Program, National Science Foundation Graduate Research Fellowship (NSF 00039202), U. of Minnesota Doctoral Dissertation Fellowship, the Canadian Institute for Advanced Research (CIFAR). reviews

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