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References from A computational model for bacteriophage ϕX174 gene expression. Local targets link to admitted publications; unresolved targets remain external evidence.
Genetic map of bacteriophage ϕX174
10.1128/jvi.7.5.549-558.1971 · 1971 · External reference
Nucleotide sequence of bacteriophage ϕX174 DNA
10.1038/265687a0 · 1977 · External reference
mRNA stabilizing signals encoded in the genome of the bacteriophage ϕx174
10.1007/bf00334377 · 1989 · External reference
Identification of the in vivo promoters of bacteriophages S13 and ϕX174 and measurement of their relative activities
1998 · External reference
A fully decompressed synthetic bacteriophage ϕX174 genome assembled and archived in yeast
10.1016/j.virol.2012.09.020 · 2012 · External reference
Genome modularization reveals overlapped gene topology is necessary for efficient viral reproduction
10.1021/acssynbio.0c00323 · 2020 · External reference
ΦX174 attenuation by whole-genome codon deoptimization
10.1093/gbe/evaa214 · 2021 · External reference
Transcription of bacteriophage ϕX174 in vitro: Selective initiation with oligonucleotides
10.1016/s0022-2836(76)80115-5 · 1976 · External reference
Transcription of bacteriophage ϕX174 in vitro: analysis with restriction enzymes
10.1016/s0022-2836(76)80116-7 · 1976 · External reference
Mapping of in vivo messenger RNAs for bacteriophage phiX-174
10.1073/pnas.73.10.3519 · 1976 · External reference
Mapping of transcription terminators of bacteriophages phi X174 and G4 by sequence analysis
10.1128/jvi.53.1.340-342.1985 · 1985 · External reference
A high-resolution map of bacteriophage ΦX174 transcription
10.1016/j.virol.2020.05.008 · 2020 · External reference
Differential transcription of bacteriophage ϕX174 genes at 37°C and 42°C
10.1371/journal.pone.0035909 · 2012 · External reference
Pinetree: A step-wise gene expression simulator with codon-specific translation rates
10.1093/bioinformatics/btz203 · 2019 · External reference
Transcript degradation and codon usage regulate gene expression in a lytic phage
10.1093/ve/vez055 · 2019 · External reference
Unresolved reference
2006 · External reference
Bacteriophage phi X174-specific mRNA synthesis in cells deficient in termination factor rho activity
10.1128/jvi.38.1.198-207.1981 · 1981 · External reference
Mapping the initiation sites of in vitro transcripts of bacteriophage S13
10.1016/0167-4781(94)90185-6 · 1994 · External reference
A survey of best practices for RNA-seq data analysis
2016 · External reference
IVT-seq reveals extreme bias in RNA sequencing
10.1186/gb-2014-15-6-r86 · 2014 · External reference
10.1016/j.bioflm.2021.100043 · 2021 · Admitted local publication
Properties and abundance of overlapping genes in viruses
10.1093/ve/veaa009 · 2020 · External reference
Refactoring bacteriophage T7
2005 · External reference
Evolutionary stability of a refactored phage genome
10.1021/sb300040v · 2012 · External reference
Kinetic analysis of template-instructed and de novo RNA synthesis by Q beta replicase
10.1016/0022-2836(81)90183-2 · 1981 · External reference
Kinetics of RNA replication
10.1021/bi00279a036 · 1983 · External reference
The hypercycle. Coupling of RNA and protein biosynthesis in the infection cycle of an RNA bacteriophage
10.1021/bi00110a001 · 1991 · External reference
Energy-efficient growth of phage Qβ in Escherichia coli
10.1002/bit.20226 · 2004 · External reference
Knowledge-based simulation of genetic regulation in bacteriophage lambda
10.1093/nar/12.1part1.1 · 1984 · External reference
Switches in Bacteriophage Lambda Development
10.1146/annurev.genet.39.073003.113656 · 2005 · External reference
Intracellular kinetics of a growing virus: A genetically structured simulation for bacteriophage T7
10.1002/(sici)1097-0290(19970720)55:2<375::aid-bit15>3.0.co;2-g · 1997 · External reference
Computation, prediction, and experimental tests of fitness for bacteriophage T7 mutants with permuted genomes
10.1073/pnas.090101397 · 2000 · External reference
TABASCO: A single molecule, base-pair resolved gene expression simulator
10.1186/1471-2105-8-480 · 2007 · External reference
Determining Host Metabolic Limitations on Viral Replication via Integrated Modeling and Experimental Perturbation
10.1371/journal.pcbi.1002746 · 2012 · External reference
Kinetic modeling of virus growth in cells
2018 · External reference
Exact stochastic simulation of coupled chemical reactions
10.1021/j100540a008 · 1977 · External reference
