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Protocols

P-Mod specifications

Information


Unique identifier OMICS_06917
Name P-Mod
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Windows
Programming languages C++
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Publication for P-Mod

P-Mod citations

 (43)
library_books

18FDG PET/CT and molecular markers to predict response to neoadjuvant chemotherapy and outcome in HER2 negative advanced luminal breast cancers patients

2018
Oncotarget
PMCID: 5893244
PMID: 29662649
DOI: 10.18632/oncotarget.24674

[…] y, we classified the mutations into two groups using the International Agency for Research on Cancer (IARC) p53 database, according to their impact on the protein: presence of a modified p53 protein (p-MOD) and absence of a p53 protein (p-NO) []. […]

library_books

Quantifying the impact of simple DNA parameters on the cyclization J factor for single basepair addition families

2018
Sci Rep
PMCID: 5861124
PMID: 29559729
DOI: 10.1038/s41598-018-22502-7

[…] ata (Ni, yi), where yi is the value of log10J estimated by Monte Carlo for a molecule with Ni basepairs, we perform a least-squares fit to a function of the form28y=a+b(N−φ)+c[f(N,φ,p)]2,where29f(N,φ,p)=mod(N−φ+p2,p)−p2.We use the modulo operation “mod” to generate periodic behavior. By definition, mod (a, p) gives the remainder when the number a is divided by p. Thus, in the formula above, whenev […]

library_books

Fast and efficient short read mapping based on a succinct hash index

2018
BMC Bioinformatics
PMCID: 5845352
PMID: 29523083
DOI: 10.1186/s12859-018-2094-5

[…] of the set of positions P in the given reference genome sequence into lstep mutually disjoint sets Pi, 0≤ip mod lstep=i. Thus, P=⋃i=0lstep−1Pi. […]

library_books

Compact FPGA hardware architecture for public key encryption in embedded devices

2018
PLoS One
PMCID: 5779673
PMID: 29360824
DOI: 10.1371/journal.pone.0190939

[…] ed as A′ × B′ × R−1 mod p.Algorithm 2 Montgomery multiplication algorithm (MMA)Require: Integers A′, B′, R = 2N, and p a N-bit prime number.Ensure: A′ × B′ × R−1 mod p1: t ← A′ × B′2: q ← (t mod R) × p′ mod R3: u ← (t + qp)/R4: if u ≥ p then5:  u ← u − p6: end if7: return u;The transformation of A to A′ and viceversa can be done using the MMA algorithm, since A′ = MMA(A, R2), and A = MMA(A′, 1).Th […]

library_books

Investigating population continuity with ancient DNA under a spatially explicit simulation framework

2017
BMC Genet
PMCID: 5731203
PMID: 29246100
DOI: 10.1186/s12863-017-0575-6

[…] s slightly more affected than t0¯ anc, and that t1¯ also diminishes but less than t0¯ (Fig. ). Increasing the population structure thus results in smaller genetic diversity within population samples (π mod , π anc, H mod and H anc in Table ) and in more genetic differentiation between serial population samples, as measured by the Fst, which is proportional to t¯1−t¯0t¯1 []. The particular cases of […]

library_books

Scheduling multi task jobs with extra utility in data centers

2017
PMCID: 5701962
PMID: 29213279
DOI: 10.1186/s13638-017-0986-0

[…] sume 〈t,j〉 represent in slot t, machine M 1 to M j are used. Therefore, the ending time after scheduling p tasks from time t and after machine M j continuously is t+j+p+1m, and at the ending time, (j+p) mod m machines are used. In this paper, 〈t+1,0〉 equals to 〈t,m〉 representing in slot t, all the m machines are used.Define 〈t,j〉<〈t ′,j ′〉 if t


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P-Mod institution(s)
Department of Pharmacology and Toxicology, College of Pharmacy, The University of Arizona, Tucson, AZ, USA

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