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T-CUP specifications

Information


Unique identifier OMICS_12140
Name T-CUP
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 3.0
Computer skills Advanced
Version 2.0
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Dominik Heider

Publication for T-CUP

T-CUP citations

 (13)
library_books

Altered Functional Connectivity of Fronto Cingulo Striatal Circuits during Error Monitoring in Adolescents with a History of Childhood Abuse

2018
Front Hum Neurosci
PMCID: 5797423
PMID: 29434543
DOI: 10.3389/fnhum.2018.00007

[…] elligence (WASI; Wechsler, ) to assess IQ. Socioeconomic status (SES) was measured by two items from the Family Affluence Scale (FAS; Currie et al., ) on housing tenure and room occupancy. A 10 panel T-cup urine test was used to test for substance abuse and participants who tested positive for any of the 10 substances were excluded from taking part. Other exclusion criteria were left-handedness, I […]

library_books

Reduced functional connectivity of fronto parietal sustained attention networks in severe childhood abuse

2017
PLoS One
PMCID: 5708742
PMID: 29190830
DOI: 10.1371/journal.pone.0188744

[…] onal and sexual abuse and emotional and physical neglect. Socioeconomic status (SES) was measured by two items from the Family Affluence Scale (FAS) [] on housing tenure and room occupancy.A 10 panel T-cup urine test (http://www.testfield.co.uk) was used to test for substance abuse. Participants who tested positive for any of the 10 substances were excluded resulting in the exclusion of 4 particip […]

library_books

Is transcription in sperm stationary or dynamic?

2017
PMCID: 5649092
PMID: 28845020
DOI: 10.1262/jrd.2016-093

[…] spermatogenesis and spermiogenesis using in situ hybridization showed that the transcript number for hale-bopp (hale), schumacher-levy (schuy), davis-cup (d-cup), presidents-cup (p-cup), tetleys-cup (t-cup), flyer-cup (f-cup), sungrazer (sunz), and other genes in elongated spermatids was significantly higher than that of in round spermatids. In addition, the transcript number for these genes durin […]

library_books

Comparison of a New Intranasal Naloxone Formulation to Intramuscular Naloxone: Results from Hypothesis‐generating Small Clinical Studies

2017
PMCID: 5593165
PMID: 28504483
DOI: 10.1111/cts.12473

[…] zation before undergoing screening, which consisted of a medical history, physical examination, liver function tests, complete blood count, and urinalysis that included a 14‐panel drug test (14‐panel T‐cup; Confirm Biosciences, San Diego, CA) to ensure that potential subjects were not taking any opioids. All women underwent a serum pregnancy test. Subjects were eligible to participate based on scr […]

library_books

Partial HIV C2V3 envelope sequence analysis reveals association of coreceptor tropism, envelope glycosylation and viral genotypic variability among Kenyan patients on HAART

2017
Virol J
PMCID: 5310022
PMID: 28196510
DOI: 10.1186/s12985-017-0703-y

[…] vely inexpensive genotyping sequence analysis that however, suffer from reduced sensitivity []. To improve robustness of genotypic tropism assignments, a number of tools have been developed including T-Cup 2.0, WebPSSMx4r5, WebPSSMsinsi and Geno2Pheno, as well as rule-based methods like Esbjörnsson rule and Raymond’s rule with the objective of expanding the scope of sensitivity to include more non […]

library_books

Neurofunctional Abnormalities during Sustained Attention in Severe Childhood Abuse

2016
PLoS One
PMCID: 5104469
PMID: 27832090
DOI: 10.1371/journal.pone.0165547

[…] g abuse, learning disability, neurological abnormalities, epilepsy, IQ < 70 and MRI contraindications. Urine screening for recent drug use was conducted with 10-panel urine drug test integrated cups (T-Cup; http://www.testfield.co.uk). All participants or their guardians if the participant was under the age of 18, provided written informed consent to participate in the study. Young people below th […]

Citations

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T-CUP institution(s)
Research Group Bioinformatics, Center of Medical Biotechnology, University of Duisburg-Essen, Essen, Germany
T-CUP funding source(s)
This work was supported by Deutsche Forschungsgemeinschaft, project TRR60/A6.

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