GI-Cluster statistics

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Associated diseases

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GI-Cluster specifications

Information


Unique identifier OMICS_29854
Name GI-Cluster
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data A genome sequence file.
Input format FASTA
Programming languages Python, R, Shell (Bash)
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainers


  • person_outline Hon Wai Leong <>
  • person_outline Bingxin Lu <>

Publication for GI-Cluster

GI-Cluster in publications

 (9)
PMCID: 5680301
PMID: 29123141
DOI: 10.1038/s41598-017-14770-6

[…] of the digestive system belonged to two clusters. the adg cell line cluster consisted mostly of tumors from the esophagus, upper aerodigestive tract, salivary and also urinary glands, whereas the gi cluster grouped together tumors derived from large intestine, stomach and pancreas cancers. about 70% of the cell lines of the glsr cluster were derived from tumors of the central nervous system, […]

PMCID: 5112438
PMID: 27909431
DOI: 10.3389/fmicb.2016.01826

[…] from the pyrosequencing analysis. most of the cyanobacteria gi sequences were assigned to the genus anabaena. interestingly, the mcya genetic marker shared the same direction with the cyanobacteria gi cluster at the genus level in the cca plot (data not shown). cyanobacteria iv and xi were rarely found in water samples from east fork lake, which were assigned to leptolyngbya sp. and m. […]

PMCID: 5083726
PMID: 27624994
DOI: 10.1002/cam4.860

[…] prevalence of 1%: lung, gastrointestinal, breast, and genitourinary tumors. the cluster npm was present in 57% of lung and breast cancers, and in 37% and 31% of gi and gu cancers, respectively. the gi cluster was rarely present in lung cancer (4%) and less frequent in breast and gu cancers (13%) than reported for all cancers. the highest npm frequency was observed in gi cancers (27%). […]

PMCID: 4987047
PMID: 27529556
DOI: 10.1371/journal.pone.0160672

[…] 1999) with supported values in all three methods. giv was further depicted as five sequential clusters (c1–c5) [, ]. in the giv backbone, series nodes between c2 and c3 had low support values. the gi cluster only included the prototype eh70 strain isolated in singapore in 1970. genotype iii included strains isolated in taiwan (1985–1986), brazil and jamaica (1987), dominica (1993), and the usa […]

PMCID: 4528078
PMID: 26093971
DOI: 10.1016/j.prevetmed.2015.05.013

[…] final model were mapped using the co-ordinates of the farm postcode, as were the elisa results, predicted values and model residuals. to find out whether values were spatially clustered, getis-ord gi cluster analysis was performed (). a large neighbourhood search threshold (37.245 m) was used in order to compare the amount of clustering relative to the whole of the study area. a variogram […]


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GI-Cluster institution(s)
Department of Computer Science, National University of Singapore, Computing Drive Singapore, Singapore

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