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modMine specifications


Unique identifier OMICS_03817
Name modMine
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes


  • person_outline Gos Micklem <>

Publication for modMine

modMine in publications

PMCID: 5677173
PMID: 28916647
DOI: 10.1534/g3.117.1133

[…] the distances between those genes. c.i.s were calculated as 2.5–97.5% quantiles from the corresponding random sample distribution., tfs and tgs were defined by drosophila interaction database modmine () (v2015_12). genes in this analysis were those that are present in affymetrix drosophila2 genome array annotation (release 35), the droid tf-tg database v2015_12, and flybase v5.49 […]

PMCID: 5555470
PMID: 28624774
DOI: 10.1534/g3.117.043836

[…] genotype in which males are more sensitive to differences in nadp(h) enzyme genotypes than females (). interestingly, examination of gene expression data for csod, men, idh, and g6pd, using the modmine function of modencode, showed no indication of sex-specific expression at the whole organism level () in the lines available through flybase (data not shown). overall, the biochemical […]

PMCID: 5295594
PMID: 27974438
DOI: 10.1534/g3.116.037333

[…] (australian genome research facility, agrf). in addition to the reads obtained from the six rg samples, duplicate rna-seq reads for the oregon-r wandering third instar cns were downloaded from the modmine database (accession: srx029398) (). these reads were downloaded in sra (short read archive) format, and converted to paired end fastq format using the fastq-dump utility included in the ncbi […]

PMCID: 5069885
PMID: 27777628
DOI: 10.1186/s13072-016-0096-y

[…] from geo (gse22069). annotation according to the nine-state model (accession # modencode_21955), chip-seq peak data for h3k36me3 (modencode_302) and jil-1 (modencode_3037) were downloaded from modmine ( v33 28jul2014)., this work was supported by erc advanced grant 293662, nih u54 grant 1u54dk107965-01 and by an nwo-alw grant to wa and m. van […]

PMCID: 4657240
PMID: 26604986
DOI: 10.1186/s13072-015-0042-4

[…] figure s1, 27 histone modifications, dnase hypersensitivity and expression data produced in drosophila s2 cells as well as h3k27ac and expression in different developmental stages) was obtained from modmine ( two additional proteins, trx and m1bp (geo entries gsm604729, gsm1208162), that were not used in the classification, were included in the heatmap […]

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modMine institution(s)
Department of Genetics, University of Cambridge, Downing Street, Cambridge, UK

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