ChroMoS protocols

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ChroMoS specifications

Information


Unique identifier OMICS_00145
Name ChroMoS
Alternative name Chromatin Modified SNPs
Interface Web user interface
Restrictions to use None
Computer skills Basic
Maintained Yes

Maintainer


  • person_outline Maxim Barenboim <>

Publication for Chromatin Modified SNPs

ChroMoS in pipeline

2014
PMCID: 4213349
PMID: 25261932
DOI: 10.1038/ng.3105

[…] we utilized haploreg v2, which is a tool for exploring non-coding functional annotation using encode data, to evaluate the genome surrounding our snps (). to assess chromatin state dynamics, we used chromos, which has pre-computed data from encode on 9 cell types based on chip-seq analyses. these pre-computed data have genome-segmentation performed using multivariate hidden markov-model […]


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ChroMoS in publications

 (30)
PMCID: 5638070
PMID: 28771695
DOI: 10.1002/1873-3468.12778

[…] and explorations within genomics and its visualization (e.g., spatial augmented reality haptics ). but while these are seductive and well suited for expressive communication through projects such as chromos , it is more important to maximize the use of the 3d data being produced by representing its detail rather than increasing immersion. the domain of structural genomics is still developing […]

PMCID: 5359564
PMID: 28322224
DOI: 10.1038/srep43991

[…] dna isolated from a pure culture of t. hamatum uom 13 and no non-specific bands were observed. pcr products were sequenced by the dideoxynucleotide method using the big dye terminator ver. 3.0 kit (chromos biotech) from both strands. the sequence homology was made by using blast (basic local alignment search tool) program and multiple sequence alignment was with related trichoderma species […]

PMCID: 5374684
PMID: 28361702
DOI: 10.1186/s12918-017-0389-1

[…] factor (tf) binding sites because it has been revealed that genetic variants occur in transcription factors binding sites can affect cellular phenotype and gene expression []. to mention a few, chromos, an integrated web-tool for snps classification and prioritization with the combination of genetic and epigenetic data []. haploreg, another tool based on quantifying the difference […]

PMCID: 5328405
PMID: 28187132
DOI: 10.1371/journal.pgen.1006609

[…] most associated variants as well as all snps in ld with the lead snp (r2>0.5) at each locus. we annotated these variants using annovar[], seattleseq[], snpnexus[], funcisnp[], haploreg4[], and chromos[]. the transcripts whose expressions were correlated with the lead snps in cis- or trans- were also identified using available eqtl datasets, including: (1) peripheral blood eqtls based […]

PMCID: 5378805
PMID: 28044063
DOI: 10.1038/mp.2016.241

[…] fetal brain meqtls http://epigenetics.essex.ac.uk/mqtl/., psychencode http://psychencode.org/., chromhmm http://compbio.mit.edu/chromhmm/., chromos http://epicenter.immunbio.mpg.de/services/chromos., sea http://www.bio-bigdata.com/sea/., hi-c browser http://hic.umassmed.edu/welcome/welcome.php., ccsi […]


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ChroMoS institution(s)
Bioinformatics and Deep-Sequencing Unit, Max-Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany
ChroMoS funding source(s)
National Genome Research Network (NGRN) grant (01GS1110) of the German Federal Ministry of Education and Research (BMBF)

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