Transcriptomics

Dataset Information

3

Germline unbalanced translocations arise from diverse mutational mechanisms including chromothripsis


ABSTRACT: Unbalanced translocations are a relatively common type of copy number variation and are a major contributor to neurodevelopmental disorders. We analyzed the breakpoints of 57 unique unbalanced translocations to investigate the mechanisms of how they form. 51 are simple unbalanced translocations between two different chromosome ends, and six rearrangements have more than three breakpoints involving two to five chromosomes. Sequencing 37 breakpoint junctions revealed that simple translocations have between zero and four basepairs (bp) of microhomology (n=26), short inserted sequences (n=8), or paralogous repeats (n=3) at the junctions, indicating that translocations do not arise primarily from non-allelic homologous recombination, but instead form most often via non-homologous end joining or microhomology-mediated break-induced replication. Three simple translocations fuse genes that are predicted to produce in-frame transcripts of SIRPG-WWOX, SMOC2-PROX1, and PIEZO2-MTA1, which may lead to gain of function. Three complex translocations have inversions, insertions, and multiple breakpoint junctions between only two chromosomes. Whole- genome sequencing and fluorescence in situ hybridization analysis of two de novo translocations revealed at least 18 and 33 breakpoints involving five different chromosomes. Breakpoint sequencing of one inherited translocation involving four chromosomes uncovered multiple breakpoints with inversions and insertions. All of these breakpoint junctions had zero to four bp of microhomology consistent with germline chromothripsis, and both de novo events occurred on paternal alleles. Breakpoint sequencing of our large collection of chromosome rearrangements offers a comprehensive analysis of the molecular mechanisms behind germline translocation formation. High resolution array CGH; two-color experiment, clinical patient vs. normal control gDNA; sex mis-matched

ORGANISM(S): Homo sapiens  

SUBMITTER: Brooke Weckselblatt   Karen E Hermetz  M. Katharine Rudd  M K Rudd 

PROVIDER: E-GEOD-68019 | ArrayExpress | 2015-04-22

SECONDARY ACCESSION(S): GSE68019PRJNA281869

REPOSITORIES: GEO, ArrayExpress

Dataset's files

Source:
Action DRS
E-GEOD-68019.idf.txt Idf
E-GEOD-68019.processed.1.zip Processed
E-GEOD-68019.raw.1.zip Raw
E-GEOD-68019.raw.2.zip Raw
E-GEOD-68019.raw.3.zip Raw
Items per page:
1 - 5 of 10

Similar Datasets

2015-01-01 | S-EPMC4484391 | BioStudies
2013-01-01 | S-EPMC3589530 | BioStudies
2017-01-01 | S-EPMC5225243 | BioStudies
2011-01-01 | S-EPMC3242451 | BioStudies
2020-01-01 | S-EPMC7444045 | BioStudies
2018-01-01 | S-EPMC6055522 | BioStudies
2012-07-12 | E-GEOD-39303 | ArrayExpress
2020-01-01 | S-EPMC7502196 | BioStudies
2016-01-01 | S-EPMC5041460 | BioStudies
2019-01-01 | S-EPMC6972507 | BioStudies