SCHIP: Statistics for chromosome interphase positioning based on interchange data

Sergi Vives; Bradford Loucas; Mariel Vazquez; David J. Brenner; Rainer K. Sachs; Lynn Hlatky; Michael Cornforth; Javier Arsuaga

doi:10.1093/bioinformatics/bti470

SCHIP: Statistics for chromosome interphase positioning based on interchange data

Sergi Vives, Bradford Loucas, Mariel Vazquez, David J. Brenner, Rainer K. Sachs, Lynn Hlatky, Michael Cornforth, Javier Arsuaga

Radiation Oncology

Research output: Contribution to journal › Article › peer-review

3 Scopus citations

Abstract

Motivation: The position of chromosomes in the interphase nucleus is believed to be associated with a number of biological processes. Here, we present a web-based application that helps analyze the relative position of chromosomes during interphase in human cells, based on observed radiogenic chromosome aberrations. The inputs of the program are a table of yields of pairwise chromosome interchanges and a proposed chromosome geometric cluster. Each can either be uploaded or selected from provided datasets. The main outputs are P-values for the proposed chromosome clusters. SCHIP is designed to be used by a number of scientific communities interested in nuclear architecture, including cancer and cell biologists, radiation biologists and mathematical/computational biologists.

Original language	English (US)
Pages (from-to)	3181-3182
Number of pages	2
Journal	Bioinformatics
Volume	21
Issue number	14
DOIs	https://doi.org/10.1093/bioinformatics/bti470
State	Published - Jul 15 2005

ASJC Scopus subject areas

Statistics and Probability
Biochemistry
Molecular Biology
Computer Science Applications
Computational Theory and Mathematics
Computational Mathematics

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10.1093/bioinformatics/bti470

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@article{8917c8165ff240cbb4c985727392d2cf,

title = "SCHIP: Statistics for chromosome interphase positioning based on interchange data",

abstract = "Motivation: The position of chromosomes in the interphase nucleus is believed to be associated with a number of biological processes. Here, we present a web-based application that helps analyze the relative position of chromosomes during interphase in human cells, based on observed radiogenic chromosome aberrations. The inputs of the program are a table of yields of pairwise chromosome interchanges and a proposed chromosome geometric cluster. Each can either be uploaded or selected from provided datasets. The main outputs are P-values for the proposed chromosome clusters. SCHIP is designed to be used by a number of scientific communities interested in nuclear architecture, including cancer and cell biologists, radiation biologists and mathematical/computational biologists.",

author = "Sergi Vives and Bradford Loucas and Mariel Vazquez and Brenner, {David J.} and Sachs, {Rainer K.} and Lynn Hlatky and Michael Cornforth and Javier Arsuaga",

note = "Funding Information: This work was supported in part by grants University and Research Awards Agency DURSI Department of Catalan government (S.V.), NIH grant CA76260 (B.L. and M.C.), NIH GM68423 (M.V.), DE-PG-02-98ER62686 (D.J.B.), NASA 03-OBPR-07-0059-0065 (L.H.), NASA NSCOR04-0014-0017 (R.K.S.) and the Avon Foundation Breast Cancer Fund P.I.A.Balmain (J.A.).",

year = "2005",

month = jul,

day = "15",

doi = "10.1093/bioinformatics/bti470",

language = "English (US)",

volume = "21",

pages = "3181--3182",

journal = "Bioinformatics",

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T1 - SCHIP

T2 - Statistics for chromosome interphase positioning based on interchange data

AU - Vives, Sergi

AU - Loucas, Bradford

AU - Vazquez, Mariel

AU - Brenner, David J.

AU - Sachs, Rainer K.

AU - Hlatky, Lynn

AU - Cornforth, Michael

AU - Arsuaga, Javier

N1 - Funding Information: This work was supported in part by grants University and Research Awards Agency DURSI Department of Catalan government (S.V.), NIH grant CA76260 (B.L. and M.C.), NIH GM68423 (M.V.), DE-PG-02-98ER62686 (D.J.B.), NASA 03-OBPR-07-0059-0065 (L.H.), NASA NSCOR04-0014-0017 (R.K.S.) and the Avon Foundation Breast Cancer Fund P.I.A.Balmain (J.A.).

PY - 2005/7/15

Y1 - 2005/7/15

N2 - Motivation: The position of chromosomes in the interphase nucleus is believed to be associated with a number of biological processes. Here, we present a web-based application that helps analyze the relative position of chromosomes during interphase in human cells, based on observed radiogenic chromosome aberrations. The inputs of the program are a table of yields of pairwise chromosome interchanges and a proposed chromosome geometric cluster. Each can either be uploaded or selected from provided datasets. The main outputs are P-values for the proposed chromosome clusters. SCHIP is designed to be used by a number of scientific communities interested in nuclear architecture, including cancer and cell biologists, radiation biologists and mathematical/computational biologists.

AB - Motivation: The position of chromosomes in the interphase nucleus is believed to be associated with a number of biological processes. Here, we present a web-based application that helps analyze the relative position of chromosomes during interphase in human cells, based on observed radiogenic chromosome aberrations. The inputs of the program are a table of yields of pairwise chromosome interchanges and a proposed chromosome geometric cluster. Each can either be uploaded or selected from provided datasets. The main outputs are P-values for the proposed chromosome clusters. SCHIP is designed to be used by a number of scientific communities interested in nuclear architecture, including cancer and cell biologists, radiation biologists and mathematical/computational biologists.

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SCHIP: Statistics for chromosome interphase positioning based on interchange data

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