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",

issn = "1367-4803",

publisher = "Oxford University Press",

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}

TY - JOUR

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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UR - https://www.scopus.com/pages/publications/25144457097#tab=citedBy

U2 - 10.1093/bioinformatics/bti470

DO - 10.1093/bioinformatics/bti470

M3 - Article

C2 - 15886279

AN - SCOPUS:25144457097

SN - 1367-4803

VL - 21

SP - 3181

EP - 3182

JO - Bioinformatics

JF - Bioinformatics

IS - 14

ER -

SCHIP: Statistics for chromosome interphase positioning based on interchange data

Abstract

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