Personal information

No personal information available

Activities

Works (49)

Putting benchmarks in their rightful place: The heart of computational biology.

PLoS computational biology
2018-11 | Journal article
Contributors: Peters B; Brenner SE; Wang E; Slonim D; Kann MG
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Amniotic fluid transcriptomics reflects novel disease mechanisms in fetuses with myelomeningocele.

American journal of obstetrics and gynecology
2017-07 | Journal article
Contributors: Tarui T; Kim A; Flake A; McClain L; Stratigis JD; Fried I; Newman R; Slonim DK; Bianchi DW
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Towards a more molecular taxonomy of disease.

Journal of biomedical semantics
2017-07 | Journal article
Contributors: Park J; Hescott BJ; Slonim DK
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Using Next-Generation Sequencing to Explore Genetics and Race in the High School Classroom.

CBE life sciences education
2017-01 | Journal article
Contributors: Yang X; Hartman MR; Harrington KT; Etson CM; Fierman MB; Slonim DK; Walt DR
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Personal microbiomes and next-generation sequencing for laboratory-based education.

FEMS microbiology letters
2016-11 | Journal article
Contributors: Hartman MR; Harrington KT; Etson CM; Fierman MB; Slonim DK; Walt DR
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Time is Money: Designing Cost-Effective Time Series Experiments.

Cell systems
2016-07 | Journal article
Contributors: Slonim DK
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

The fetal brain transcriptome and neonatal behavioral phenotype in the Ts1Cje mouse model of Down syndrome.

American journal of medical genetics. Part A
2015-05 | Journal article
Contributors: Guedj F; Pennings JL; Ferres MA; Graham LC; Wick HC; Miczek KA; Slonim DK; Bianchi DW
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

The pathway not taken: understanding 'omics data in the perinatal context.

American journal of obstetrics and gynecology
2015-03 | Journal article
Contributors: Edlow AG; Slonim DK; Wick HC; Hui L; Bianchi DW
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

CSAX: Characterizing Systematic Anomalies in eXpression Data.

Journal of computational biology : a journal of computational molecular cell biology
2015-02 | Journal article
Contributors: Noto K; Majidi S; Edlow AG; Wick HC; Bianchi DW; Slonim DK
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Guest Editors’ Introduction: Selected Papers from ACM-BCB 2013.

IEEE/ACM transactions on computational biology and bioinformatics
2015-01 | Journal article
Contributors: Aluru S; Slonim DK
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Amniotic fluid RNA gene expression profiling provides insights into the phenotype of Turner syndrome.

Human genetics
2014-05 | Journal article
Contributors: Massingham LJ; Johnson KL; Scholl TM; Slonim DK; Wick HC; Bianchi DW
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Finding novel molecular connections between developmental processes and disease.

PLoS computational biology
2014-05 | Journal article
Contributors: Park J; Wick HC; Kee DE; Noto K; Maron JL; Slonim DK
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

DFLAT: functional annotation for human development.

BMC bioinformatics
2014-02 | Journal article
Contributors: Wick HC; Drabkin H; Ngu H; Sackman M; Fournier C; Haggett J; Blake JA; Bianchi DW; Slonim DK
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Novel neurodevelopmental information revealed in amniotic fluid supernatant transcripts from fetuses with trisomies 18 and 21.

Human genetics
2012-07 | Journal article
Contributors: Hui L; Slonim DK; Wick HC; Johnson KL; Koide K; Bianchi DW
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

The amniotic fluid transcriptome: a source of novel information about human fetal development.

Obstetrics and gynecology
2012-01 | Journal article
Contributors: Hui L; Slonim DK; Wick HC; Johnson KL; Bianchi DW
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

The Gene Ontology: enhancements for 2011.

Nucleic acids research
2011-11 | Journal article
Contributors: Gene Ontology Consortium
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

FRaC: a feature-modeling approach for semi-supervised and unsupervised anomaly detection.

Data mining and knowledge discovery
2011-09 | Journal article
Contributors: Noto K; Brodley C; Slonim D
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Connectedness of PPI network neighborhoods identifies regulatory hub proteins.

Bioinformatics (Oxford, England)
2011-03 | Journal article
Contributors: Fox AD; Hescott BJ; Blumer AC; Slonim DK
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Mining functionally relevant gene sets for analyzing physiologically novel clinical expression data.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
2011-01 | Journal article
Contributors: Turcan S; Vetter DE; Maron JL; Wei X; Slonim DK
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Anomaly Detection Using an Ensemble of Feature Models.

Proceedings. IEEE International Conference on Data Mining
2010-12 | Journal article
Contributors: Noto K; Brodley C; Slonim D
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Transcriptomic analysis of cell-free fetal RNA suggests a specific molecular phenotype in trisomy 18.

Human genetics
2010-12 | Journal article
Contributors: Koide K; Slonim DK; Johnson KL; Tantravahi U; Cowan JM; Bianchi DW
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Evaluating between-pathway models with expression data.

Journal of computational biology : a journal of computational molecular cell biology
2010-03 | Journal article
Contributors: Hescott BJ; Leiserson MD; Cowen LJ; Slonim DK
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Lack of nAChR activity depresses cochlear maturation and up-regulates GABA system components: temporal profiling of gene expression in alpha9 null mice.

PloS one
2010-02 | Journal article
Contributors: Turcan S; Slonim DK; Vetter DE
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Toward the dynamic interactome: it's about time.

Briefings in bioinformatics
2010-01 | Journal article
Contributors: Przytycka TM; Singh M; Slonim DK
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Getting started in gene expression microarray analysis.

PLoS computational biology
2009-10 | Journal article
Contributors: Slonim DK; Yanai I
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Functional genomic analysis of amniotic fluid cell-free mRNA suggests that oxidative stress is significant in Down syndrome fetuses.

Proceedings of the National Academy of Sciences of the United States of America
2009-05 | Journal article
Contributors: Slonim DK; Koide K; Johnson KL; Tantravahi U; Cowan JM; Jarrah Z; Bianchi DW
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

High throughput interaction data reveals degree conservation of hub proteins.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
2009-01 | Journal article
Contributors: Fox A; Taylor D; Slonim DK
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Pairing of competitive and topologically distinct regulatory modules enhances patterned gene expression.

Molecular systems biology
2008-02 | Journal article
Contributors: Yanai I; Baugh LR; Smith JJ; Roehrig C; Shen-Orr SS; Claggett JM; Hill AA; Slonim DK; Hunter CP
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Gene expression analysis in pregnant women and their infants identifies unique fetal biomarkers that circulate in maternal blood.

The Journal of clinical investigation
2007-10 | Journal article
Contributors: Maron JL; Johnson KL; Slonim D; Lai CQ; Ramoni M; Alterovitz G; Jarrah Z; Yang Z; Bianchi DW
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Risk factors associated with beta-amyloid(1-42) immunotherapy in preimmunization gene expression patterns of blood cells.

Archives of neurology
2005-10 | Journal article
Contributors: O'Toole M; Janszen DB; Slonim DK; Reddy PS; Ellis DK; Legault HM; Hill AA; Whitley MZ; Mounts WM; Zuberek K et al.
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Synthetic lethal analysis of Caenorhabditis elegans posterior embryonic patterning genes identifies conserved genetic interactions.

Genome biology
2005-04 | Journal article
Contributors: Baugh LR; Wen JC; Hill AA; Slonim DK; Brown EL; Hunter CP
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

The homeodomain protein PAL-1 specifies a lineage-specific regulatory network in the C. elegans embryo.

Development (Cambridge, England)
2005-03 | Journal article
Contributors: Baugh LR; Hill AA; Claggett JM; Hill-Harfe K; Wen JC; Slonim DK; Brown EL; Hunter CP
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Transcriptional profiles in peripheral blood mononuclear cells prognostic of clinical outcomes in patients with advanced renal cell carcinoma.

Clinical cancer research : an official journal of the American Association for Cancer Research
2005-02 | Journal article
Contributors: Burczynski ME; Twine NC; Dukart G; Marshall B; Hidalgo M; Stadler WM; Logan T; Dutcher J; Hudes G; Trepicchio WL et al.
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Disease-associated expression profiles in peripheral blood mononuclear cells from patients with advanced renal cell carcinoma.

Cancer research
2003-09 | Journal article
Contributors: Twine NC; Stover JA; Marshall B; Dukart G; Hidalgo M; Stadler W; Logan T; Dutcher J; Hudes G; Dorner AJ et al.
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Composition and dynamics of the Caenorhabditis elegans early embryonic transcriptome.

Development (Cambridge, England)
2003-03 | Journal article
Contributors: Baugh LR; Hill AA; Slonim DK; Brown EL; Hunter CP
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

From patterns to pathways: gene expression data analysis comes of age.

Nature genetics
2002-12 | Journal article
Contributors: Slonim DK
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Evaluation of normalization procedures for oligonucleotide array data based on spiked cRNA controls.

Genome biology
2001-11 | Journal article
Contributors: Hill AA; Brown EL; Whitley MZ; Tucker-Kellogg G; Hunter CP; Slonim DK
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Chemosensitivity prediction by transcriptional profiling.

Proceedings of the National Academy of Sciences of the United States of America
2001-09 | Journal article
Contributors: Staunton JE; Slonim DK; Coller HA; Tamayo P; Angelo MJ; Park J; Scherf U; Lee JK; Reinhold WO; Weinstein JN et al.
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Transcriptional profiling in cancer: the path to clinical pharmacogenomics.

Pharmacogenomics
2001-05 | Journal article
Contributors: Slonim DK
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Discovering functional relationships between RNA expression and chemotherapeutic susceptibility using relevance networks.

Proceedings of the National Academy of Sciences of the United States of America
2000-10 | Journal article
Contributors: Butte AJ; Tamayo P; Slonim D; Golub TR; Kohane IS
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Molecular classification of cancer: class discovery and class prediction by gene expression monitoring.

Science (New York, N.Y.)
1999-10 | Journal article
Contributors: Golub TR; Slonim DK; Tamayo P; Huard C; Gaasenbeek M; Mesirov JP; Coller H; Loh ML; Downing JR; Caligiuri MA et al.
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

A YAC-based physical map of the mouse genome.

Nature genetics
1999-08 | Journal article
Contributors: Nusbaum C; Slonim DK; Harris KL; Birren BW; Steen RG; Stein LD; Miller J; Dietrich WF; Nahf R; Wang V et al.
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Radiation hybrid map of the mouse genome.

Nature genetics
1999-08 | Journal article
Contributors: Van Etten WJ; Steen RG; Nguyen H; Castle AB; Slonim DK; Ge B; Nusbaum C; Schuler GD; Lander ES; Hudson TJ
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

A high-density integrated genetic linkage and radiation hybrid map of the laboratory rat.

Genome research
1999-06 | Journal article
Contributors: Steen RG; Kwitek-Black AE; Glenn C; Gullings-Handley J; Van Etten W; Atkinson OS; Appel D; Twigger S; Muir M; Mull T et al.
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Interpreting patterns of gene expression with self-organizing maps: methods and application to hematopoietic differentiation.

Proceedings of the National Academy of Sciences of the United States of America
1999-03 | Journal article
Contributors: Tamayo P; Slonim D; Mesirov J; Zhu Q; Kitareewan S; Dmitrovsky E; Lander ES; Golub TR
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

A physical map of 30,000 human genes.

Science (New York, N.Y.)
1998-10 | Journal article
PMID: 9784132
Contributors: Deloukas P; Schuler GD; Gyapay G; Beasley EM; Soderlund C; Rodriguez-Tomé P; Hui L; Matise TC; McKusick KB; Beckmann JS et al.
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Building human genome maps with radiation hybrids.

Journal of computational biology : a journal of computational molecular cell biology
1997-01 | Journal article
PMID: 9385541
Contributors: Slonim D; Kruglyak L; Stein L; Lander E
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

A gene map of the human genome.

Science (New York, N.Y.)
1996-10 | Journal article
PMID: 8928009
Contributors: Schuler GD; Boguski MS; Stewart EA; Stein LD; Gyapay G; Rice K; White RE; Rodriguez-Tomé P; Aggarwal A; Bajorek E et al.
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

An STS-based map of the human genome.

Science (New York, N.Y.)
1995-12 | Journal article
PMID: 8533086
Contributors: Hudson TJ; Stein LD; Gerety SS; Ma J; Castle AB; Silva J; Slonim DK; Baptista R; Kruglyak L; Xu SH et al.
Source: Self-asserted source
Donna Slonim via Europe PubMed Central

Peer review (11 reviews for 1 publication/grant)

Review activity for Faculty Opinions (11)