Personal information

Bioinformatics, Genomics, Embryo development
United States

Activities

Employment (4)

South Dakota State University: Brookings, SD, US

2007 to present | Professor (Mathematics and Statistics)
Employment
Source: Self-asserted source
Xijin Ge

NorthShore University HealthSystem: Evanston, IL, US

2004 to 2007 | Research Associate, Research Scientist (Functional Genomics, Bioinformatics)
Employment
Source: Self-asserted source
Xijin Ge

University of Tokyo: Tokyo, JP

2002 to 2004 | Research Associate (Genome Science Division, RCAST)
Employment
Source: Self-asserted source
Xijin Ge

University of Tokyo: Tokyo, JP

2000 to 2002 | Research associate/postdoc (Research into Artifacts Center for Engineering)
Employment
Source: Self-asserted source
Xijin Ge

Education and qualifications (2)

University of Science and Technology Beijing: Beijing, CN

1994-09 to 1997-03 | MS (Solid State Physics)
Education
Source: Self-asserted source
Xijin Ge

University of Science and Technology Beijing: Beijing, CN

1990-09 to 1994-07 | BS (Applied Physics)
Education
Source: Self-asserted source
Xijin Ge

Funding (2)

NORTHERN GRAPES: INTEGRATING VITICULTURE, WINEMAKING & MARKETING OF NEW COLD-HARDY CULTIVARS SUPPORTING NEW AND GROWING RURAL WINERIES

Source: Self-asserted source
Xijin Ge via DimensionsWizard

Large-scale expression analysis of natural antisense transcripts

2009-04-01 to 2014-03-31 | Grant
National Institute of General Medical Sciences (Bethesda, US)
GRANT_NUMBER: 5R01GM083226-04
Source: Self-asserted source
Xijin Ge via DimensionsWizard

Works (49)

Code Interpreter for Bioinformatics: Are We There Yet?

Annals of Biomedical Engineering
2024-04 | Journal article
Part of ISSN: 0090-6964
Part of ISSN: 1573-9686
Contributors: Lei Wang; Xijin Ge; Li Liu; Gangqing Hu
Source: Self-asserted source
Xijin Ge

Hydrotropism in the primary roots of maize

New Phytologist
2020-06 | Journal article
Contributors: Yafang Wang; Yohannes Afeworki; Sisi Geng; Praveena Kanchupati; Muyu Gu; Chidi Martins; Brady Rude; Haileselassie Tefera; Yongjun Kim; Xijin Ge et al.
Source: check_circle
Crossref

ShinyGO: a graphical gene-set enrichment tool for animals and plants

Bioinformatics
2020-04-15 | Journal article
Contributors: Steven Xijin Ge; Dongmin Jung; Runan Yao; Alfonso Valencia
Source: check_circle
Crossref

Open-source analytics tools for studying the COVID-19 coronavirus outbreak

2020-02-27 | Other
Contributors: Tianzhi Wu; Erqiang Hu; Xijin Ge; Guangchuang Yu
Source: check_circle
Crossref

Evaluating the impact of health awareness events on Google search frequency

Preventive Medicine Reports
2019-09 | Journal article
Contributors: Zheng Hao; Miao Liu; Xijin Ge
Source: check_circle
Crossref

iDEP: an integrated web application for differential expression and pathway analysis of RNA-Seq data

BMC Bioinformatics
2018-12 | Journal article
Contributors: Steven Xijin Ge; Eun Wo Son; Runan Yao
Source: check_circle
Crossref

ShinyGO: a graphical enrichment tool for ani-mals and plants

2018-05-04 | Other
Contributors: Steven Xijin Ge; Dongmin Jung
Source: check_circle
Crossref

PPInfer: a Bioconductor package for inferring functionally related proteins using protein interaction networks

F1000Research
2018-03-12 | Journal article
Contributors: Dongmin Jung; Xijin Ge
Source: check_circle
Crossref

Comparative analysis of methicillin-sensitive and resistant Staphylococcus aureus exposed to emodin based on proteomic profiling

Biochemical and Biophysical Research Communications
2017-12 | Journal article
Contributors: Xiaoyu Ji; Xiaoqiang Liu; Yuanxia Peng; Ruoting Zhan; Hui Xu; Xijin Ge
Source: check_circle
Crossref

Exploratory bioinformatics investigation reveals importance of “junk” DNA in early embryo development

BMC Genomics
2017-12 | Journal article
Part of ISSN: 1471-2164
Contributors: Steven Xijin Ge
Source: Self-asserted source
Xijin Ge

PPInfer: a Bioconductor package for inferring functionally related proteins using protein interaction networks

F1000Research
2017-12-08 | Journal article
Contributors: Dongmin Jung; Xijin Ge
Source: check_circle
Crossref

Gaining insights from RNA-Seq data using iDEP

2017-06-09 | Preprint
Contributors: Steven Xijin Ge; Eun Wo Son
Source: check_circle
Crossref

ATOH1 Promotes Leptomeningeal Dissemination and Metastasis of Sonic Hedgehog Subgroup Medulloblastomas

Cancer Research
2017-05-10 | Journal article
Contributors: Katie B. Grausam; Samuel D.R. Dooyema; Laure Bihannic; Hasitha Premathilake; A. Sorana Morrissy; Antoine Forget; Amanda M. Schaefer; Justin H. Gundelach; Slobodan Macura; Diane M. Maher et al.
Source: Self-asserted source
Xijin Ge via Crossref Metadata Search

Root isoflavonoids and hairy root transformation influence key bacterial taxa in the soybean rhizosphere

Environmental Microbiology
2017-02-10 | Journal article
Contributors: Laura J. White; Xijin Ge; Volker S. Brözel; Senthil Subramanian
Source: Self-asserted source
Xijin Ge via Crossref Metadata Search

GSKB: A gene set database for pathway analysis in mouse

2016-10-24 | Preprint
Contributors: Liming Lai; Jason Hennessey; Valerie Bares; Eun Woo Son; Yuguang Ban; Wei Wang; Jianli Qi; Gaixin Jiang; Arthur Liberzon; Steven Xijin Ge
Source: check_circle
Crossref

Application of bioinformatics to analyze the expression of tissue-specific and housekeeping genes in cancer

Systems Biology of Cancer
2015 | Book chapter
Source: Self-asserted source
Xijin Ge

Meta-analysis of gene expression signatures reveals hidden links among diverse biological processes in arabidopsis

PLoS ONE
2014 | Journal article
EID:

2-s2.0-84911945055

Contributors: Lai, L.; Ge, S.X.
Source: Self-asserted source
Xijin Ge via Scopus - Elsevier

A cross disciplinary study of link decay and the effectiveness of mitigation techniques

BMC Bioinformatics
2013 | Journal article
EID:

2-s2.0-84885367936

Contributors: Hennessey, J.; Ge, S.X.
Source: Self-asserted source
Xijin Ge via Scopus - Elsevier

Conserved expression of natural antisense transcripts in mammals

BMC Genomics
2013 | Journal article
EID:

2-s2.0-84876320555

Contributors: Ling, M.H.T.; Ban, Y.; Wen, H.; Wang, S.M.; Ge, S.X.
Source: Self-asserted source
Xijin Ge via Scopus - Elsevier

Genome-wide survey of interindividual differences of RNA stability in human lymphoblastoid cell lines.

Scientific Reports
2013 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

AraPath: A knowledgebase for pathway analysis in Arabidopsis

Bioinformatics
2012 | Journal article
EID:

2-s2.0-84865549088

Contributors: Lai, L.; Liberzon, A.; Hennessey, J.; Jiang, G.; Qi, J.; Mesirov, J.P.; Ge, S.X.
Source: Self-asserted source
Xijin Ge via Scopus - Elsevier

ArraySearch: A web-based genomic search engine

Comparative and Functional Genomics
2012 | Journal article
EID:

2-s2.0-84859717294

Contributors: Wilson, T.J.; Ge, S.X.
Source: Self-asserted source
Xijin Ge via Scopus - Elsevier

Identification of metagenes and their Interactions through Large-scale Analysis of Arabidopsis Gene Expression Data

BMC Genomics
2012 | Journal article
EID:

2-s2.0-84862226372

Contributors: Wilson, T.J.; Lai, L.; Ban, Y.; Ge, S.X.
Source: Self-asserted source
Xijin Ge via Scopus - Elsevier

Regulation of gene expression with thyroid hormone in rats with myocardial infarction.

PLOS ONE
2012 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Large-scale analysis of expression signatures reveals hidden links among diverse cellular processes

BMC Systems Biology
2011 | Journal article
EID:

2-s2.0-79957519882

Contributors: Ge, S.X.
Source: Self-asserted source
Xijin Ge via Scopus - Elsevier

Early gene response of human brain microvascular endothelial cells to Listeria monocytogenes infection.

Canadian Journal of Microbiology
2011-05 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Gene expression profiles of estrogen receptor-positive and estrogen receptor-negative breast cancers are detectable in histologically normal breast epithelium.

Clinical Cancer Research
2011-01 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models.

Nature Biotechnology
2010-08 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Cbf genes of the Fr-A2 allele are differentially regulated between long-term cold acclimated crown tissue of freeze-resistant and - susceptible, winter wheat mutant lines.

BMC Plant Biology
2009 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Gene expression profile analysis of human hepatocellular carcinoma using SAGE and LongSAGE.

BMC Medical Genomics
2009 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Genome-wide analysis of antisense transcription with Affymetrix exon array.

BMC Genomics
2008 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Identifying nonspecific SAGE tags by context of gene expression.

Methods in Molecular Biology
2008 | Book chapter
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

SAGE detects microRNA precursors.

BMC Genomics
2006 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Identification and characterization of lin-28 homolog B (LIN28B) in human hepatocellular carcinoma.

Gene
2006-12 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

A large quantity of novel human antisense transcripts detected by LongSAGE.

Bioinformatics
2006-10 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Elevated expression and potential roles of human Sp5, a member of Sp transcription factor family, in human cancers.

Biochemical and Biophysical Research Communications
2006-02 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Annotating nonspecific SAGE tags with microarray data.

Genomics
2006-01 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Gene expression profiles in acute myeloid leukemia with common translocations using SAGE.

P.N.A.S.
2006-01 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

2.45 GHz radiofrequency fields alter gene expression in cultured human cells.

FEBS Letters
2005-08 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Interpreting expression profiles of cancers by genome-wide survey of breadth of expression in normal tissues.

Genomics
2005-08 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Vascular endothelial growth factor- and thrombin-induced termination factor, Down syndrome critical region-1, attenuates endothelial cell proliferation and angiogenesis.

The Journal of Biological Chemistry
2004-11 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Selective expression of a subset of neuronal genes in oligodendroglioma with chromosome 1p loss.

Oncogene
2004-01 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Reducing false positives in molecular pattern recognition.

Genome Informatics. International Conference on Genome Informatics
2003 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Two distinct gene expression signatures in pediatric acute lymphoblastic leukemia with MLL rearrangements.

Cancer Research
2003-08 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Learning the parts of objects by auto-association.

Neural Networks
2002-03 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Selective field evaporation in field-ion microscopy for ordered alloys

Journal of Applied Physics
1999 | Journal article
Source: Self-asserted source
Xijin Ge

Atomistic analysis of the field-ion microscopy image of Fe3Al

Physical Review B
1998-06 | Journal article
Source: Self-asserted source
Xijin Ge

Efficient algorithm for 2-D arithmetic fourier transform

IEEE Transactions on Signal Processing
1997 | Journal article
EID:

2-s2.0-0031198565

Contributors: Ge, X.-J.; Chen, N.-X.; Chen, Z.-D.
Source: Self-asserted source
Xijin Ge via Scopus - Elsevier

Interatomic potentials between distinct atoms from first-principles calculation and lattice-inversion method

Journal of Applied Physics
1997-07 | Journal article
Source: Self-asserted source
Xijin Ge
grade
Preferred source (of 2)‎

Peer review (3 reviews for 2 publications/grants)

Review activity for BMC genomics (1)
Review activity for PLoS computational biology. (2)