• 607 Citations
  • 11 h-Index
20042020
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Research Output 2004 2019

  • 607 Citations
  • 11 h-Index
  • 29 Article
  • 1 Chapter
  • 1 Letter
  • 1 Review article
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Article
2019

Expanding the mesodermal transcriptional network by genome-wide identification of Zinc finger homeodomain 1 (Zfh1) targets

Wu, W. H., Kuo, T. H., Kao, C. W., Girardot, C., Hung, S. J., Liu, T., Furlong, E. E. M. & Liu, Y-H., 2019 Jul 1, In : FEBS Letters. 593, 14, p. 1698-1710 13 p.

Research output: Contribution to journalArticle

Gene Regulatory Networks
Zinc Fingers
Zinc
Hemocytes
Genes
2018
Genomics
Plasmids
Clone Cells
Escherichia coli
Cefixime
5 Citations (Scopus)

Hepatitis B virus surface gene pre-S2 mutant as a high-risk serum marker for hepatoma recurrence after curative hepatic resection

Yen, C. J., Ai, Y. L., Tsai, H. W., Chan, S. H., Yen, C. S., Cheng, K. H., Lee, Y. P., Kao, C. W., Wang, Y. C., Chen, Y. L., Lin, C. H., Liu, T., Tsai, H. P., Wang, J. R., Su, I. J. & Huang, W., 2018 Sep, In : Hepatology. 68, 3, p. 815-826 12 p.

Research output: Contribution to journalArticle

Hepatitis B virus
Hepatocellular Carcinoma
Biomarkers
Recurrence
Surface Antigens
Exome
Frameshift Mutation
Mutation
Genes
Insulin Resistance
2017
3 Citations (Scopus)

Chronic treatment with cisplatin induces chemoresistance through the TIP60-mediated Fanconi anemia and homologous recombination repair pathways

Su, W-P., Ho, Y. C., Wu, C. K., Hsu, S. H., Shiu, J. L., Huang, J. C., Chang, S-B., Chiu, W-T., Hung, J-J., Liu, T., Wu, W-S., Wu, P. Y., Su, W-C., Chang, J-Y. & Liaw, H-J., 2017 Dec 1, In : Scientific reports. 7, 1, 3879.

Research output: Contribution to journalArticle

Fanconi Anemia
Recombinational DNA Repair
Cisplatin
Fanconi Anemia Complementation Group D2 Protein
Genes
2 Citations (Scopus)

Lrp, a global regulator, regulates the virulence of Vibrio vulnificus

Ho, Y. C., Hung, F. R., Weng, C. H., Li, W. T., Chuang, T. H., Liu, T., Lin, C. Y., Lo, C. J., Chen, C. L., Chen, J. W., Hashimoto, M. & Hor, L. I., 2017 Aug 11, In : Journal of biomedical science. 24, 1, 1 p.

Research output: Contribution to journalArticle

Vibrio vulnificus
Virulence
Genes
Chemotaxis
Cytotoxicity
2016
2 Citations (Scopus)
Community-Acquired Infections
Klebsiella pneumoniae
Urinary Tract Infections
Genome
Pandemics
12 Citations (Scopus)

Dissimilatory Arsenate Reduction and In Situ Microbial Activities and Diversity in Arsenic-rich Groundwater of Chianan Plain, Southwestern Taiwan

Das, S., Liu, C. C., Jean, J-S. & Liu, T., 2016 Feb 1, In : Microbial Ecology. 71, 2, p. 365-374 10 p.

Research output: Contribution to journalArticle

arsenates
arsenate
arsenic
microbial activity
Taiwan
1 Citation (Scopus)

TRIg: A robust alignment pipeline for non-regular T-cell receptor and immunoglobulin sequences

Hung, S. J., Chen, Y. L., Chu, C. H., Lee, C. C., Chen, W. L., Lin, Y. L., Lin, M. C., Ho, C-L. & Liu, T., 2016 Oct 26, In : BMC Bioinformatics. 17, 1, 433.

Research output: Contribution to journalArticle

Immunoglobulin
T-cells
T-Cell Antigen Receptor
Recombination
Receptor
2015
2 Citations (Scopus)
Cyanobacteria
Porifera
Genome
Genes
Anthozoa
8 Citations (Scopus)

Highly diversified fungi are associated with the achlorophyllous orchid Gastrodia flavilabella

Liu, T., Li, C. M., Han, Y. L., Chiang, T-Y., Chiang, Y. C. & Sung, H-M., 2015 Mar 14, In : BMC genomics. 16, 1, 185.

Research output: Contribution to journalArticle

Gastrodia
Fungi
Soil
Armillaria
Food
1 Citation (Scopus)

Light-RCV: A lightweight read coverage viewer for next generation sequencing data

Chang, C. W., Lee, W. B., Chen-Deng, A., Liu, T., Tseng, T-C. & Chang, T-H., 2015 Dec 9, In : BMC Bioinformatics. 16, 18, S11.

Research output: Contribution to journalArticle

Sequencing
Coverage
Light
Visualization
Genes
4 Citations (Scopus)

Obtaining long 16S rDNA sequences using multiple primers and its application on dioxin-containing samples

Chen, Y. L., Lee, C. C., Lin, Y. L., Yin, K. M., Ho, C-L. & Liu, T., 2015 Dec 9, In : BMC Bioinformatics. 16, 18, S13.

Research output: Contribution to journalArticle

Dioxins
Ribosomal DNA
Sequencing
Pipelines
Bacteria
2014
18 Citations (Scopus)

AlgaePath: Comprehensive analysis of metabolic pathways using transcript abundance data from next-generation sequencing in green algae

Zheng, H. Q., Chiang-Hsieh, Y. F., Chien, C. H., Hsu, B. K. J., Liu, T., Chen, C. N. N. & Chang, W-C., 2014 Mar 14, In : BMC genomics. 15, 1, 196.

Research output: Contribution to journalArticle

Chlorophyta
Metabolic Networks and Pathways
Genes
Databases
Chlamydomonas reinhardtii
33 Citations (Scopus)

Co-opting sulphur-carrier proteins from primary metabolic pathways for 2-thiosugar biosynthesis

Sasaki, E., Zhang, X., Sun, H. G., Lu, M. Y. J., Liu, T., Ou, A., Li, J. Y., Chen, Y. H., Ealick, S. E. & Liu, H. W., 2014 Jan 1, In : Nature. 510, 7505, p. 427-431 5 p.

Research output: Contribution to journalArticle

Thiosugars
Metabolic Networks and Pathways
Sulfur
Carrier Proteins
Enzymes
22 Citations (Scopus)

Increase of Zinc Finger Protein 179 in Response to CCAAT/Enhancer Binding Protein Delta Conferring an Antiapoptotic Effect in Astrocytes of Alzheimer’s Disease

Wang, S. M., Lee, Y. C., Ko, C. Y., Lai, M. D., Lin, D. Y., Pao, P. C., Chi, J. Y., Hsiao, Y. W., Liu, T. L. & Wang, J. M., 2014 Jan 1, In : Molecular Neurobiology. 51, 1, p. 370-382 13 p.

Research output: Contribution to journalArticle

CCAAT-Enhancer-Binding Protein-delta
Zinc Fingers
Astrocytes
Alzheimer Disease
Proteins
2013
20 Citations (Scopus)

Assembler for de novo assembly of large genomes

Chu, T. C., Lu, C. H., Liu, T., Lee, G. C., Li, W. H. & Shih, A. C. C., 2013 Sep 3, In : Proceedings of the National Academy of Sciences of the United States of America. 110, 36

Research output: Contribution to journalArticle

Genome
Seeds
Technology
Datasets
71 Citations (Scopus)

Effects of GC Bias in Next-Generation-Sequencing Data on De Novo Genome Assembly

Chen, Y. C., Liu, T., Yu, C. H., Chiang, T-Y. & Hwang, C-C., 2013 Apr 29, In : PloS one. 8, 4, e62856.

Research output: Contribution to journalArticle

genome assembly
Genes
Genome
GC Rich Sequence
Base Composition
1 Citation (Scopus)

OMACC: an Optical-Map-Assisted Contig Connector for improving de novo genome assembly.

Chen, Y. M., Yu, C. H., Hwang, C. C. & Liu, T., 2013, In : BMC systems biology. 7 Suppl 6, p. S7

Research output: Contribution to journalArticle

Connector
Genome
Genes
Sequencing
Graph Search
6 Citations (Scopus)

Optimizing Information in Next-Generation-Sequencing (NGS) Reads for Improving De Novo Genome Assembly

Liu, T., Tsai, C. H., Lee, W. B. & Chiang, J. H., 2013 Jul 29, In : PloS one. 8, 7, e69503.

Research output: Contribution to journalArticle

genome assembly
Genes
Genome
DNA
genome
2 Citations (Scopus)

Prediction of personalized microRNA activity

Lee, C. C., Yen, C-J. & Liu, T., 2013 Apr 10, In : Gene. 518, 1, p. 101-106 6 p.

Research output: Contribution to journalArticle

MicroRNAs
Genes
Physiological Phenomena
Pathologic Processes
Liver Neoplasms
2009
4 Citations (Scopus)

GR-Aligner: An algorithm for aligning pairwise genomic sequences containing rearrangement events

Chu, T. C., Liu, T., Lee, D. T., Lee, G. C. & Shih, A. C. C., 2009 Sep 14, In : Bioinformatics. 25, 17, p. 2188-2193 6 p.

Research output: Contribution to journalArticle

Genomic Rearrangements
Sequence Alignment
Rearrangement
Genomics
Pairwise
2008
12 Citations (Scopus)

Genome annotation in the presence of insertional RNA editing

Beargie, C., Liu, T., Corriveau, M., Lee, H. Y., Gott, J. & Bundschuh, R., 2008 Nov 1, In : Bioinformatics. 24, 22, p. 2571-2578 8 p.

Research output: Contribution to journalArticle

RNA Editing
RNA
Annotation
Genome
Genes
159 Citations (Scopus)

Heterogeneous dysregulation of microRNAs across the autism spectrum

Abu-Elneel, K., Liu, T., Gazzaniga, F. S., Nishimura, Y., Wall, D. P., Geschwind, D. H., Lao, K. & Kosik, K. S., 2008 Jul 1, In : Neurogenetics. 9, 3, p. 153-161 9 p.

Research output: Contribution to journalArticle

Autistic Disorder
MicroRNAs
Cerebellar Cortex
Tourette Syndrome
Multiplex Polymerase Chain Reaction
2007
58 Citations (Scopus)

Detection of a microRNA signal in an in vivo expression set of mRNAs

Liu, T., Papagiannakopoulos, T., Puskar, K., Qi, S., Santiago, F., Clay, W., Lao, K., Lee, Y., Nelson, S. F., Komblum, H. I., Doyle, F., Petzold, L., Shraiman, B. & Kosik, K. S., 2007 Aug 29, In : PloS one. 2, 8, e804.

Research output: Contribution to journalArticle

MicroRNAs
microRNA
Messenger RNA
Tumors
neoplasms
136 Citations (Scopus)

Somatodendritic microRNAs identified by laser capture and multiplex RT-PCR

Kye, M. J., Liu, T., Levy, S. F., Nan, L. X., Groves, B. B., Bonneau, R., Lao, K. & Kosik, K. S., 2007 Aug 1, In : RNA. 13, 8, p. 1224-1234 11 p.

Research output: Contribution to journalArticle

MicroRNAs
Reverse Transcription
Lasers
Dendrites
Polymerase Chain Reaction
2005
11 Citations (Scopus)

Model for codon position bias in RNA editing

Liu, T. & Bundschuh, R., 2005 Aug 19, In : Physical review letters. 95, 8, 088101.

Research output: Contribution to journalArticle

editing
proteins
mitochondria
nucleotides
genes
6 Citations (Scopus)
RNA Secondary Structure
Quantification
Averaging
Ensemble
deviation
2004
6 Citations (Scopus)
RNA Secondary Structure
Finite Size Effects
Asymptotic Theory
Scaling Laws
Partition Function