| Year |
Citation |
Score |
| 2020 |
Zhou Y, Cheng X, Yang Y, Li T, Li J, Huang TH, Wang J, Lin S, Jin VX. Modeling and analysis of Hi-C data by HiSIF identifies characteristic promoter-distal loops. Genome Medicine. 12: 69. PMID 32787954 DOI: 10.1186/S13073-020-00769-8 |
0.414 |
|
| 2020 |
Zhang Z, Yu W, Tang D, Zhou Y, Bi M, Wang H, Zheng Y, Chen M, Li L, Xu X, Zhang W, Tao H, Jin VX, Liu Z, Chen L. Epigenomics-Based Identification of Estrogen-regulated Long Noncoding RNAs in ER+ Breast Cancer. Rna Biology. PMID 32506995 DOI: 10.1080/15476286.2020.1777769 |
0.394 |
|
| 2020 |
Bi M, Zhang Z, Jiang YZ, Xue P, Wang H, Lai Z, Fu X, De Angelis C, Gong Y, Gao Z, Ruan J, Jin VX, Marangoni E, Montaudon E, Glass CK, et al. Enhancer reprogramming driven by high-order assemblies of transcription factors promotes phenotypic plasticity and breast cancer endocrine resistance. Nature Cell Biology. PMID 32424275 DOI: 10.1038/S41556-020-0514-Z |
0.411 |
|
| 2020 |
Holloran SM, Nosirov B, Walter KR, Trinca GM, Lai Z, Jin VX, Hagan CR. Reciprocal fine-tuning of progesterone and prolactin-regulated gene expression in breast cancer cells. Molecular and Cellular Endocrinology. 110859. PMID 32407979 DOI: 10.1016/J.Mce.2020.110859 |
0.427 |
|
| 2020 |
Zhou Y, Gerrard DL, Wang J, Li T, Yang Y, Fritz AJ, Rajendran M, Fu X, Stein G, Schiff R, Lin S, Frietze S, Jin VX. Author Correction: Temporal dynamic reorganization of 3D chromatin architecture in hormone-induced breast cancer and endocrine resistance. Nature Communications. 11: 1967. PMID 32313124 DOI: 10.1038/S41467-020-15789-6 |
0.308 |
|
| 2019 |
Zhang X, Wang Y, Chiang HC, Hsieh YP, Lu C, Park BH, Jatoi I, Jin VX, Hu Y, Li R. BRCA1 mutations attenuate super-enhancer function and chromatin looping in haploinsufficient human breast epithelial cells. Breast Cancer Research : Bcr. 21: 51. PMID 30995943 DOI: 10.1186/S13058-019-1132-1 |
0.396 |
|
| 2019 |
Zhou Y, Gerrard DL, Wang J, Li T, Yang Y, Fritz AJ, Rajendran M, Fu X, Schiff R, Lin S, Frietze S, Jin VX. Temporal dynamic reorganization of 3D chromatin architecture in hormone-induced breast cancer and endocrine resistance. Nature Communications. 10: 1522. PMID 30944316 DOI: 10.1038/S41467-019-09320-9 |
0.408 |
|
| 2019 |
Goodman ML, Trinca GM, Walter KR, Papachristou EK, D'Santos CS, Li T, Liu Q, Lai Z, Chalise P, Madan R, Fan F, Markiewicz MA, Jin VX, Carroll JS, Hagan CR. Progesterone Receptor Attenuates STAT1-Mediated IFN Signaling in Breast Cancer. Journal of Immunology (Baltimore, Md. : 1950). PMID 30936295 DOI: 10.4049/Jimmunol.1801152 |
0.38 |
|
| 2018 |
Gerrard DL, Wang Y, Gaddis M, Zhou Y, Wang J, Witt H, Lin S, Farnham PJ, Jin VX, Frietze SE. Three-dimensional analysis reveals altered chromatin interaction by enhancer inhibitors harbors TCF7L2-regulated cancer gene signature. Journal of Cellular Biochemistry. PMID 30548288 DOI: 10.1002/Jcb.27449 |
0.438 |
|
| 2018 |
Polusani SR, Huang YW, Huang G, Chen CW, Wang CM, Lin LL, Osmulski P, Lucio ND, Liu L, Hsu YT, Zhou Y, Lin CL, Aguilera-Barrantes I, Valente PT, Kost ER, ... ... Jin VX, et al. Adipokines Deregulate Cellular Communication via Epigenetic Repression of Gap Junction Loci in Obese Endometrial Cancer. Cancer Research. PMID 30389702 DOI: 10.1158/0008-5472.Can-18-1615 |
0.378 |
|
| 2018 |
Hankey W, Chen Z, Bergman MJ, Fernandez MO, Hancioglu B, Lan X, Jegga AG, Zhang J, Jin VX, Aronow BJ, Wang Q, Groden J. Chromatin-associated APC regulates gene expression in collaboration with canonical WNT signaling and AP-1. Oncotarget. 9: 31214-31230. PMID 30131849 DOI: 10.18632/Oncotarget.25781 |
0.453 |
|
| 2018 |
Chen Z, Wu D, Thomas-Ahner JM, Lu C, Zhao P, Zhang Q, Geraghty C, Yan PS, Hankey W, Sunkel B, Cheng X, Antonarakis ES, Wang QE, Liu Z, Huang TH, ... Jin VX, et al. Diverse AR-V7 cistromes in castration-resistant prostate cancer are governed by HoxB13. Proceedings of the National Academy of Sciences of the United States of America. PMID 29844167 DOI: 10.1073/Pnas.1718811115 |
0.351 |
|
| 2018 |
Li T, Liu Q, Garza N, Kornblau S, Jin VX. Integrative analysis reveals functional and regulatory roles of H3K79me2 in mediating alternative splicing. Genome Medicine. 10: 30. PMID 29665865 DOI: 10.1186/S13073-018-0538-1 |
0.394 |
|
| 2018 |
Wan L, Xu K, Wei Y, Zhang J, Han T, Fry C, Zhang Z, Wang YV, Huang L, Yuan M, Xia W, Chang WC, Huang WC, Liu CL, Chang YC, ... ... Jin VX, et al. Phosphorylation of EZH2 by AMPK Suppresses PRC2 Methyltransferase Activity and Oncogenic Function. Molecular Cell. 69: 279-291.e5. PMID 29351847 DOI: 10.1016/J.Molcel.2017.12.024 |
0.369 |
|
| 2018 |
Horning AM, Lin C, Wang Y, Lieberman B, Mahalingam D, Gao M, Wang P, Wang C, Liu Z, Ruan J, Liss MA, Jin VX, Huang TH, Chen C. Abstract 3402: Castration resistance transcriptome in prostate cancer revealed by single-cell RNA-seq Cancer Research. 78: 3402-3402. DOI: 10.1158/1538-7445.Am2018-3402 |
0.366 |
|
| 2018 |
Goodman M, Trinca G, Walter K, Papachristou E, D'Santos C, Li T, Liu Q, Lai Z, Chalise P, Madan R, Jin V, Carroll J, Hagan C. Abstract 1800: Progesterone receptor attenuates STAT1-mediated interferon signaling in breast cancer Cancer Research. 78: 1800-1800. DOI: 10.1158/1538-7445.Am2018-1800 |
0.396 |
|
| 2017 |
Horning AM, Wang Y, Lin CK, Louie AD, Jadhav RR, Hung CN, Wang CM, Lin CL, Kirma NB, Liss MA, Kumar AP, Sun L, Liu Z, Chao WT, Wang Q, ... Jin VX, et al. Single-cell RNA-seq reveals a subpopulation of prostate cancer cells with enhanced cell cycle-related transcription and attenuated androgen response. Cancer Research. PMID 29233929 DOI: 10.1158/0008-5472.Can-17-1924 |
0.376 |
|
| 2017 |
Tang B, Cheng X, Xi Y, Chen Z, Zhou Y, Jin VX. Advances in Genomic Profiling and Analysis of 3D Chromatin Structure and Interaction. Genes. 8. PMID 28885554 DOI: 10.3390/Genes8090223 |
0.356 |
|
| 2017 |
Walter K, Goodman ML, Singhal H, Hall J, Li T, Holloran S, Trinca G, Gibson K, Jin VX, Greene G, Hagan C. Interferon-Stimulated Genes are Transcriptionally Repressed by PR in Breast Cancer. Molecular Cancer Research : McR. PMID 28684637 DOI: 10.1158/1541-7786.Mcr-17-0180 |
0.424 |
|
| 2017 |
Zhang X, Chiang HC, Wang Y, Zhang C, Smith S, Zhao X, Nair SJ, Michalek J, Jatoi I, Lautner M, Oliver B, Wang H, Petit A, Soler T, Brunet J, ... ... Jin VX, et al. Attenuation of RNA polymerase II pausing mitigates BRCA1-associated R-loop accumulation and tumorigenesis. Nature Communications. 8: 15908. PMID 28649985 DOI: 10.1038/Ncomms15908 |
0.336 |
|
| 2017 |
Tang B, Zhou Y, Wang CM, Huang TH, Jin VX. Integration of DNA methylation and gene transcription across nineteen cell types reveals cell type-specific and genomic region-dependent regulatory patterns. Scientific Reports. 7: 3626. PMID 28620196 DOI: 10.1038/S41598-017-03837-Z |
0.411 |
|
| 2017 |
Jadhav RR, Santucci-Pereira J, Wang YV, Liu J, Nguyen TD, Wang J, Jenkins S, Russo J, Huang TH, Jin VX, Lamartiniere CA. DNA Methylation Targets Influenced by Bisphenol A and/or Genistein Are Associated with Survival Outcomes in Breast Cancer Patients. Genes. 8. PMID 28505145 DOI: 10.3390/Genes8050144 |
0.376 |
|
| 2017 |
Liu Q, Bonneville R, Li T, Jin VX. Transcription factor-associated combinatorial epigenetic pattern reveals higher transcriptional activity of TCF7L2-regulated intragenic enhancers. Bmc Genomics. 18: 375. PMID 28499350 DOI: 10.1186/S12864-017-3764-9 |
0.425 |
|
| 2017 |
Hsu YT, Osmulski P, Wang Y, Huang YW, Liu L, Ruan J, Jin VX, Kirma NB, Gaczynska ME, Huang TH. EGFR-Dependent Regulated Intramembrane Proteolysis of EpCAM-Response. Cancer Research. PMID 28330931 DOI: 10.1158/0008-5472.Can-16-3440 |
0.321 |
|
| 2017 |
Wang J, Ye Z, Huang TH, Shi H, Jin VX. Computational Methods and Correlation of Exon-skipping Events with Splicing, Transcription, and Epigenetic Factors. Methods in Molecular Biology (Clifton, N.J.). 1513: 163-170. PMID 27807836 DOI: 10.1007/978-1-4939-6539-7_11 |
0.434 |
|
| 2016 |
Wang Y, Wang R, Jin VX. Inference of hierarchical regulatory network of TCF7L2 binding sites in MCF7 cell line. International Journal of Computational Biology and Drug Design. 9: 25-53. PMID 28066512 DOI: 10.1504/Ijcbdd.2016.074990 |
0.453 |
|
| 2016 |
Qin Z, Li B, Conneely KN, Wu H, Hu M, Ayyala D, Park Y, Jin VX, Zhang F, Zhang H, Li L, Lin S. Statistical challenges in analyzing methylation and long-range chromosomal interaction data. Statistics in Biosciences. 8: 284-309. PMID 28008337 DOI: 10.1007/S12561-016-9145-0 |
0.341 |
|
| 2016 |
Jadhav RR, Wang YV, Hsu YT, Liu J, Garcia D, Lai Z, Huang TH, Jin VX. Methyl-binding DNA capture Sequencing for Patient Tissues. Journal of Visualized Experiments : Jove. PMID 27842364 DOI: 10.3791/54131 |
0.382 |
|
| 2016 |
Hsu YT, Osmulski P, Wang Y, Huang YW, Liu L, Ruan J, Jin VX, Kirma NB, Gaczynska ME, Huang TH. EpCAM-Regulated Transcription Exerts Influences on Nanomechanical Properties of Endometrial Cancer Cells that Promote Epithelial-to-Mesenchymal Transition. Cancer Research. PMID 27569206 DOI: 10.1158/0008-5472.Can-16-0752 |
0.444 |
|
| 2016 |
Ye Z, Chen Z, Sunkel B, Frietze S, Huang TH, Wang Q, Jin VX. Genome-wide analysis reveals positional-nucleosome-oriented binding pattern of pioneer factor FOXA1. Nucleic Acids Research. PMID 27458208 DOI: 10.1093/Nar/Gkw659 |
0.414 |
|
| 2016 |
Nair SJ, Zhang X, Chiang HC, Jahid MJ, Wang Y, Garza P, April C, Salathia N, Banerjee T, Alenazi FS, Ruan J, Fan JB, Parvin JD, Jin VX, Hu Y, et al. Genetic suppression reveals DNA repair-independent antagonism between BRCA1 and COBRA1 in mammary gland development. Nature Communications. 7: 10913. PMID 26941120 DOI: 10.1038/Ncomms10913 |
0.392 |
|
| 2016 |
Wang Y, Jadhav RR, Liu J, Wilson D, Chen Y, Thompson IM, Troyer DA, Hernandez J, Shi H, Leach RJ, Huang TH, Jin VX. Roles of Distal and Genic Methylation in the Development of Prostate Tumorigenesis Revealed by Genome-wide DNA Methylation Analysis. Scientific Reports. 6: 22051. PMID 26924343 DOI: 10.1038/Srep22051 |
0.392 |
|
| 2016 |
Sunkel B, Wu D, Chen Z, Wang CM, Liu X, Ye Z, Horning AM, Liu J, Mahalingam D, Lopez-Nicora H, Lin CL, Goodfellow PJ, Clinton SK, Jin VX, Chen CL, et al. Integrative analysis identifies targetable CREB1/FoxA1 transcriptional co-regulation as a predictor of prostate cancer recurrence. Nucleic Acids Research. PMID 26743006 DOI: 10.1093/Nar/Gkv1528 |
0.39 |
|
| 2016 |
Clark A, Oldenbroek M, Wang Y, Spaeth J, Gao F, Jin VX, Boyer T. Abstract 4607: Mediator kinase module as a transducer of oncogenic Wnt/beta-catenin signaling Cancer Research. 76: 4607-4607. DOI: 10.1158/1538-7445.Am2016-4607 |
0.341 |
|
| 2016 |
Zhang X, Nair SJ, Chiang H, Wang Y, Jahid J, Ruan J, Jin VX, Hu Y, Li R. Abstract 2874: Genetic suppression reveals DNA repair-independent antagonism between BRCA1 and COBRA1 in mammary gland development Cancer Research. 76: 2874-2874. DOI: 10.1158/1538-7445.Am2016-2874 |
0.388 |
|
| 2016 |
Hsu Y, Osmulski PA, Wang Y, Huang Y, Liu L, Ruan J, Jin VX, Kirma NB, Gaczynska ME, Huang THM. Abstract 2871: Dual role of EpCAM cleavage in adhesion attenuation and transcription enhancement for cell migration Cancer Research. 76: 2871-2871. DOI: 10.1158/1538-7445.Am2016-2871 |
0.329 |
|
| 2015 |
Zhao Z, Jin VX, Huang Y, Guda C, Ruan J. Frontiers in Integrative Genomics and Translational Bioinformatics. Biomed Research International. 2015: 725491. PMID 26605336 DOI: 10.1155/2015/725491 |
0.323 |
|
| 2015 |
Chen Z, Lan X, Wu D, Sunkel B, Ye Z, Huang J, Liu Z, Clinton SK, Jin VX, Wang Q. Ligand-dependent genomic function of glucocorticoid receptor in triple-negative breast cancer. Nature Communications. 6: 8323. PMID 26374485 DOI: 10.1038/Ncomms9323 |
0.424 |
|
| 2015 |
Horning AM, Awe JA, Wang CM, Liu J, Lai Z, Wang VY, Jadhav RR, Louie AD, Lin CL, Kroczak T, Chen Y, Jin VX, Abboud-Werner SL, Leach RJ, Hernandez J, et al. DNA methylation screening of primary prostate tumors identifies SRD5A2 and CYP11A1 as candidate markers for assessing risk of biochemical recurrence. The Prostate. PMID 26332453 DOI: 10.1002/Pros.23052 |
0.344 |
|
| 2015 |
Hsu PY, Hsu HK, Hsiao TH, Ye Z, Wang E, Profit AL, Jatoi I, Chen Y, Kirma NB, Jin VX, Sharp ZD, Huang TH. Spatiotemporal control of estrogen-responsive transcription in ERα-positive breast cancer cells. Oncogene. PMID 26300005 DOI: 10.1038/Onc.2015.298 |
0.463 |
|
| 2015 |
He H, Li W, Liyanarachchi S, Srinivas M, Wang Y, Akagi K, Wang Y, Wu D, Wang Q, Jin V, Symer DE, Shen R, Phay J, Nagy R, de la Chapelle A. Multiple functional variants in long-range enhancer elements contribute to the risk of SNP rs965513 in thyroid cancer. Proceedings of the National Academy of Sciences of the United States of America. 112: 6128-33. PMID 25918370 DOI: 10.1073/Pnas.1506255112 |
0.304 |
|
| 2015 |
Jadhav RR, Ye Z, Huang RL, Liu J, Hsu PY, Huang YW, Rangel LB, Lai HC, Roa JC, Kirma NB, Huang TH, Jin VX. Genome-wide DNA methylation analysis reveals estrogen-mediated epigenetic repression of metallothionein-1 gene cluster in breast cancer. Clinical Epigenetics. 7: 13. PMID 25763113 DOI: 10.1186/S13148-015-0045-9 |
0.418 |
|
| 2015 |
Wang J, Ye Z, Huang TH, Shi H, Jin V. A survey of computational methods in transcriptome-wide alternative splicing analysis. Biomolecular Concepts. 6: 59-66. PMID 25719337 DOI: 10.1515/Bmc-2014-0040 |
0.352 |
|
| 2015 |
Chen Z, Lan X, Thomas-Ahner JM, Wu D, Liu X, Ye Z, Wang L, Sunkel B, Grenade C, Chen J, Zynger DL, Yan PS, Huang J, Nephew KP, Huang TH, ... ... Jin VX, et al. Agonist and antagonist switch DNA motifs recognized by human androgen receptor in prostate cancer. The Embo Journal. 34: 502-16. PMID 25535248 DOI: 10.15252/Embj.201490306 |
0.389 |
|
| 2015 |
Hsu P, Hsu H, Chen Y, Jin VX, Sharp ZD, Huang TH. Abstract P6-07-02: Amplified DERE-mediated epigenetic repression in ERα-mediated breast tumorigenesis Cancer Research. 75. DOI: 10.1158/1538-7445.Sabcs14-P6-07-02 |
0.479 |
|
| 2015 |
Hsu P, Hsu H, Jin VX, Sharp ZD, Huang TH-. Abstract 4778: HP1-mediated spatiotemporal control of estrogen-responsive transcription in breast cancer cells Cancer Research. 75: 4778-4778. DOI: 10.1158/1538-7445.Am2015-4778 |
0.367 |
|
| 2015 |
Meng W, Lautenschlaeger T, Frankhouser D, Ye Z, Huebner A, Jin V, Yan P, Chakravarti A. Abstract 2963: 5-hydroxymethylcytosine alterations at H3K9me3 marked genomic regions serve as potential biomarker for renal cell carcinoma patients Cancer Research. 75: 2963-2963. DOI: 10.1158/1538-7445.Am2015-2963 |
0.311 |
|
| 2014 |
Wu D, Sunkel B, Chen Z, Liu X, Ye Z, Li Q, Grenade C, Ke J, Zhang C, Chen H, Nephew KP, Huang TH, Liu Z, Jin VX, Wang Q. Three-tiered role of the pioneer factor GATA2 in promoting androgen-dependent gene expression in prostate cancer. Nucleic Acids Research. 42: 3607-22. PMID 24423874 DOI: 10.1093/Nar/Gkt1382 |
0.416 |
|
| 2014 |
Ye Z, Chen Z, Lan X, Hara S, Sunkel B, Huang TH, Elnitski L, Wang Q, Jin VX. Computational analysis reveals a correlation of exon-skipping events with splicing, transcription and epigenetic factors. Nucleic Acids Research. 42: 2856-69. PMID 24369421 DOI: 10.1093/Nar/Gkt1338 |
0.401 |
|
| 2014 |
Hsu P, Hsu H, Jin VX, Sharp ZD, Huang TH-. Abstract 4783: Amplification of distant estrogen response elements epigenetically deregulates target genes in ERα-mediated breast tumorigenesis Cancer Research. 74: 4783-4783. DOI: 10.1158/1538-7445.Am2014-4783 |
0.483 |
|
| 2014 |
Hsu H, Hsu P, Wang Y, Sharp ZD, Huang TH-, Jin VX. Abstract 3341: Cross-talk between PI3K/AKT and ERα signaling leads to STAT3/6-modulated epigenetic transcription in aggressive breast cancer Cancer Research. 74: 3341-3341. DOI: 10.1158/1538-7445.Am2014-3341 |
0.419 |
|
| 2014 |
Sunkel BD, Wu D, Liu X, Ye Z, Jin V, Wang Q. Abstract 1387: Convergent CREB1/FoxA1 transcriptional activity defines castration-resistant prostate cancer gene expression profile Cancer Research. 74: 1387-1387. DOI: 10.1158/1538-7445.Am2014-1387 |
0.452 |
|
| 2014 |
Hsu Y, Gu F, Huang Y, Liu J, Ruan J, Huang R, Wang C, Chen C, Jadhav RR, Wang Y, Jin VX, Lai H, Mutch DG, Goodfellow PJ, Thompson IM, et al. Abstract 1376: EpCAM-mediated hypomethylation of BMP and cell adhesion genes is associated with advanced endometrial cancer Cancer Research. 74: 1376-1376. DOI: 10.1158/1538-7445.Am2014-1376 |
0.462 |
|
| 2013 |
Miuma S, Saldivar JC, Karras JR, Waters CE, Paisie CA, Wang Y, Jin V, Sun J, Druck T, Zhang J, Huebner K. Fhit deficiency-induced global genome instability promotes mutation and clonal expansion. Plos One. 8: e80730. PMID 24244712 DOI: 10.1371/Journal.Pone.0080730 |
0.343 |
|
| 2013 |
Hsu PY, Hsu HK, Lan X, Juan L, Yan PS, Labanowska J, Heerema N, Hsiao TH, Chiu YC, Chen Y, Liu Y, Li L, Li R, Thompson IM, Nephew KP, ... ... Jin VX, et al. Amplification of distant estrogen response elements deregulates target genes associated with tamoxifen resistance in breast cancer. Cancer Cell. 24: 197-212. PMID 23948299 DOI: 10.1016/J.Ccr.2013.07.007 |
0.419 |
|
| 2013 |
Wang R, Hsu HK, Blattler A, Wang Y, Lan X, Wang Y, Hsu PY, Leu YW, Huang TH, Farnham PJ, Jin VX. LOcating non-unique matched tags (LONUT) to improve the detection of the enriched regions for ChIP-seq data. Plos One. 8: e67788. PMID 23825685 DOI: 10.1371/Journal.Pone.0067788 |
0.346 |
|
| 2013 |
Blattler A, Yao L, Wang Y, Ye Z, Jin VX, Farnham PJ. ZBTB33 binds unmethylated regions of the genome associated with actively expressed genes. Epigenetics & Chromatin. 6: 13. PMID 23693142 DOI: 10.1186/1756-8935-6-13 |
0.39 |
|
| 2013 |
He H, Li W, Wu D, Nagy R, Liyanarachchi S, Akagi K, Jendrzejewski J, Jiao H, Hoag K, Wen B, Srinivas M, Waidyaratne G, Wang R, Wojcicka A, Lattimer IR, ... ... Jin V, et al. Ultra-rare mutation in long-range enhancer predisposes to thyroid carcinoma with high penetrance. Plos One. 8: e61920. PMID 23690926 DOI: 10.1371/Journal.Pone.0061920 |
0.313 |
|
| 2013 |
Wang J, Lan X, Hsu PY, Hsu HK, Huang K, Parvin J, Huang TH, Jin VX. Genome-wide analysis uncovers high frequency, strong differential chromosomal interactions and their associated epigenetic patterns in E2-mediated gene regulation. Bmc Genomics. 14: 70. PMID 23368971 DOI: 10.1186/1471-2164-14-70 |
0.369 |
|
| 2013 |
Tang B, Hsu PY, Huang TH, Jin VX. Cancer omics: from regulatory networks to clinical outcomes. Cancer Letters. 340: 277-83. PMID 23201140 DOI: 10.1016/J.Canlet.2012.11.033 |
0.355 |
|
| 2013 |
Bonneville R, Jin VX. A hidden Markov model to identify combinatorial epigenetic regulation patterns for estrogen receptor α target genes. Bioinformatics (Oxford, England). 29: 22-8. PMID 23104890 DOI: 10.1093/Bioinformatics/Bts639 |
0.426 |
|
| 2013 |
Tretyakov K, Goldberg T, Jin VX, Horton P. Summary of talks and papers at ISCB-Asia/SCCG 2012 Bmc Genomics. 14: 1-7. DOI: 10.1186/1471-2164-14-S2-I1 |
0.341 |
|
| 2013 |
Hankey W, McIlhatton MA, Lan X, Jegga AG, Jin VX, Aronow BJ, Groden J. Abstract A21: Direct transcriptional functions of the APC tumor suppressor in regulating gene expression Cancer Research. 73. DOI: 10.1158/1538-7445.Fbcr13-A21 |
0.434 |
|
| 2012 |
Tang B, Hsu HK, Hsu PY, Bonneville R, Chen SS, Huang TH, Jin VX. Hierarchical modularity in ERα transcriptional network is associated with distinct functions and implicates clinical outcomes. Scientific Reports. 2: 875. PMID 23166858 DOI: 10.1038/Srep00875 |
0.397 |
|
| 2012 |
Chen HZ, Ouseph MM, Li J, Pécot T, Chokshi V, Kent L, Bae S, Byrne M, Duran C, Comstock G, Trikha P, Mair M, Senapati S, Martin CK, Gandhi S, ... ... Jin V, et al. Canonical and atypical E2Fs regulate the mammalian endocycle. Nature Cell Biology. 14: 1192-202. PMID 23064266 DOI: 10.1038/Ncb2595 |
0.378 |
|
| 2012 |
Lan X, Farnham PJ, Jin VX. Uncovering transcription factor modules using one- and three-dimensional analyses. The Journal of Biological Chemistry. 287: 30914-21. PMID 22952238 DOI: 10.1074/Jbc.R111.309229 |
0.378 |
|
| 2012 |
Frietze S, Wang R, Yao L, Tak YG, Ye Z, Gaddis M, Witt H, Farnham PJ, Jin VX. Cell type-specific binding patterns reveal that TCF7L2 can be tethered to the genome by association with GATA3. Genome Biology. 13: R52. PMID 22951069 DOI: 10.1186/Gb-2012-13-9-R52 |
0.434 |
|
| 2012 |
Lan X, Witt H, Katsumura K, Ye Z, Wang Q, Bresnick EH, Farnham PJ, Jin VX. Integration of Hi-C and ChIP-seq data reveals distinct types of chromatin linkages. Nucleic Acids Research. 40: 7690-704. PMID 22675074 DOI: 10.1093/Nar/Gks501 |
0.411 |
|
| 2012 |
Kennedy BA, Lan X, Huang TH, Farnham PJ, Jin VX. Using ChIPMotifs for de novo motif discovery of OCT4 and ZNF263 based on ChIP-based high-throughput experiments. Methods in Molecular Biology (Clifton, N.J.). 802: 323-34. PMID 22130890 DOI: 10.1007/978-1-61779-400-1_21 |
0.344 |
|
| 2012 |
Wang L, Huang Y, Gu F, Kuo C, Seguin C, Stoner K, Hasson H, Sardo CL, Huang T, Jin V, Burke CA, Stoner G. Abstract 1009: Regression of rectal polyps in familial adenomatous polyposis patients by freeze-dried black raspberries is associated with the demethylation and reactivation of tumor suppressor genes Cancer Research. 72: 1009-1009. DOI: 10.1158/1538-7445.Am2012-1009 |
0.362 |
|
| 2011 |
Kennedy BA, Deatherage DE, Gu F, Tang B, Chan MW, Nephew KP, Huang TH, Jin VX. ChIP-seq defined genome-wide map of TGFβ/SMAD4 targets: implications with clinical outcome of ovarian cancer. Plos One. 6: e22606. PMID 21799915 DOI: 10.1371/Journal.Pone.0022606 |
0.438 |
|
| 2011 |
Lan X, Adams C, Landers M, Dudas M, Krissinger D, Marnellos G, Bonneville R, Xu M, Wang J, Huang TH, Meredith G, Jin VX. High resolution detection and analysis of CpG dinucleotides methylation using MBD-Seq technology. Plos One. 6: e22226. PMID 21779396 DOI: 10.1371/Journal.Pone.0022226 |
0.342 |
|
| 2011 |
Teng IW, Hou PC, Lee KD, Chu PY, Yeh KT, Jin VX, Tseng MJ, Tsai SJ, Chang YS, Wu CS, Sun HS, Tsai KD, Jeng LB, Nephew KP, Huang TH, et al. Targeted methylation of two tumor suppressor genes is sufficient to transform mesenchymal stem cells into cancer stem/initiating cells. Cancer Research. 71: 4653-63. PMID 21518779 DOI: 10.1158/0008-5472.Can-10-3418 |
0.331 |
|
| 2011 |
Iyengar S, Ivanov AV, Jin VX, Rauscher FJ, Farnham PJ. Functional analysis of KAP1 genomic recruitment. Molecular and Cellular Biology. 31: 1833-47. PMID 21343339 DOI: 10.1128/Mcb.01331-10 |
0.441 |
|
| 2011 |
Cao AR, Rabinovich R, Xu M, Xu X, Jin VX, Farnham PJ. Genome-wide analysis of transcription factor E2F1 mutant proteins reveals that N- and C-terminal protein interaction domains do not participate in targeting E2F1 to the human genome. The Journal of Biological Chemistry. 286: 11985-96. PMID 21310950 DOI: 10.1074/Jbc.M110.217158 |
0.357 |
|
| 2011 |
Zuo T, Liu TM, Lan X, Weng YI, Shen R, Gu F, Huang YW, Liyanarachchi S, Deatherage DE, Hsu PY, Taslim C, Ramaswamy B, Shapiro CL, Lin HJ, Cheng AS, ... Jin VX, et al. Epigenetic silencing mediated through activated PI3K/AKT signaling in breast cancer. Cancer Research. 71: 1752-62. PMID 21216892 DOI: 10.1158/0008-5472.Can-10-3573 |
0.41 |
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| 2010 |
Frietze S, O'Geen H, Blahnik KR, Jin VX, Farnham PJ. ZNF274 recruits the histone methyltransferase SETDB1 to the 3' ends of ZNF genes. Plos One. 5: e15082. PMID 21170338 DOI: 10.1371/Journal.Pone.0015082 |
0.446 |
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| 2010 |
Gu F, Hsu HK, Hsu PY, Wu J, Ma Y, Parvin J, Huang TH, Jin VX. Inference of hierarchical regulatory network of estrogen-dependent breast cancer through ChIP-based data. Bmc Systems Biology. 4: 170. PMID 21167036 DOI: 10.1186/1752-0509-4-170 |
0.432 |
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| 2010 |
Hsiao SH, Lee KD, Hsu CC, Tseng MJ, Jin VX, Sun WS, Hung YC, Yeh KT, Yan PS, Lai YY, Sun HS, Lu YJ, Chang YS, Tsai SJ, Huang TH, et al. DNA methylation of the Trip10 promoter accelerates mesenchymal stem cell lineage determination. Biochemical and Biophysical Research Communications. 400: 305-12. PMID 20727853 DOI: 10.1016/J.Bbrc.2010.08.048 |
0.37 |
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| 2010 |
Bapat SA, Jin V, Berry N, Balch C, Sharma N, Kurrey N, Zhang S, Fang F, Lan X, Li M, Kennedy B, Bigsby RM, Huang TH, Nephew KP. Multivalent epigenetic marks confer microenvironment-responsive epigenetic plasticity to ovarian cancer cells. Epigenetics. 5: 716-29. PMID 20676026 DOI: 10.4161/Epi.5.8.13014 |
0.443 |
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| 2010 |
Frietze S, Lan X, Jin VX, Farnham PJ. Genomic targets of the KRAB and SCAN domain-containing zinc finger protein 263. The Journal of Biological Chemistry. 285: 1393-403. PMID 19887448 DOI: 10.1074/Jbc.M109.063032 |
0.419 |
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| 2010 |
Kennedy BA, Gao W, Huang TH, Jin VX. HRTBLDb: an informative data resource for hormone receptors target binding loci. Nucleic Acids Research. 38: D676-81. PMID 19773424 DOI: 10.1093/Nar/Gkp734 |
0.343 |
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| 2009 |
Chen SS, Raval A, Johnson AJ, Hertlein E, Liu TH, Jin VX, Sherman MH, Liu SJ, Dawson DW, Williams KE, Lanasa M, Liyanarachchi S, Lin TS, Marcucci G, Pekarsky Y, et al. Epigenetic changes during disease progression in a murine model of human chronic lymphocytic leukemia. Proceedings of the National Academy of Sciences of the United States of America. 106: 13433-8. PMID 19666576 DOI: 10.1073/Pnas.0906455106 |
0.406 |
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| 2009 |
Tran QT, Xu L, Phan V, Goodwin SB, Rahman M, Jin VX, Sutter CH, Roebuck BD, Kensler TW, George EO, Sutter TR. Chemical genomics of cancer chemopreventive dithiolethiones. Carcinogenesis. 30: 480-6. PMID 19126641 DOI: 10.1093/Carcin/Bgn292 |
0.339 |
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| 2008 |
Cotterman R, Jin VX, Krig SR, Lemen JM, Wey A, Farnham PJ, Knoepfler PS. N-Myc regulates a widespread euchromatic program in the human genome partially independent of its role as a classical transcription factor. Cancer Research. 68: 9654-62. PMID 19047142 DOI: 10.1158/0008-5472.Can-08-1961 |
0.457 |
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| 2008 |
Rabinovich A, Jin VX, Rabinovich R, Xu X, Farnham PJ. E2F in vivo binding specificity: comparison of consensus versus nonconsensus binding sites. Genome Research. 18: 1763-77. PMID 18836037 DOI: 10.1101/Gr.080622.108 |
0.358 |
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| 2008 |
Jin V, Rabinovich A, O'Geen H, Iyengar S, Farnham P. De novo identification of in vivo binding sites from ChIP-chip data Bmc Bioinformatics. 9. DOI: 10.1186/1471-2105-9-S7-P24 |
0.413 |
|
| 2007 |
Xu X, Bieda M, Jin VX, Rabinovich A, Oberley MJ, Green R, Farnham PJ. A comprehensive ChIP-chip analysis of E2F1, E2F4, and E2F6 in normal and tumor cells reveals interchangeable roles of E2F family members. Genome Research. 17: 1550-61. PMID 17908821 DOI: 10.1101/Gr.6783507 |
0.407 |
|
| 2007 |
Cheng YY, Yu J, Wong YP, Man EP, To KF, Jin VX, Li J, Tao Q, Sung JJ, Chan FK, Leung WK. Frequent epigenetic inactivation of secreted frizzled-related protein 2 (SFRP2) by promoter methylation in human gastric cancer. British Journal of Cancer. 97: 895-901. PMID 17848950 DOI: 10.1038/Sj.Bjc.6603968 |
0.317 |
|
| 2007 |
Jin VX, O'Geen H, Iyengar S, Green R, Farnham PJ. Identification of an OCT4 and SRY regulatory module using integrated computational and experimental genomics approaches. Genome Research. 17: 807-17. PMID 17567999 DOI: 10.1101/Gr.6006107 |
0.408 |
|
| 2007 |
Krig SR, Jin VX, Bieda MC, O'Geen H, Yaswen P, Green R, Farnham PJ. Identification of genes directly regulated by the oncogene ZNF217 using chromatin immunoprecipitation (ChIP)-chip assays. The Journal of Biological Chemistry. 282: 9703-12. PMID 17259635 DOI: 10.1074/Jbc.M611752200 |
0.444 |
|
| 2007 |
Jin VX, Turcotte M. Detecting localized interspersed motifs in genomic sequences Ieee Transactions On Instrumentation and Measurement. 56: 1770-1775. DOI: 10.1109/Tim.2007.903606 |
0.341 |
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| 2006 |
Elnitski L, Jin VX, Farnham PJ, Jones SJ. Locating mammalian transcription factor binding sites: a survey of computational and experimental techniques. Genome Research. 16: 1455-64. PMID 17053094 DOI: 10.1101/Gr.4140006 |
0.399 |
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| 2006 |
Jin VX, Rabinovich A, Squazzo SL, Green R, Farnham PJ. A computational genomics approach to identify cis-regulatory modules from chromatin immunoprecipitation microarray data--a case study using E2F1. Genome Research. 16: 1585-95. PMID 17053090 DOI: 10.1101/Gr.5520206 |
0.424 |
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| 2006 |
Li L, Cheng AS, Jin VX, Paik HH, Fan M, Li X, Zhang W, Robarge J, Balch C, Davuluri RV, Kim S, Huang TH, Nephew KP. A mixture model-based discriminate analysis for identifying ordered transcription factor binding site pairs in gene promoters directly regulated by estrogen receptor-alpha. Bioinformatics (Oxford, England). 22: 2210-6. PMID 16809387 DOI: 10.1093/Bioinformatics/Btl329 |
0.377 |
|
| 2006 |
Squazzo SL, O'Geen H, Komashko VM, Krig SR, Jin VX, Jang SW, Margueron R, Reinberg D, Green R, Farnham PJ. Suz12 binds to silenced regions of the genome in a cell-type-specific manner. Genome Research. 16: 890-900. PMID 16751344 DOI: 10.1101/Gr.5306606 |
0.422 |
|
| 2006 |
Jin VX, Singer GA, Agosto-Pérez FJ, Liyanarachchi S, Davuluri RV. Genome-wide analysis of core promoter elements from conserved human and mouse orthologous pairs. Bmc Bioinformatics. 7: 114. PMID 16522199 DOI: 10.1186/1471-2105-7-114 |
0.324 |
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| 2006 |
Cheng AS, Jin VX, Fan M, Smith LT, Liyanarachchi S, Yan PS, Leu YW, Chan MW, Plass C, Nephew KP, Davuluri RV, Huang TH. Combinatorial analysis of transcription factor partners reveals recruitment of c-MYC to estrogen receptor-alpha responsive promoters. Molecular Cell. 21: 393-404. PMID 16455494 DOI: 10.1016/J.Molcel.2005.12.016 |
0.414 |
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| 2006 |
Sun H, Palaniswamy SK, Pohar TT, Jin VX, Huang TH, Davuluri RV. MPromDb: an integrated resource for annotation and visualization of mammalian gene promoters and ChIP-chip experimental data. Nucleic Acids Research. 34: D98-103. PMID 16381984 DOI: 10.1093/Nar/Gkj096 |
0.418 |
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| 2005 |
Jin VX, Sun H, Pohar TT, Liyanarachchi S, Palaniswamy SK, Huang TH, Davuluri RV. ERTargetDB: an integral information resource of transcription regulation of estrogen receptor target genes. Journal of Molecular Endocrinology. 35: 225-30. PMID 16216904 DOI: 10.1677/Jme.1.01839 |
0.384 |
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| 2005 |
Palaniswamy SK, Jin VX, Sun H, Davuluri RV. OMGProm: a database of orthologous mammalian gene promoters. Bioinformatics (Oxford, England). 21: 835-6. PMID 15531605 DOI: 10.1093/Bioinformatics/Bti119 |
0.36 |
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| 2005 |
Jin VX, Macartney DH, Buncel E. α- and β-Cyclodextrin [2]rotaxanes with (diethylenetriamine)platinum(II) stoppers Canadian Journal of Chemistry. 83: 2091-2097. DOI: 10.1139/V05-226 |
0.425 |
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| 2005 |
Jin VX, Macartney DH, Buncel E. Kinetic and spectroscopic studies on α- and β-cyclodextrin rotaxanes with (µ-N,N′- bis(4-pyridinylmethylene)-α,ω-alkanediimine)bis[pentacyanoferrate(II)] threads Canadian Journal of Chemistry. 83: 195-201. DOI: 10.1139/V05-019 |
0.427 |
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| 2005 |
Jin VX, Macartney DH, Buncel E. Assembly and Dissociation of Α-Cyclodextrin [2]Pseudorotaxanes with α,ω-Bis(N-(N,N′-dimethylethylenediamine)alkane Threads Journal of Inclusion Phenomena and Macrocyclic Chemistry. 53: 197-203. DOI: 10.1007/S10847-005-2065-0 |
0.424 |
|
| 2004 |
Jin VX, Leu YW, Liyanarachchi S, Sun H, Fan M, Nephew KP, Huang TH, Davuluri RV. Identifying estrogen receptor alpha target genes using integrated computational genomics and chromatin immunoprecipitation microarray. Nucleic Acids Research. 32: 6627-35. PMID 15608294 DOI: 10.1093/Nar/Gkh1005 |
0.441 |
|
| 2004 |
Leu YW, Yan PS, Fan M, Jin VX, Liu JC, Curran EM, Welshons WV, Wei SH, Davuluri RV, Plass C, Nephew KP, Huang TH. Loss of estrogen receptor signaling triggers epigenetic silencing of downstream targets in breast cancer. Cancer Research. 64: 8184-92. PMID 15548683 DOI: 10.1158/0008-5472.Can-04-2045 |
0.443 |
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