Yunlong Liu, Ph.D. - Publications

2004 Purdue University, West Lafayette, IN, United States 
Biomedical Engineering, Genetics

108 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Lai D, Schwantes-An TH, Abreu M, Chan G, Hesselbrock V, Kamarajan C, Liu Y, Meyers JL, Nurnberger JI, Plawecki MH, Wetherill L, Schuckit M, Zhang P, Edenberg HJ, Porjesz B, et al. Gene-based polygenic risk scores analysis of alcohol use disorder in African Americans. Translational Psychiatry. 12: 266. PMID 35790736 DOI: 10.1038/s41398-022-02029-2  0.635
2022 Lai D, Johnson EC, Colbert S, Pandey G, Chan G, Bauer L, Francis MW, Hesselbrock V, Kamarajan C, Kramer J, Kuang W, Kuo S, Kuperman S, Liu Y, McCutcheon V, et al. Evaluating risk for alcohol use disorder: Polygenic risk scores and family history. Alcoholism, Clinical and Experimental Research. 46: 374-383. PMID 35267208 DOI: 10.1111/acer.14772  0.582
2020 Liu J, Dong C, Jiang G, Lu X, Liu Y, Wu H. Transcription factor expression as a predictor of colon cancer prognosis: a machine learning practice. Bmc Medical Genomics. 13: 135. PMID 32957968 DOI: 10.1186/S12920-020-00775-0  0.336
2020 Bhat-Nakshatri P, Kumar B, Simpson E, Ludwig KK, Cox ML, Gao H, Liu Y, Nakshatri H. Breast cancer cell detection and characterization from breast milk-derived cells. Cancer Research. PMID 32934021 DOI: 10.1158/0008-5472.Can-20-1030  0.312
2020 Xu S, Feng W, Lu Z, Yu CY, Shao W, Nakshatri H, Reiter JL, Gao H, Chu X, Wang Y, Liu Y. regSNPs-ASB: A Computational Framework for Identifying Allele-Specific Transcription Factor Binding From ATAC-seq Data. Frontiers in Bioengineering and Biotechnology. 8: 886. PMID 32850739 DOI: 10.3389/Fbioe.2020.00886  0.368
2020 Dirks RC, Burney HN, Anjanappa M, Sandusky GE, Hao Y, Liu Y, Schmidt MC, Nakshatri H. Breast Heterogeneity: Obstacles to Developing Universal Biomarkers of Breast Cancer Initiation and Progression. Journal of the American College of Surgeons. PMID 32311464 DOI: 10.1016/J.Jamcollsurg.2020.03.035  0.352
2020 Wang Y, Chen SX, Rao X, Liu Y. Modulator-Dependent RBPs Changes Alternative Splicing Outcomes in Kidney Cancer. Frontiers in Genetics. 11: 265. PMID 32273884 DOI: 10.3389/Fgene.2020.00265  0.351
2020 Dong C, Liu J, Chen SX, Dong T, Jiang G, Wang Y, Wu H, Reiter JL, Liu Y. Highly robust model of transcription regulator activity predicts breast cancer overall survival. Bmc Medical Genomics. 13: 49. PMID 32241272 DOI: 10.1186/S12920-020-0688-Z  0.311
2020 Victorino JF, Fox MJ, Smith-Kinnaman WR, Peck Justice SA, Burriss KH, Boyd AK, Zimmerly MA, Chan RR, Hunter GO, Liu Y, Mosley AL. RNA Polymerase II CTD phosphatase Rtr1 fine-tunes transcription termination. Plos Genetics. 16: e1008317. PMID 32187185 DOI: 10.1371/Journal.Pgen.1008317  0.315
2020 Brenner E, Tiwari GR, Kapoor M, Liu Y, Brock A, Mayfield RD. Single cell transcriptome profiling of the human alcohol-dependent brain. Human Molecular Genetics. PMID 32142123 DOI: 10.1093/Hmg/Ddaa038  0.308
2020 Wu X, Zhao Y, Xie X, Xuei X, Liu Y, Cheng L, Li L. Abstract 549: Genome-wide CRISPR-Cas9 screen and RNAseq analysis identify new candidate synthetic lethality partners to PARP inhibitor in triple-negative breast cancer Cancer Research. 80: 549-549. DOI: 10.1158/1538-7445.Am2020-549  0.369
2019 Maloney B, Balaraman Y, Liu Y, Chopra N, Edenberg HJ, Kelsoe J, Nurnberger JI, Lahiri DK. Lithium alters expression of RNAs in a type-specific manner in differentiated human neuroblastoma neuronal cultures, including specific genes involved in Alzheimer's disease. Scientific Reports. 9: 18261. PMID 31797941 DOI: 10.1016/J.Biopsych.2020.02.779  0.303
2019 Wang Y, He B, Zhao Y, Reiter JL, Chen SX, Simpson E, Feng W, Liu Y. Comprehensive Cis-Regulation Analysis of Genetic Variants in Human Lymphoblastoid Cell Lines. Frontiers in Genetics. 10: 806. PMID 31552100 DOI: 10.3389/Fgene.2019.00806  0.322
2019 Rao X, Thapa KS, Chen AB, Lin H, Gao H, Reiter JL, Hargreaves KA, Ipe J, Lai D, Xuei X, Wang Y, Gu H, Kapoor M, Farris SP, Tischfield J, ... ... Liu Y, et al. Allele-specific expression and high-throughput reporter assay reveal functional genetic variants associated with alcohol use disorders. Molecular Psychiatry. PMID 31477794 DOI: 10.1038/S41380-019-0508-Z  0.352
2019 Lin N, Castle J, Liu J, Shendre A, Wang C, Liu Y, He C. Abstract 842: Racial disparity in breast cancer: Tissue-specific epigenetic mechanisms Cancer Research. 79: 842-842. DOI: 10.1158/1538-7445.Sabcs18-842  0.344
2019 Parker TM, Chen D, Bhat-Nakshatri P, Chu X, Liu Y, Wang Y, Nakshatri H. Abstract 1006: Non-linear relationship between estradiol-regulated changes in chromatin architecture and gene expression Cancer Research. 79: 1006-1006. DOI: 10.1158/1538-7445.Am2019-1006  0.37
2019 Dirks RC, Olson J, Rao X, Liu Y, Nephew K, Fang F, Nakshatri H. Tonsoku-Like Protein Facilitates Chromatin Transcription Complex (TONSL-FACT): Illuminating Unsuspected Culprits in Breast Cancer Initiation Journal of the American College of Surgeons. 229: S41. DOI: 10.1016/J.Jamcollsurg.2019.08.104  0.309
2019 Edenberg H, Goate A, Liu Y, Kapoor M, Chan G, Wetherill L, Lai D, McClintick J, Hesselbrock V, Kramer J, Kuperman S, Porjesz B, Tischfield J, Foroud T. Exome Sequencing and Genomic Studies To Better Understand Alcohol Dependence European Neuropsychopharmacology. 29: S731. DOI: 10.1016/J.Euroneuro.2017.06.054  0.323
2018 Gu D, Lin H, Zhang X, Fan Q, Chen S, Shahda S, Liu Y, Sun J, Xie J. Simultaneous Inhibition of MEK and Hh Signaling Reduces Pancreatic Cancer Metastasis. Cancers. 10. PMID 30373214 DOI: 10.3390/Cancers10110403  0.302
2018 Li Y, Liu Y, Xu H, Jiang G, Van der Jeught K, Fang Y, Zhou Z, Zhang L, Frieden M, Wang L, Luo Z, Radovich M, Schneider BP, Deng Y, Liu Y, et al. Heterozygous deletion of chromosome 17p renders prostate cancer vulnerable to inhibition of RNA polymerase II. Nature Communications. 9: 4394. PMID 30349055 DOI: 10.1038/S41467-018-06811-Z  0.315
2018 Jakubison BL, Schweickert PG, Moser SE, Yang Y, Gao H, Scully K, Itkin-Ansari P, Liu Y, Konieczny SF. Induced ptf1a expression in pancreatic ductal adenocarcinoma cellsactivates acinar gene networks, reduces tumorigenic properties,and sensitizes cells to gemcitabine treatment. Molecular Oncology. PMID 29719936 DOI: 10.1002/1878-0261.12314  0.359
2018 Howard JM, Lin H, Wallace AJ, Kim G, Draper JM, Haeussler M, Katzman S, Toloue M, Liu Y, Sanford JR. HNRNPA1 promotes recognition of splice site decoys by U2AF2 in vivo. Genome Research. PMID 29650551 DOI: 10.1101/Gr.229062.117  0.322
2018 Lin N, Shendre A, Liu J, Wang C, Liu Y, He C. Abstract 5319: Genetic regulation of DNA methylation in breast cancer Cancer Research. 78: 5319-5319. DOI: 10.1158/1538-7445.Am2018-5319  0.335
2018 Kumar B, Prasad M, Anjanappa M, Nakshatri P, Marino N, Storniolo AM, Rao X, Liu S, Wan J, Liu Y, Nakshatri H. Abstract 4993: Breast epithelial cell lines from normal breast with luminal and intrinsic subtypes -enriched gene expression document inter-individual differences in differentiation cascade Cancer Research. 78: 4993-4993. DOI: 10.1158/1538-7445.Am2018-4993  0.332
2018 Simpson E, Liu Y. Abstract 2268: Differential splicing analysis of doxorubicin treatment response in cancer cells Cancer Research. 78: 2268-2268. DOI: 10.1158/1538-7445.Am2018-2268  0.351
2017 Tanaka H, Phipps EA, Wei T, Wu X, Goswami C, Liu Y, Sledge GW, Mina L, Herbert BS. Altered Expression of Telomere-Associated Genes in Leukocytes among BRCA1 and BRCA2 Carriers. Molecular Carcinogenesis. PMID 29240257 DOI: 10.1002/Mc.22773  0.355
2017 Li J, Wang Y, Rao X, Wang Y, Feng W, Liang H, Liu Y. Roles of alternative splicing in modulating transcriptional regulation. Bmc Systems Biology. 11: 89. PMID 28984199 DOI: 10.1186/S12918-017-0465-6  0.339
2017 Livingstone M, Folkman L, Yang Y, Zhang P, Mort M, Cooper DN, Liu Y, Stantic B, Zhou Y. Investigating DNA, RNA and protein-based features as a means to discriminate pathogenic synonymous variants. Human Mutation. PMID 28649752 DOI: 10.1002/Humu.23283  0.312
2017 Zhang X, Li M, Lin H, Rao X, Feng W, Yang Y, Mort M, Cooper DN, Wang Y, Wang Y, Wells C, Zhou Y, Liu Y. regSNPs-splicing: a tool for prioritizing synonymous single-nucleotide substitution. Human Genetics. PMID 28391525 DOI: 10.1007/S00439-017-1783-X  0.306
2016 Li M, Feng W, Zhang X, Yang Y, Wang K, Mort M, Cooper DN, Wang Y, Zhou Y, Liu Y. ExonImpact: Prioritizing Pathogenic Alternative Splicing Events. Human Mutation. PMID 27604408 DOI: 10.1002/Humu.23111  0.313
2016 Wu W, Wagner EK, Hao Y, Rao X, Dai H, Han J, Chen J, Storniolo AM, Liu Y, He C. Tissue-specific Co-expression of Long Non-coding and Coding RNAs Associated with Breast Cancer. Scientific Reports. 6: 32731. PMID 27597120 DOI: 10.1038/Srep32731  0.347
2016 Jiang G, Zhang S, Yazdanparast A, Li M, Pawar AV, Liu Y, Inavolu SM, Cheng L. Comprehensive comparison of molecular portraits between cell lines and tumors in breast cancer. Bmc Genomics. 17: 525. PMID 27556158 DOI: 10.1186/S12864-016-2911-Z  0.32
2016 Özeş AR, Miller DF, Özeş ON, Fang F, Liu Y, Matei D, Huang T, Nephew KP. NF-κB-HOTAIR axis links DNA damage response, chemoresistance and cellular senescence in ovarian cancer. Oncogene. PMID 27041570 DOI: 10.1038/Onc.2016.75  0.313
2016 Chowdhury B, Seetharam A, Wang Z, Liu Y, Lossie AC, Thimmapuram J, Irudayaraj J. A Study of Alterations in DNA Epigenetic Modifications (5mC and 5hmC) and Gene Expression Influenced by Simulated Microgravity in Human Lymphoblastoid Cells. Plos One. 11: e0147514. PMID 26820575 DOI: 10.1371/Journal.Pone.0147514  0.345
2016 Fang F, Cardenas H, Miller D, Buechlein A, Yu Q, Liu Y, Jiang G, Taverna P, Keer H, Rusch D, Matei D, Nephew KP. Abstract A70: Epigenome and genome alterations in platinum resistant ovarian tumors. Clinical Cancer Research. 22. DOI: 10.1158/1557-3265.Ovca15-A70  0.335
2016 Wagner E, Wu W, Liu Y, Nephew K, Han J, He C. Abstract A51: DNA methylation in tumor, adjacent non-tumorous and normal breast tissues Cancer Research. 76. DOI: 10.1158/1538-7445.Chromepi15-A51  0.333
2016 Anjanappa M, Hao Y, Edenberg HJ, Liu Y, Nakshatri H. Abstract 3652: Identification of cancer-specific signaling networks: what is “normal” control Cancer Research. 76: 3652-3652. DOI: 10.1158/1538-7445.Am2016-3652  0.337
2016 Marino N, Johnson ML, Tanaka H, Wu X, Mathieson T, Henry JE, Ivan M, Liu Y, Rufenbarger C, AMVS. Abstract 2619: Novel biomarkers and molecular alterations for breast cancer initiation and susceptibility Cancer Research. 76: 2619-2619. DOI: 10.1158/1538-7445.Am2016-2619  0.32
2015 Wang G, Liu Y, Zhu D, Klau GW, Feng W. Bioinformatics Methods and Biological Interpretation for Next-Generation Sequencing Data. Biomed Research International. 2015: 690873. PMID 26436095 DOI: 10.1155/2015/690873  0.374
2015 Wang G, Wang F, Huang Q, Li Y, Liu Y, Wang Y. Understanding Transcription Factor Regulation by Integrating Gene Expression and DNase I Hypersensitive Sites. Biomed Research International. 2015: 757530. PMID 26425553 DOI: 10.1155/2015/757530  0.346
2015 Segar MW, Sakofsky CJ, Malkova A, Liu Y. MMBIRFinder: A Tool to Detect Microhomology-Mediated Break-Induced Replication. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 12: 799-806. PMID 26357319 DOI: 10.1109/Tcbb.2014.2359450  0.322
2015 Childress P, Stayrook KR, Alvarez MB, Wang Z, Shao Y, Hernandez-Buquer S, Mack JK, Grese ZR, He Y, Horan D, Pavalko FM, Warden SJ, Robling AG, Yang FC, Allen MR, ... ... Liu Y, et al. Genome-Wide Mapping and Interrogation of the Nmp4 Antianabolic Bone Axis. Molecular Endocrinology (Baltimore, Md.). 29: 1269-85. PMID 26244796 DOI: 10.1210/Me.2014-1406  0.316
2015 Holley CL, Zhang X, Fortney KR, Ellinger S, Johnson P, Baker B, Liu Y, Janowicz DM, Katz BP, Munson RS, Spinola SM. DksA and (p)ppGpp Have Unique and Overlapping Contributions to Haemophilus ducreyi Pathogenesis in Humans. Infection and Immunity. 83: 3281-92. PMID 26056381 DOI: 10.1128/Iai.00692-15  0.32
2015 Farlow JL, Lin H, Sauerbeck L, Lai D, Koller DL, Pugh E, Hetrick K, Ling H, Kleinloog R, van der Vlies P, Deelen P, Swertz MA, Verweij BH, Regli L, Rinkel GJ, ... ... Liu Y, et al. Lessons learned from whole exome sequencing in multiplex families affected by a complex genetic disorder, intracranial aneurysm. Plos One. 10: e0121104. PMID 25803036 DOI: 10.1371/Journal.Pone.0121104  0.317
2015 Fox MJ, Gao H, Smith-Kinnaman WR, Liu Y, Mosley AL. The exosome component Rrp6 is required for RNA polymerase II termination at specific targets of the Nrd1-Nab3 pathway. Plos Genetics. 11: e1004999. PMID 25680078 DOI: 10.1371/Journal.Pgen.1004999  0.309
2015 Matei D, Fang F, Cardenas H, Miller DF, Buechlein A, Yu Q, Perkins SM, Liu Y, Jiang G, Taverna P, Keer HN, Rusch DB, Nephew KP. Epigenome and genome alterations in platinum resistant ovarian cancer. Journal of Clinical Oncology. 33: 5555-5555. DOI: 10.1200/Jco.2015.33.15_Suppl.5555  0.313
2015 Wang Y, Cardenas H, Fang F, Condello S, Taverna P, Segar M, Liu Y, Matei D, Nephew KP. Abstract POSTER-THER-1421: Epigenetic targeting of ovarian cancer stem cells Clinical Cancer Research. 21. DOI: 10.1158/1557-3265.Ovcasymp14-Poster-Ther-1421  0.33
2015 Cardenas H, Vieth E, Lee J, Liu Y, Nephew KP, Matei D. Abstract POSTER-BIOL-1306: DNA methylation changes during epithelial-to-mesenchymal transition in ovarian cancer cells Clinical Cancer Research. 21. DOI: 10.1158/1557-3265.Ovcasymp14-Poster-Biol-1306  0.301
2015 Baptiste D, Choi M, Wang Z, Liu Y, Radovich M, Clare SE. Abstract P4-13-01: Trancriptome sequencing of the hisologicaly normal breast epithelium of BRCA mutation carriers Cancer Research. 75. DOI: 10.1158/1538-7445.Sabcs14-P4-13-01  0.365
2015 Shajahan-Haq AN, Li L, Liu Y, Jin L, Miller DF, Pilrose J, Cheema AK, Boca SM, Bhuvaneshwar K, Madhavan S, Clarke R, Nephew KP. Abstract B2-09: A systems biology approach to understanding estrogen responsiveness in breast cancer cells using the MCF7 model Cancer Research. 75. DOI: 10.1158/1538-7445.Compsysbio-B2-09  0.349
2015 Bhat-Nakshatri P, Anjanappa M, Hao Y, Edenberg H, Liu Y, Nakshatri H. Abstract 1851: Estradiol-inducible dependence receptor UNC5a restricts estrogen receptor activity and imparts estradiol dependence to breast cancer cells Cancer Research. 75: 1851-1851. DOI: 10.1158/1538-7445.Am2015-1851  0.339
2015 Logsdon DP, Cheng H, Luo M, Shahda S, Hao Y, Tong Y, Yu Z, Zyromski N, Schipani E, Liu Y, Supuran CT, Ivan M, Kelley MR, Fishel ML. Abstract B158: Targeting APE1/Ref-1 results in inhibition of hypoxia signaling genes Molecular Cancer Therapeutics. 14. DOI: 10.1158/1535-7163.Targ-15-B158  0.321
2014 Yang JY, Dunker A, Liu JS, Qin X, Arabnia HR, Yang W, Niemierko A, Chen Z, Luo Z, Wang L, Liu Y, Xu D, Deng Y, Tong W, Yang M. Advances in translational bioinformatics facilitate revealing the landscape of complex disease mechanisms. Bmc Bioinformatics. 15: I1. PMID 25559210 DOI: 10.1186/1471-2105-15-S17-I1  0.368
2014 Mourad R, Hsu PY, Juan L, Shen C, Koneru P, Lin H, Liu Y, Nephew K, Huang TH, Li L. Estrogen induces global reorganization of chromatin structure in human breast cancer cells. Plos One. 9: e113354. PMID 25470140 DOI: 10.1371/Journal.Pone.0113354  0.351
2014 Gangaiah D, Zhang X, Baker B, Fortney KR, Liu Y, Munson RS, Spinola SM. Haemophilus ducreyi RpoE and CpxRA appear to play distinct yet complementary roles in regulation of envelope-related functions. Journal of Bacteriology. 196: 4012-25. PMID 25201944 DOI: 10.1128/Jb.02034-14  0.344
2014 Santana EA, Harrison A, Zhang X, Baker BD, Kelly BJ, White P, Liu Y, Munson RS. HrrF is the Fur-regulated small RNA in nontypeable Haemophilus influenzae. Plos One. 9: e105644. PMID 25157846 DOI: 10.1371/Journal.Pone.0105644  0.306
2014 Wang Y, Cardenas H, Fang F, Condello S, Taverna P, Segar M, Liu Y, Nephew KP, Matei D. Epigenetic targeting of ovarian cancer stem cells. Cancer Research. 74: 4922-36. PMID 25035395 DOI: 10.1158/0008-5472.Can-14-1022  0.328
2014 Lossie AC, Muir WM, Lo CL, Timm F, Liu Y, Gray W, Zhou FC. Implications of genomic signatures in the differential vulnerability to fetal alcohol exposure in C57BL/6 and DBA/2 mice. Frontiers in Genetics. 5: 173. PMID 24966868 DOI: 10.3389/Fgene.2014.00173  0.313
2014 Zhang X, Gangaiah D, Munson RS, Spinola SM, Liu Y. Correcting imbalanced reads coverage in bacterial transcriptome sequencing with extreme deep coverage. International Journal of Computational Biology and Drug Design. 7: 195-213. PMID 24878730 DOI: 10.1504/Ijcbdd.2014.061646  0.34
2014 Pardo I, Lillemoe HA, Blosser RJ, Choi M, Sauder CA, Doxey DK, Mathieson T, Hancock BA, Baptiste D, Atale R, Hickenbotham M, Zhu J, Glasscock J, Storniolo AM, Zheng F, ... ... Liu Y, et al. Next-generation transcriptome sequencing of the premenopausal breast epithelium using specimens from a normal human breast tissue bank. Breast Cancer Research : Bcr. 16: R26. PMID 24636070 DOI: 10.1186/Bcr3627  0.345
2014 Zhang X, Lin H, Zhao H, Hao Y, Mort M, Cooper DN, Zhou Y, Liu Y. Impact of human pathogenic micro-insertions and micro-deletions on post-transcriptional regulation. Human Molecular Genetics. 23: 3024-34. PMID 24436305 DOI: 10.1093/Hmg/Ddu019  0.332
2014 Radovich M, Clare SE, Atale R, Pardo I, Hancock BA, Solzak JP, Kassem N, Mathieson T, Storniolo AM, Rufenbarger C, Lillemoe HA, Blosser RJ, Choi MR, Sauder CA, Doxey D, ... ... Liu Y, et al. Characterizing the heterogeneity of triple-negative breast cancers using microdissected normal ductal epithelium and RNA-sequencing. Breast Cancer Research and Treatment. 143: 57-68. PMID 24292813 DOI: 10.1007/S10549-013-2780-Y  0.382
2014 Ozes AR, Miller DF, Liu Y, Nephew KP. Abstract 3551: Non-coding RNA HOTAIR connects DNA damage signaling to NF-κB activation in cisplatin resistant ovarian cancer Cancer Research. 74: 3551-3551. DOI: 10.1158/1538-7445.Am2014-3551  0.324
2014 Wagner E, Liu Y, Schneider B, Storniolo AM, Han J, He C. Abstract 3268: Differences in expression of lncRNAs in breast tumor, adjacent normal-appearing breast tissue, and normal breast tissue from healthy donors Cancer Research. 74: 3268-3268. DOI: 10.1158/1538-7445.Am2014-3268  0.313
2013 Jiang G, Chakraborty A, Wang Z, Boustani M, Liu Y, Skaar T, Li L. New aQTL SNPs for the CYP2D6 identified by a novel mediation analysis of genome-wide SNP arrays, gene expression arrays, and CYP2D6 activity. Biomed Research International. 2013: 493019. PMID 24232670 DOI: 10.1155/2013/493019  0.335
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, 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  0.351
2013 Gangaiah D, Zhang X, Fortney KR, Baker B, Liu Y, Munson RS, Spinola SM. Activation of CpxRA in Haemophilus ducreyi primarily inhibits the expression of its targets, including major virulence determinants. Journal of Bacteriology. 195: 3486-502. PMID 23729647 DOI: 10.1128/Jb.00372-13  0.339
2013 Juan L, Wang G, Radovich M, Schneider BP, Clare SE, Wang Y, Liu Y. Potential roles of microRNAs in regulating long intergenic noncoding RNAs. Bmc Medical Genomics. 6: S7. PMID 23369519 DOI: 10.1186/1755-8794-6-S1-S7  0.322
2013 Wang G, Qi K, Zhao Y, Li Y, Juan L, Teng M, Li L, Liu Y, Wang Y. Identification of regulatory regions of bidirectional genes in cervical cancer. Bmc Medical Genomics. 6: S5. PMID 23369456 DOI: 10.1186/1755-8794-6-S1-S5  0.348
2013 Rao X, Evans J, Chae H, Pilrose J, Kim S, Yan P, Huang RL, Lai HC, Lin H, Liu Y, Miller D, Rhee JK, Huang YW, Gu F, Gray JW, et al. CpG island shore methylation regulates caveolin-1 expression in breast cancer. Oncogene. 32: 4519-28. PMID 23128390 DOI: 10.1038/Onc.2012.474  0.341
2013 Ozes AR, Miller D, Guo C, Bhattrai A, Liu Y, Nephew KP. Abstract 5189: The transcriptional regulation of the long non-coding RNA HOTAIR in ovarian cancer. Cancer Research. 73: 5189-5189. DOI: 10.1158/1538-7445.Am2013-5189  0.366
2013 Wagner EK, Shevate SK, Liu Y, He C. Abstract 2555: Tissue-specific regulation of alternative splicing by breast cancer associated genetic variants identified in recent GWAS. Cancer Research. 73: 2555-2555. DOI: 10.1158/1538-7445.Am2013-2555  0.388
2012 Zhou A, Breese MR, Hao Y, Edenberg HJ, Li L, Skaar TC, Liu Y. Alt Event Finder: a tool for extracting alternative splicing events from RNA-seq data. Bmc Genomics. 13: S10. PMID 23281921 DOI: 10.1186/1471-2164-13-S8-S10  0.316
2012 Zhang P, Mourad R, Xiang Y, Huang K, Huang T, Nephew K, Liu Y, Li L. A dynamic time order network for time-series gene expression data analysis. Bmc Systems Biology. 6: S9. PMID 23281615 DOI: 10.1186/1752-0509-6-S3-S9  0.328
2012 Wu HY, Zheng P, Jiang G, Liu Y, Nephew KP, Huang TH, Li L. A modulator based regulatory network for ERα signaling pathway. Bmc Genomics. 13: S6. PMID 23134758 DOI: 10.1186/1471-2164-13-S6-S6  0.312
2012 Direnzo D, Hess DA, Damsz B, Hallett JE, Marshall B, Goswami C, Liu Y, Deering T, Macdonald RJ, Konieczny SF. Induced Mist1 expression promotes remodeling of mouse pancreatic acinar cells. Gastroenterology. 143: 469-80. PMID 22510200 DOI: 10.1053/J.Gastro.2012.04.011  0.305
2012 Radovich M, Clare SE, Sledge GW, Pardo I, Mathieson T, Storniolo AMV, Rufenbarger C, Henry JE, Ivan M, Liu Y, Schneider BP. Abstract LB-409: Network analysis of RNA-seq data comparing triple negative breast cancer to normal breast tissues Cancer Research. 72. DOI: 10.1158/1538-7445.Am2012-Lb-409  0.378
2012 Rao X, Evans J, Chae H, Kim S, Liu Y, Huang T, Nephew K. Abstract 5013: CpG island shore methylation regulates caveolin-1 expression in breast cancer Cancer Research. 72: 5013-5013. DOI: 10.1158/1538-7445.Am2012-5013  0.346
2011 Teng M, Wang Y, Wang G, Jung J, Edenberg HJ, Sanford JR, Liu Y. Prioritizing single-nucleotide variations that potentially regulate alternative splicing. Bmc Proceedings. 5: S40. PMID 22373210 DOI: 10.1186/1753-6561-5-S9-S40  0.339
2011 Namkung J, Raska P, Kang J, Liu Y, Lu Q, Zhu X. Analysis of exome sequences with and without incorporating prior biological knowledge. Genetic Epidemiology. 35: S48-55. PMID 22128058 DOI: 10.1002/Gepi.20649  0.312
2011 Appaiah HN, Goswami CP, Mina LA, Badve S, Sledge GW, Liu Y, Nakshatri H. Persistent upregulation of U6:SNORD44 small RNA ratio in the serum of breast cancer patients. Breast Cancer Research : Bcr. 13: R86. PMID 21914171 DOI: 10.1186/Bcr2943  0.309
2011 Zhang W, Chen H, Wang Y, Yong W, Zhu W, Liu Y, Wagner GR, Payne RM, Field LJ, Xin H, Cai CL, Shou W. Tbx20 transcription factor is a downstream mediator for bone morphogenetic protein-10 in regulating cardiac ventricular wall development and function. The Journal of Biological Chemistry. 286: 36820-9. PMID 21890625 DOI: 10.1074/Jbc.M111.279679  0.312
2011 Shen C, Huang Y, Liu Y, Wang G, Zhao Y, Wang Z, Teng M, Wang Y, Flockhart DA, Skaar TC, Yan P, Nephew KP, Huang TH, Li L. A modulated empirical Bayes model for identifying topological and temporal estrogen receptor α regulatory networks in breast cancer. Bmc Systems Biology. 5: 67. PMID 21554733 DOI: 10.1186/1752-0509-5-67  0.361
2011 Chitteti BR, Liu Y, Srour EF. Genomic and proteomic analysis of the impact of mitotic quiescence on the engraftment of human CD34+ cells. Plos One. 6: e17498. PMID 21408179 DOI: 10.1371/Journal.Pone.0017498  0.305
2011 Mantila Roosa SM, Liu Y, Turner CH. Alternative splicing in bone following mechanical loading. Bone. 48: 543-51. PMID 21095247 DOI: 10.1016/J.Bone.2010.11.006  0.312
2011 Patel JB, Appaiah HN, Burnett RM, Bhat-Nakshatri P, Wang G, Mehta R, Badve S, Thomson MJ, Hammond S, Steeg P, Liu Y, Nakshatri H. Control of EVI-1 oncogene expression in metastatic breast cancer cells through microRNA miR-22 Oncogene. 30: 1290-1301. PMID 21057539 DOI: 10.1038/Onc.2010.510  0.327
2011 Mantila Roosa SM, Liu Y, Turner CH. Gene expression patterns in bone following mechanical loading. Journal of Bone and Mineral Research : the Official Journal of the American Society For Bone and Mineral Research. 26: 100-12. PMID 20658561 DOI: 10.1002/Jbmr.193  0.317
2011 Radovich M, Hancock BA, Kassem N, Zhu J, Glasscock J, Badve S, Liu Y, Kesler KA, Loehrer PJ, Schneider BP. Abstract 4858: Next-generation whole transcriptome sequencing of thymic malignancies Cancer Research. 71: 4858-4858. DOI: 10.1158/1538-7445.Am2011-4858  0.362
2010 Jeong J, Li L, Liu Y, Nephew KP, Huang TH, Shen C. An empirical Bayes model for gene expression and methylation profiles in antiestrogen resistant breast cancer. Bmc Medical Genomics. 3: 55. PMID 21108837 DOI: 10.1186/1755-8794-3-55  0.34
2010 Wang G, Wang Y, Shen C, Huang YW, Huang K, Huang TH, Nephew KP, Li L, Liu Y. RNA polymerase II binding patterns reveal genomic regions involved in microRNA gene regulation. Plos One. 5: e13798. PMID 21072189 DOI: 10.1371/Journal.Pone.0013798  0.375
2010 Wang G, Wang Y, Teng M, Zhang D, Li L, Liu Y. Signal transducers and activators of transcription-1 (STAT1) regulates microRNA transcription in interferon gamma-stimulated HeLa cells. Plos One. 5: e11794. PMID 20668688 DOI: 10.1371/Journal.Pone.0011794  0.348
2010 Herbert B, Chanoux RA, Liu Y, Baenziger PH, Goswami CP, McClintick JN, Edenberg HJ, Pennington RE, Lipkin SM, Kopelovich L. A molecular signature of normal breast epithelial and stromal cells from Li-Fraumeni syndrome mutation carriers. Oncotarget. 1: 405-422. DOI: 10.18632/Oncotarget.175  0.374
2010 Radovich M, Clare SE, Pardo I, Hancock BA, Kassem N, Sledge GW, Rufenbarger C, Storniolo AMV, Mathieson T, Sun J, Henry JE, Lillemoe HA, Hilligoss EE, Elliott JS, Richt R, ... ... Liu Y, et al. Abstract 2216: Next-generation whole transcriptome sequencing of triple-negative breast tumors and normal tissues Cancer Research. 70: 2216-2216. DOI: 10.1158/1538-7445.Am10-2216  0.364
2009 Liu Y, Balaraman Y, Wang G, Nephew KP, Zhou FC. Alcohol exposure alters DNA methylation profiles in mouse embryos at early neurulation. Epigenetics. 4: 500-11. PMID 20009564 DOI: 10.4161/Epi.4.7.9925  0.315
2009 Wang X, Wang K, Radovich M, Wang Y, Wang G, Feng W, Sanford JR, Liu Y. Genome-wide prediction of cis-acting RNA elements regulating tissue-specific pre-mRNA alternative splicing. Bmc Genomics. 10: S4. PMID 19594881 DOI: 10.1186/1471-2164-10-S1-S4  0.305
2009 Wang Y, Wang G, Yang B, Tao H, Yang JY, Deng Y, Liu Y. Reconstruct gene regulatory network using slice pattern model. Bmc Genomics. 10: S2. PMID 19594879 DOI: 10.1186/1471-2164-10-S1-S2  0.314
2009 Bhat-Nakshatri P, Wang G, Collins NR, Thomson MJ, Geistlinger TR, Carroll JS, Brown M, Hammond S, Srour EF, Liu Y, Nakshatri H. Estradiol-regulated microRNAs control estradiol response in breast cancer cells. Nucleic Acids Research. 37: 4850-61. PMID 19528081 DOI: 10.1093/Nar/Gkp500  0.328
2009 Alam I, Sun Q, Koller DL, Liu L, Liu Y, Edenberg HJ, Li J, Foroud T, Turner CH. Differentially expressed genes strongly correlated with femur strength in rats. Genomics. 94: 257-62. PMID 19482074 DOI: 10.1016/J.Ygeno.2009.05.008  0.302
2009 Sanford JR, Wang X, Mort M, Vanduyn N, Cooper DN, Mooney SD, Edenberg HJ, Liu Y. Splicing factor SFRS1 recognizes a functionally diverse landscape of RNA transcripts. Genome Research. 19: 381-94. PMID 19116412 DOI: 10.1101/Gr.082503.108  0.356
2009 Xin F, Li M, Balch C, Thomson M, Fan M, Liu Y, Hammond SM, Kim S, Nephew KP. Computational analysis of microRNA profiles and their target genes suggests significant involvement in breast cancer antiestrogen resistance. Bioinformatics (Oxford, England). 25: 430-4. PMID 19091772 DOI: 10.1093/Bioinformatics/Btn646  0.32
2008 Bhat-Nakshatri P, Wang G, Appaiah H, Luktuke N, Carroll JS, Geistlinger TR, Brown M, Badve S, Liu Y, Nakshatri H. AKT alters genome-wide estrogen receptor alpha binding and impacts estrogen signaling in breast cancer. Molecular and Cellular Biology. 28: 7487-503. PMID 18838536 DOI: 10.1128/Mcb.00799-08  0.355
2008 Feng W, Liu Y, Wu J, Nephew KP, Huang TH, Li L. A Poisson mixture model to identify changes in RNA polymerase II binding quantity using high-throughput sequencing technology. Bmc Genomics. 9: S23. PMID 18831789 DOI: 10.1186/1471-2164-9-S2-S23  0.322
2008 Hamamura K, Liu Y, Yokota H. Microarray analysis of thapsigargin-induced stress to the endoplasmic reticulum of mouse osteoblasts. Journal of Bone and Mineral Metabolism. 26: 231-40. PMID 18470663 DOI: 10.1007/S00774-007-0825-1  0.31
2008 Wang G, Wang X, Wang Y, Yang JY, Li L, Nephew KP, Edenberg HJ, Zhou FC, Liu Y. Identification of transcription factor and microRNA binding sites in responsible to fetal alcohol syndrome. Bmc Genomics. 9: S19. PMID 18366608 DOI: 10.1186/1471-2164-9-S1-S19  0.319
2008 Chitteti BR, Poteat B, Wang M, Liu Y, Srour EF. Genetic and Proteomic Analysis of Functionally Distinct Human Hematopoietic Stem Cells from Bone Marrow, Mobilized Peripheral Blood, and Cord Blood Blood. 112: 1324-1324. DOI: 10.1182/Blood.V112.11.1324.1324  0.339
2007 McClintick JN, Liu Y, Edenberg HJ. Mapping of trans-acting regulatory factors from microarray data. Bmc Proceedings. S155. PMID 18466500 DOI: 10.1186/1753-6561-1-S1-S155  0.308
2007 Chen AB, Hamamura K, Wang G, Xing W, Mohan S, Yokota H, Liu Y. Model-based comparative prediction of transcription-factor binding motifs in anabolic responses in bone. Genomics, Proteomics & Bioinformatics. 5: 158-65. PMID 18267297 DOI: 10.1016/S1672-0229(08)60003-0  0.312
2006 Liu Y, Taylor MW, Edenberg HJ. Model-based identification of cis-acting elements from microarray data Genomics. 88: 452-461. PMID 16716564 DOI: 10.1016/J.Ygeno.2006.04.006  0.34
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