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1. A pan-cancer analysis of driver gene mutations, DNA methylation and gene expressions reveals that chromatin remodeling is a major mechanism inducing global changes in cancer epigenomes

Youn, Ahrim; Kim, Kyung In; Rabadan, Raul; Tycko, Benjamin; Shen, Yufeng; Wang, Shuang
2018
Articles
DNA--MethylationGene expressionCancer--Genetic aspectsTumorsEpigenetics

2. Characterization of kinase gene expression and splicing profile in prostate cancer with RNA-Seq data

Feng, Huijuan; Li, Tingting; Zhang, Xuegong
2018
Articles
Prostate--CancerGene expressionRNA splicingProtein kinasesGenomicsBioinformatics

3. cis-regulatory architecture of a short-range EGFR organizing center in the Drosophila melanogaster leg

Newcomb, Susan Elizabeth; Voutev, Roumen; Jory, Aurelie E.; Delker, Rebecca; Slattery, Matthew; Mann, Richard S.
2018
Articles
Drosophila melanogaster--GeneticsGrowth factors--ReceptorsCloningBiologyGene expression

4. Graph complexity analysis identifies an ETV5 tumor-specific network in human and murine low-grade glioma

Pan, Yuan; Duron, Christina; Bush, Erin C.; Ma, Yu; Sims, Peter A.; Gutmann, David H.; Radunskaya, Ami; Hardin, Johanna
2018
Articles
GliomasGene regulatory networksGene expressionSystem analysisSystems biologyMathematics

5. Stochastic tuning of gene expression enables cellular adaptation in the absence of pre-existing regulatory circuitry

Freddolino, Peter L.; Yang, Jamie Siyu; Momen-Roknabadi, Amir; Tavazoie, Saeed
2018
Articles
Gene regulatory networksSystems biologyGene expressionStochastic processesEpigenetics

6. Unconventional function of an Achaete-Scute homolog as a terminal selector of nociceptive neuron identity

Masoudi, Neda; Tavazoie, Saeed; Glenwinkel, Lori Ann; Ryu, Leesun; Kim, Kyuhyung; Hobert, Oliver
2018
Articles
NeuronsNeurologyGene expressionTranscription factorsCaenorhabditis elegans

7. Epigenetic and genetic dissections of UV-induced global gene dysregulation in skin cells through multi-omics analyses

Shen, Yao; Stanislauskas, Milda; Li, Gen; Zheng, Deyou; Liu, Liang
2017
Articles
Gene expressionGenetic regulationSquamous cell carcinomaDermatologyEpigenetics

8. Systematic, network-based characterization of therapeutic target inhibitors

Shen, Yao; Alvarez, Mariano; Bisikirska, Brygida; Lachmann, Alexander; Realubit, Ronald B.; Pampou, Sergey Yu; Coku, Jorida; Karan Jr., Charles; Califano, Andrea
2017
Articles
TherapeuticsGene expressionComputational biologyBioinformatics

9. An Automated Microwell Platform for Large-Scale Single Cell RNA-Seq

Yuan, Jinzhou; Sims, Peter A.
2016
Articles
Nucleotide sequenceGene expression

10. Loss of RNA expression and allele-specific expression associated with congenital heart disease

McKean, David M.; Homsy, Jason; Wakimoto, Hiroko; Patel, Neil; Ware, James S.; DePalma, Steven R.; Gorham, Joshua; Zaidi, Samir; Ma, Wenji; Patel, Nihir; Shen, Yufeng; Chung, Wendy K.; Lifton, Richard P.; Kim, Richard; Brueckner, Martina; Goldmuntz, Elizabeth; Sharp, Andrew J.; Seidman, Christine E.; Gelb, Bruce D.; Seidman, J. G.
2016
Articles
Gene expressionAbnormalities, HumanRNACongenital heart diseaseGenetics