Works by Jepsen, Kristen

Results: 31

Cross-site comparison of ribosomal depletion kits for Illumina RNAseq library construction.
Published in:
BMC Genomics, 2018, v. 19, p. 1, doi. 10.1186/s12864-018-4585-1
By:
- Herbert, Zachary T.;
- Kershner, Jamie P.;
- Butty, Vincent L.;
- Thimmapuram, Jyothi;
- Choudhari, Sulbha;
- Alekseyev, Yuriy O.;
- Fan, Jun;
- Podnar, Jessica W.;
- Wilcox, Edward;
- Gipson, Jenny;
- Gillaspy, Allison;
- Jepsen, Kristen;
- BonDurant, Sandra Splinter;
- Morris, Krystalynne;
- Berkeley, Maura;
- LeClerc, Ashley;
- Simpson, Stephen D.;
- Sommerville, Gary;
- Grimmett, Leslie;
- Adams, Marie
Publication type:
Article
Effective filtering strategies to improve data quality from population-based whole exome sequencing studies.
Published in:
BMC Bioinformatics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/1471-2105-15-125
By:
- Carson, Andrew R.;
- Smith, Erin N.;
- Matsui, Hiroko;
- Brækkan, Sigrid K.;
- Jepsen, Kristen;
- Hansen, John-Bjarne;
- Frazer, Kelly A.
Publication type:
Article
SMRT-mediated repression of an H3K27 demethylase in progression from neural stem cell to neuron.
Published in:
Nature, 2007, v. 450, n. 7168, p. 415, doi. 10.1038/nature06270
By:
- Jepsen, Kristen;
- Solum, Derek;
- Tianyuan Zhou;
- McEvilly, Robert J.;
- Hyun-Jung Kim;
- Glass, Christopher K.;
- Hermanson, Ola;
- Rosenfeld, Michael G.
Publication type:
Article
The breast pre-cancer atlas illustrates the molecular and micro-environmental diversity of ductal carcinoma in situ.
Published in:
NPJ Breast Cancer, 2022, v. 8, n. 1, p. 1, doi. 10.1038/s41523-021-00365-y
By:
- Nachmanson, Daniela;
- Officer, Adam;
- Mori, Hidetoshi;
- Gordon, Jonathan;
- Evans, Mark F.;
- Steward, Joseph;
- Yao, Huazhen;
- O'Keefe, Thomas;
- Hasteh, Farnaz;
- Stein, Gary S.;
- Jepsen, Kristen;
- Weaver, Donald L.;
- Hirst, Gillian L.;
- Sprague, Brian L.;
- Esserman, Laura J.;
- Borowsky, Alexander D.;
- Stein, Janet L.;
- Harismendy, Olivier
Publication type:
Article
The wild grape genome sequence provides insights into the transition from dioecy to hermaphroditism during grape domestication.
Published in:
Genome Biology, 2020, v. 21, n. 1, p. N.PAG, doi. 10.1186/s13059-020-02131-y
By:
- Badouin, Hélène;
- Velt, Amandine;
- Gindraud, François;
- Flutre, Timothée;
- Dumas, Vincent;
- Vautrin, Sonia;
- Marande, William;
- Corbi, Jonathan;
- Sallet, Erika;
- Ganofsky, Jérémy;
- Santoni, Sylvain;
- Guyot, Dominique;
- Ricciardelli, Eugenia;
- Jepsen, Kristen;
- Käfer, Jos;
- Berges, Hélène;
- Duchêne, Eric;
- Picard, Franck;
- Hugueney, Philippe;
- Tavares, Raquel
Publication type:
Article
Optimizing sequencing protocols for leaderboard metagenomics by combining long and short reads.
Published in:
Genome Biology, 2019, v. 20, n. 1, p. 1, doi. 10.1186/s13059-019-1834-9
By:
- Sanders, Jon G.;
- Nurk, Sergey;
- Salido, Rodolfo A.;
- Minich, Jeremiah;
- Xu, Zhenjiang Z.;
- Zhu, Qiyun;
- Martino, Cameron;
- Fedarko, Marcus;
- Arthur, Timothy D.;
- Chen, Feng;
- Boland, Brigid S.;
- Humphrey, Greg C.;
- Brennan, Caitriona;
- Sanders, Karenina;
- Gaffney, James;
- Jepsen, Kristen;
- Khosroheidari, Mahdieh;
- Green, Cliff;
- Liyanage, Marlon;
- Dang, Jason W.
Publication type:
Article
Deconstructing repression: evolving models of co-repressor action.
Published in:
2010
By:
- Perissi, Valentina;
- Jepsen, Kristen;
- Glass, Christopher K.;
- Rosenfeld, Michael G.
Publication type:
journal article
Genome-wide mutational landscape of mucinous carcinomatosis peritonei of appendiceal origin.
Published in:
Genome Medicine, 2014, v. 6, n. 5, p. 42, doi. 10.1186/gm559
By:
- Alakus, Hakan;
- Babicky, Michele L.;
- Ghosh, Pradipta;
- Yost, Shawn;
- Jepsen, Kristen;
- Dai, Yang;
- Arias, Angelo;
- Samuels, Michael L.;
- Mose, Evangeline S.;
- Schwab, Richard B.;
- Peterson, Michael R.;
- Lowy, Andrew M.;
- Frazer, Kelly A.;
- Harismendy, Olivier
Publication type:
Article
Mutational profiling of micro-dissected pre-malignant lesions from archived specimens.
Published in:
BMC Medical Genomics, 2020, v. 13, n. 1, p. N.PAG, doi. 10.1186/s12920-020-00820-y
By:
- Nachmanson, Daniela;
- Steward, Joseph;
- Yao, Huazhen;
- Officer, Adam;
- Jeong, Eliza;
- O'Keefe, Thomas J.;
- Hasteh, Farnaz;
- Jepsen, Kristen;
- Hirst, Gillian L.;
- Esserman, Laura J.;
- Borowsky, Alexander D.;
- Harismendy, Olivier
Publication type:
Article
DNA methylation changes associated with Parkinson's disease progression: outcomes from the first longitudinal genome-wide methylation analysis in blood.
Published in:
Epigenetics, 2019, v. 14, n. 4, p. 365, doi. 10.1080/15592294.2019.1588682
By:
- Henderson-Smith, Adrienne;
- Fisch, Kathleen M.;
- Hua, Jianping;
- Liu, Ganqiang;
- Ricciardelli, Eugenia;
- Jepsen, Kristen;
- Huentelman, Mathew;
- Stalberg, Gabriel;
- Edland, Steven D.;
- Scherzer, Clemens R.;
- Dunckley, Travis;
- Desplats, Paula
Publication type:
Article
Evaluation of ultra-deep targeted sequencing for personalized breast cancer care.
Published in:
2013
By:
- Harismendy, Olivier;
- Schwab, Richard B;
- Alakus, Hakan;
- Yost, Shawn E;
- Matsui, Hiroko;
- Hasteh, Farnaz;
- Wallace, Anne M;
- Park, Hannah L;
- Madlensky, Lisa;
- Parker, Barbara;
- Carpenter, Philip M;
- Jepsen, Kristen;
- Anton-Culver, Hoda;
- Frazer, Kelly A
Publication type:
journal article
Evaluation of ultra-deep targeted sequencing for personalized breast cancer care.
Published in:
Breast Cancer Research, 2013, v. 15, n. 6, p. 1, doi. 10.1186/bcr3584
By:
- Harismendy, Olivier;
- Schwab, Richard B.;
- Alakus, Hakan;
- Yost, Shawn E.;
- Hiroko Matsui;
- Hasteh, Farnaz;
- Wallace, Anne M.;
- Park, Hannah L.;
- Madlensky, Lisa;
- Parker, Barbara;
- Carpenter, Philip M.;
- Jepsen, Kristen;
- Anton-Culver, Hoda;
- Frazer, Kelly A
Publication type:
Article
Transcriptome Sequencing Reveals Potential Mechanism of Cryptic 3’ Splice Site Selection in SF3B1-mutated Cancers.
Published in:
PLoS Computational Biology, 2015, v. 11, n. 3, p. 1, doi. 10.1371/journal.pcbi.1004105
By:
- DeBoever, Christopher;
- Ghia, Emanuela M.;
- Shepard, Peter J.;
- Rassenti, Laura;
- Barrett, Christian L.;
- Jepsen, Kristen;
- Jamieson, Catriona H. M.;
- Carson, Dennis;
- Kipps, Thomas J.;
- Frazer, Kelly A.
Publication type:
Article
The ViReflow pipeline enables user friendly large scale viral consensus genome reconstruction.
Published in:
Scientific Reports, 2022, v. 12, n. 1, p. 1, doi. 10.1038/s41598-022-09035-w
By:
- Moshiri, Niema;
- Fisch, Kathleen M.;
- Birmingham, Amanda;
- DeHoff, Peter;
- Yeo, Gene W.;
- Jepsen, Kristen;
- Laurent, Louise C.;
- Knight, Rob
Publication type:
Article
Over-Expression of DSCAM and COL6A2 Cooperatively Generates Congenital Heart Defects.
Published in:
PLoS Genetics, 2011, v. 7, n. 11, p. 1, doi. 10.1371/journal.pgen.1002344
By:
- Grossman, Tamar R.;
- Gamliel, Amir;
- Wessells, Robert J.;
- Taghli-Lamallem, Ouarda;
- Jepsen, Kristen;
- Ocorr, Karen;
- Korenberg, Julie R.;
- Peterson, Kirk L.;
- Rosenfeld, Michael G.;
- Bodmer, Rolf;
- Bier, Ethan
Publication type:
Article
Fine mapping spatiotemporal mechanisms of genetic variants underlying cardiac traits and disease.
Published in:
Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-36638-2
By:
- D'Antonio, Matteo;
- Nguyen, Jennifer P.;
- Arthur, Timothy D.;
- Arias, Angelo D.;
- Benaglio, Paola;
- Berggren, W. Travis;
- Borja, Victor;
- Belmonte, Juan Carlos Izpisua;
- Cook, Megan;
- DeBoever, Christopher;
- Diffenderfer, Kenneth E.;
- Donovan, Margaret K. R.;
- Farnam, KathyJean;
- Frazer, Kelly A.;
- Fujita, Kyohei;
- Garcia, Melvin;
- Harismendy, Olivier;
- Henson, Benjamin A.;
- Jakubosky, David;
- Jepsen, Kristen
Publication type:
Article
MutaScope: a high-sensitivity variant caller dedicated to high-throughput PCR amplicons sequencing.
Published in:
2012
By:
- Yost, Shawn;
- Alakus, Hakan;
- Matsui, Hiroko;
- Jepsen, Kristen;
- Schwab, Richard;
- Frazer, Kelly;
- Harismendy, Olivier
Publication type:
Abstract
IRE1α regulates macrophage polarization, PD-L1 expression, and tumor survival.
Published in:
PLoS Biology, 2020, v. 18, n. 6, p. 1, doi. 10.1371/journal.pbio.3000687
By:
- Batista, Alyssa;
- Rodvold, Jeffrey J.;
- Xian, Su;
- Searles, Stephen C.;
- Lew, Alyssa;
- Iwawaki, Takao;
- Almanza, Gonzalo;
- Waller, T. Cameron;
- Lin, Jonathan;
- Jepsen, Kristen;
- Carter, Hannah;
- Zanetti, Maurizio
Publication type:
Article
The unfolded protein response links tumor aneuploidy to local immune dysregulation.
Published in:
EMBO Reports, 2021, v. 22, n. 12, p. 1, doi. 10.15252/embr.202152509
By:
- Xian, Su;
- Dosset, Magalie;
- Almanza, Gonzalo;
- Searles, Stephen;
- Sahani, Paras;
- Waller, T Cameron;
- Jepsen, Kristen;
- Carter, Hannah;
- Zanetti, Maurizio
Publication type:
Article
Differential blood DNA methylation across Lewy body dementias.
Published in:
Alzheimer's & Dementia: Diagnosis, Assessment & Disease Monitoring, 2021, v. 13, n. 1, p. 1, doi. 10.1002/dad2.12156
By:
- Nasamran, Chanond A.;
- Singh Sachan, Anubhav Nikunj;
- Mott, Jennifer;
- Kuras, Yuliya I.;
- Scherzer, Clemens R.;
- Ricciardelli, Eugenia;
- Jepsen, Kristen;
- Edland, Steven D.;
- Fisch, Kathleen M.;
- Desplats, Paula
Publication type:
Article
Extracellular vesicles produced in B cells deliver tumor suppressor miR-335 to breast cancer cells disrupting oncogenic programming in vitro and in vivo.
Published in:
Scientific Reports, 2018, v. 8, n. 1, p. 1, doi. 10.1038/s41598-018-35968-2
By:
- Almanza, Gonzalo;
- Rodvold, Jeffrey J.;
- Tsui, Brian;
- Jepsen, Kristen;
- Carter, Hannah;
- Zanetti, Maurizio
Publication type:
Article
BAP1 mutation is a frequent somatic event in peritoneal malignant mesothelioma.
Published in:
Journal of Translational Medicine, 2015, v. 13, n. 1, p. 1, doi. 10.1186/s12967-015-0485-1
By:
- Alakus, Hakan;
- Yost, Shawn E.;
- Woo, Brian;
- French, Randall;
- Lin, Grace Y.;
- Jepsen, Kristen;
- Frazer, Kelly A.;
- Lowy, Andrew M.;
- Harismendy, Olivier
Publication type:
Article
BAP1 mutation is a frequent somatic event in peritoneal malignant mesothelioma.
Published in:
2015
By:
- Alakus, Hakan;
- Yost, Shawn E;
- Woo, Brian;
- French, Randall;
- Lin, Grace Y;
- Jepsen, Kristen;
- Frazer, Kelly A;
- Lowy, Andrew M;
- Harismendy, Olivier
Publication type:
journal article
Mutascope: sensitive detection of somatic mutations from deep amplicon sequencing.
Published in:
Bioinformatics, 2013, v. 29, n. 15, p. 1908, doi. 10.1093/bioinformatics/btt305
By:
- Yost, Shawn E.;
- Alakus, Hakan;
- Matsui, Hiroko;
- Schwab, Richard B.;
- Jepsen, Kristen;
- Frazer, Kelly A.;
- Harismendy, Olivier
Publication type:
Article
Biased estimates of clonal evolution and subclonal heterogeneity can arise from PCR duplicates in deep sequencing experiments.
Published in:
Genome Biology, 2014, v. 15, n. 7, p. 1, doi. 10.1186/s13059-014-0420-4
By:
- Smith, Erin N.;
- Jepsen, Kristen;
- Khosroheidari, Mahdieh;
- Rassenti, Laura Z.;
- D'Antonio, Matteo;
- Ghia, Emanuela M.;
- Carson, Dennis A.;
- Jamieson, Catriona H. M.;
- Kipps, Thomas J.;
- Frazer, Kelly F.
Publication type:
Article
Genetic ancestry of participants in the National Children's Study.
Published in:
Genome Biology, 2014, v. 15, n. 1, p. R22, doi. 10.1186/gb-2014-15-2-r22
By:
- Smith, Erin N.;
- Jepsen, Kristen;
- Arias, Angelo D.;
- Shepard, Peter J.;
- Chambers, Christina D.;
- Frazer, Kelly A.
Publication type:
Article
Development of 3D-iNET ORION: a novel, pre-clinical, three-dimensional in vitro cell model for modeling human metastatic neuroendocrine tumor of the pancreas.
Published in:
Human Cell, 2024, v. 37, n. 5, p. 1593, doi. 10.1007/s13577-024-01113-7
By:
- Strnadel, Jan;
- Valasek, Mark A.;
- Lin, Grace Y.;
- Lin, Huahui;
- Tipps, Ann M. Ponsford;
- Woo, Sang Myung;
- Fujimura, Ken;
- Wang, Huawei;
- Choi, Sunkyu;
- Bui, Jack;
- Hermosillo, Christopher;
- Jepsen, Kristen;
- Navarro, Michael R.;
- Kelber, Jonathan A.;
- Klemke, Richard L.;
- Bouvet, Michael
Publication type:
Article
N-CoR controls differentiation of neural stem cells into astrocytes.
Published in:
Nature, 2002, v. 419, n. 6910, p. 934, doi. 10.1038/nature01156
By:
- Hermanson, Ola;
- Jepsen, Kristen;
- Rosenfeld, Michael G.
Publication type:
Article
The genomic landscape of Ménière's disease: a path to endolymphatic hydrops.
Published in:
BMC Genomics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12864-024-10552-3
By:
- Fisch, Kathleen M.;
- Rosenthal, Sara Brin;
- Mark, Adam;
- Sasik, Roman;
- Nasamran, Chanond A.;
- Clifford, Royce;
- Derebery, M. Jennifer;
- Boussaty, Ely;
- Jepsen, Kristen;
- Harris, Jeffrey;
- Friedman, Rick A.
Publication type:
Article
p53 Interaction with JMJD3 Results in Its Nuclear Distribution during Mouse Neural Stem Cell Differentiation.
Published in:
PLoS ONE, 2011, v. 6, n. 3, p. 1, doi. 10.1371/journal.pone.0018421
By:
- Solá, Susana;
- Xavier, Joana M.;
- Santos, Daniela M.;
- Aranha, Márcia M.;
- Morgado, Ana L.;
- Jepsen, Kristen;
- Rodrigues, Cecília M. P.
Publication type:
Article
Promoter-Specific Roles for Liver X Receptor/Corepressor Complexes in the Regulation of ABCA1 and SREBP1 Gene Expression.
Published in:
Molecular & Cellular Biology, 2003, v. 23, n. 16, p. 5780, doi. 10.1128/MCB.23.16.5780-5789.2003
By:
- Wagner, Brandee L.;
- Valledor, Annabel F.;
- Gang Shao;
- Daige, Chris L.;
- Bischoff, Eric D.;
- Petrowski, Mary;
- Jepsen, Kristen;
- Sung Hee Baek;
- Heyman, Richard A.;
- Rosenfeld, Michael G.;
- Schulman, Ira G.;
- Glass, Christopher K.
Publication type:
Article