Kathrin Plath, Ph.D.

Laboratory Address:
615 Charles E. Young Drive South
BSRB 35410-14
Los Angeles, CA 90095

Mailing Address:
615 Charles E. Young Drive South
Department of Biological Chemistry
Los Angeles, CA 90095

Professor, Biological Chemistry
Member, Biochemistry, Biophysics & Structural Biology GPB Home Area, Bioinformatics GPB Home Area, CTSI, Cell & Developmental Biology GPB Home Area, Eli & Edythe Broad Center of Regenerative Medicine & Stem Cell Research, Gene Regulation GPB Home Area, Molecular Biology Institute
Research Interests

The Plath lab aims to understand molecular mechanisms that control genome organization, chromatin states, and gene expression during cell fate changes, with a particular focus on the pluripotent state and pluripotent stem cells, the differentiation of pluripotent stem cells, and reprogramming of somatic cells to pluripotent stem cells. Our team of experimental and computational biologists uses embryonic stem cell (ESC) and induced pluripotent stem cell (iPSC) model systems, state-of-the-art microscopy, biochemistry and mass spectrometry, high throughput screening approaches, gene editing and transgenic/knockout mouse models, genomic approaches (to map patterns of RNA expression at the single cell and population level, open chromatin, DNA methylation, histone modifications, transcription factor binding, three dimensional genome organization, RNA-protein and RNA-chromatin interactions), and computational modelling.

To understand basic principles of gene regulation during cell fate changes and in diseases, we focus on four fundamental problems of mammalian biology that are intimately connected and inform each other:

1. Our lab is studying how one of the two X chromosomes in female mammalian cells is transcriptionally silenced. This chromosome-wide silencing process, called X-inactivation, is initiated when female pluripotent cells differentiate, and represents the most dramatic example of developmentally regulated heterochromatin formation in mammalian cells. X-inactivation is essential for development and equalizes the dose of X-linked genes to that in male cells with their single X chromosome, and leads to cancer if deregulated in the adult. The silencing of the entire X chromosome is orchestrated by Xist, a long non-coding (lnc) RNA. Mammalian genomes encode thousands of lncRNAs, many of which regulate gene expression. While lncRNAs are clearly functionally important, the mechanisms by which they act are still largely elusive. We systematically identify the proteins that interact with Xist, define how Xist RNA spreads along the X chromosome, modifies chromatin states, the three-dimensional architecture of the chromosome and gene expression, and recruits regulatory complexes. Most of our studies are done in the mouse system. Another exciting finding is that the epigenetic regulation of X chromosome dosage differs between mouse and human development. To this end, we have recently established a cell system that allows us to model the human-specific aspects of X chromosome dosage compensation, which also offers insights into early human development. Our findings on Xist RNA and X chromosome dosage compensation are influential for the general understanding of lncRNA function, and guide us in the study of other lncRNAs.

2. We have been among the first to reprogram human differentiated cells to an embryonic stem cell-like state, known as induced pluripotent stem cells (iPSCs), by simply overexpressing four pluripotency-related transcription factors following a strategy first proposed by Shinya Yamanaka in 2006. While it is now clear that differentiated cells can be reprogrammed to iPSCs, the mechanisms by which this occurs are currently largely unknown. An important goal of our lab is to systematically define how the reprogramming factors reset cell identity and determine their interplay with somatic chromatin states and signaling pathways, to understand how cell fate decisions can be modulated. We are particuarly interested in uncovering how enhancers are selected and activated by the reprogramming factors and how somatic cell identity is destabilized by the reprogramming factors. Our work has revealed unexpected mechanisms underlying these processes, which we are now studying further.

3. Another main interest in our lab is to understand the role of the three-dimensional organization of the genome in the regulation of gene expression and developmental identity. DNA is stored in a non-random and highly organized fashion in the nucleus and the 3D-architecture of the genome is beginning to be incorportated in studies of gene regulation. The spatial organization of chromosomes is a fascinating problem of metazoan biology, but many questions have remained unanswered. A particular challenge has been to decipher the mechanisms driving the co-localization of genetic loci and the importance of co-localization. Our goals are to understand how higher-order genome organization is established and dynamically regulated, and how it influences transcriptional networks, chromatin states, and the function of lncRNAs.

4. Finally, we are also interested in understanding how disease states develop. To this end, we are using patient and disease-specific iPSCs to model human diseases and define where deregulation occurs. We are also studying cancer models by defining the cellular heterogeneity and how it develops.

updated 2017



Kathrin Plath earned her doctorate degree in cell biology from Humboldt University (Berlin, Germany) for her work with Dr. Tom Rapoport at Harvard Medical School on how the signal sequence of a secretory protein is recognized by the translocation channel in the endoplasmic reticulum membrane. She did her post-doctoral training at the University of California San Francisco and the Whitehead Institute at MIT with Drs. Barbara Panning and Rudolf Jaenisch and support from fellowships of the Life Sciences Research Foundation and the Leukemia and Lymphoma Foundation. In her postdoctoral research, she uncovered that Polycomb proteins can be recruited to their site of action by long non-coding RNAs, and that this group of transcriptional repressors is important for the maintenance of pluripotency and developmental plasticity through the repression of developmental pathways. She joined the faculty of the Department of Biological Chemistry at the University of California Los Angeles in 2006, where her laboratory studies the gene expression controls that operate during cell fate changes. To decode the genetic instructions that orchestrate the conversion of the single cell zygote into a complex organism and uncover broad principles underlying gene regulation, the Plath lab is focusing on cis-regulatory DNA sequences (such as enhancers), long-noncoding RNAs (lncRNAs), and the three-dimensional organization of the genome. Research in her lab in the past few years has focused on four fundamental problems: (a) Differentiation and reprogramming processes as mean to understand how transcription factors interpret cis-regulatory elements in the context of cellular state and signaling milieu. (b) The function of long-noncoding (lnc) RNAs in the regulation of chromatin and gene expression by understanding how lncRNA-protein complexes form, localize to regulatory targets, and give rise to phenotypic states. To achieve this goal, we currently focus on the X-inactivation process and its regulation by the lncRNA Xist, how the X-inactivation process differs between mouse and human pluripotent stem cells, and how the epigenetic state of the X chromosome influences developmental potency. (c) 3D-organization of the genome changes as a means to understand how transcriptional networks regulate genome organization, and how genome organization influences gene expression and chromatin states. (d) The deregulation of gene regulation processes in disease using iPSC disease models. To accomplish these goals, the Plath lab uses a wide range of approaches including proteomics, genomics, genetics, cell biology, and bioinformatics. Dr. Plath serves on the editorial boards of various journals including Science, Cell, Cell Stem Cell, Cell Reports, and is the chair of the publications committee of the International Society for Stem Cell Research. Recently, she was named a Faculty Scholar of the Howard Hughes Medical Institute.


A selected list of publications:

Pasque Vincent, Karnik Rahul, Chronis Constantinos, Petrella Paula, Langerman Justin, Bonora Giancarlo, Song Juan, Vanheer Lotte, Sadhu Dimashkie Anupama, Meissner Alexander, Plath Kathrin   X Chromosome Dosage Influences DNA Methylation Dynamics during Reprogramming to Mouse iPSCs Stem cell reports, 2018; 10(5): 1537-1550.
Sahakyan Anna, Yang Yihao, Plath Kathrin   The Role of Xist in X-Chromosome Dosage Compensation Trends in cell biology, 2018; .
Allison Thomas F, Smith Andrew J H, Anastassiadis Konstantinos, Sloane-Stanley Jackie, Biga Veronica, Stavish Dylan, Hackland James, Sabri Shan, Langerman Justin, Jones Mark, Plath Kathrin, Coca Daniel, Barbaric Ivana, Gokhale Paul, Andrews Peter W   Identification and Single-Cell Functional Characterization of an Endodermally Biased Pluripotent Substate in Human Embryonic Stem Cells Stem cell reports, 2018; 10(6): 1895-1907.
Keegan Alissa, Plath Kathrin, Damoiseaux Robert   High-Throughput Screening of a Luciferase Reporter of Gene Silencing on the Inactive X Chromosome Methods in molecular biology (Clifton, N.J.), 2018; 1755(1): 75-87.
Ohashi Minori, Korsakova Elena, Allen Denise, Lee Peiyee, Fu Kai, Vargas Benni S, Cinkornpumin Jessica, Salas Carlos, Park Jenny C, Germanguz Igal, Langerman Justin, Chronis Contantinos, Kuoy Edward, Tran Stephen, Xiao Xinshu, Pellegrini Matteo, Plath Kathrin, Lowry William E   Loss of MECP2 Leads to Activation of P53 and Neuronal Senescence Stem cell reports, 2018; 10(5): 1453-1463.
Guo Ge, von Meyenn Ferdinand, Rostovskaya Maria, Clarke James, Dietmann Sabine, Baker Duncan, Sahakyan Anna, Myers Samuel, Bertone Paul, Reik Wolf, Plath Kathrin, Smith Austin   Epigenetic resetting of human pluripotency Development (Cambridge, England), 2017; 144(15): 2748-2763.
Sahakyan Anna, Plath Kathrin, Rougeulle Claire   Regulation of X-chromosome dosage compensation in human: mechanisms and model systems Philosophical transactions of the Royal Society of London. Series B, Biological sciences, 2017; 372(1733): 75-87.
Chronis Constantinos, Fiziev Petko, Papp Bernadett, Butz Stefan, Bonora Giancarlo, Sabri Shan, Ernst Jason, Plath Kathrin   Cooperative Binding of Transcription Factors Orchestrates Reprogramming Cell, 2017; 168(3): 442-459.e20.
Sahakyan Anna, Kim Rachel, Chronis Constantinos, Sabri Shan, Bonora Giancarlo, Theunissen Thorold W, Kuoy Edward, Langerman Justin, Clark Amander T, Jaenisch Rudolf, Plath Kathrin   Human Naive Pluripotent Stem Cells Model X Chromosome Dampening and X Inactivation Cell stem cell, 2017; 20(1): 87-101.
Patel Sanjeet, Bonora Giancarlo, Sahakyan Anna, Kim Rachel, Chronis Constantinos, Langerman Justin, Fitz-Gibbon Sorel, Rubbi Liudmilla, Skelton Rhys J P, Ardehali Reza, Pellegrini Matteo, Lowry William E, Clark Amander T, Plath Kathrin   Human Embryonic Stem Cells Do Not Change Their X Inactivation Status during Differentiation Cell reports, 2017; 18(1): 54-67.
Huang Chengyang, Su Trent, Xue Yong, Cheng Chen, Lay Fides D, McKee Robin A, Li Meiyang, Vashisht Ajay, Wohlschlegel James, Novitch Bennett G, Plath Kathrin, Kurdistani Siavash K, Carey Michael   Cbx3 maintains lineage specificity during neural differentiation Genes & development, 2017; 31(3): 241-246.
Sahakyan Anna, Plath Kathrin   Transcriptome Encyclopedia of Early Human Development Cell, 2016; 165(4): 777-9.
Gu Wen, Gaeta Xavier, Sahakyan Anna, Chan Alanna B, Hong Candice S, Kim Rachel, Braas Daniel, Plath Kathrin, Lowry William E, Christofk Heather R   Glycolytic Metabolism Plays a Functional Role in Regulating Human Pluripotent Stem Cell State Cell stem cell, 2016; 19(4): 476-490.
Pastor William A, Chen Di, Liu Wanlu, Kim Rachel, Sahakyan Anna, Lukianchikov Anastasia, Plath Kathrin, Jacobsen Steven E, Clark Amander T   Naive Human Pluripotent Cells Feature a Methylation Landscape Devoid of Blastocyst or Germline Memory Cell stem cell, 2016; 18(3): 323-9.
Pandya-Jones Amy, Plath Kathrin   The "lnc" between 3D chromatin structure and X chromosome inactivation Seminars in cell & developmental biology, 2016; 56: 35-47.
McHugh Colleen A, Chen Chun-Kan, Chow Amy, Surka Christine F, Tran Christina, McDonel Patrick, Pandya-Jones Amy, Blanco Mario, Burghard Christina, Moradian Annie, Sweredoski Michael J, Shishkin Alexander A, Su Julia, Lander Eric S, Hess Sonja, Plath Kathrin, Guttman Mitchell   The Xist lncRNA interacts directly with SHARP to silence transcription through HDAC3 Nature, 2015; 521(7551): 232-6.
Pasque Vincent, Plath Kathrin   X chromosome reactivation in reprogramming and in development Current opinion in cell biology, 2015; 37(3): 75-83.
Minkovsky Alissa, Sahakyan Anna, Bonora Giancarlo, Damoiseaux Robert, Dimitrova Elizabeth, Rubbi Liudmilla, Pellegrini Matteo, Radu Caius G, Plath Kathrin   A high-throughput screen of inactive X chromosome reactivation identifies the enhancement of DNA demethylation by 5-aza-2'-dC upon inhibition of ribonucleotide reductase Epigenetics & chromatin, 2015; 8(7551): 42.
Minkovsky Alissa, Sahakyan Anna, Rankin-Gee Elyse, Bonora Giancarlo, Patel Sanjeet, Plath Kathrin   The Mbd1-Atf7ip-Setdb1 pathway contributes to the maintenance of X chromosome inactivation Epigenetics & chromatin, 2014; 7(7): 12.
Pasque Vincent, Tchieu Jason, Karnik Rahul, Uyeda Molly, Sadhu Dimashkie Anupama, Case Dana, Papp Bernadett, Bonora Giancarlo, Patel Sanjeet, Ho Ritchie, Schmidt Ryan, McKee Robin, Sado Takashi, Tada Takashi, Meissner Alexander, Plath Kathrin   X chromosome reactivation dynamics reveal stages of reprogramming to pluripotency Cell, 2014; 159(7): 1681-97.
Bonora Giancarlo, Plath Kathrin, Denholtz Matthew   A mechanistic link between gene regulation and genome architecture in mammalian development Current opinion in genetics & development, 2014; 27(7): 92-101.
Denholtz Matthew, Bonora Giancarlo, Chronis Constantinos, Splinter Erik, de Laat Wouter, Ernst Jason, Pellegrini Matteo, Plath Kathrin   Long-range chromatin contacts in embryonic stem cells reveal a role for pluripotency factors and polycomb proteins in genome organization Cell Stem Cell, 2013; 13(5): 602-16.
Engreitz Jesse M, Pandya-Jones Amy, McDonel Patrick, Shishkin Alexander, Sirokman Klara, Surka Christine, Kadri Sabah, Xing Jeffrey, Goren Alon, Lander Eric S, Plath Kathrin, Guttman Mitchell   The Xist lncRNA exploits three-dimensional genome architecture to spread across the X chromosome Science, 2013; 341(6147): 1237973.
Britton Laura-Mae P, Newhart Alyshia, Bhanu Natarajan V, Sridharan Rupa, Gonzales-Cope Michelle, Plath Kathrin, Janicki Susan M, Garcia Benjamin A   Initial characterization of histone H3 serine 10 O-acetylation Epigenetics, 2013; 8(10): 1101-13.
Ho Ritchie, Papp Bernadett, Hoffman Jackson A, Merrill Bradley J, Plath Kathrin   Stage-specific regulation of reprogramming to induced pluripotent stem cells by Wnt signaling and T cell factor proteins Cell Reports, 2013; 3(6): 2113-26.
Trounson Alan, Daley George Q, Pasque Vincent, Plath Kathrin   A new route to human embryonic stem cells Nature Medicine, 2013; 19(7): 820-1.
Sridharan Rupa, Gonzales-Cope Michelle, Chronis Constantinos, Bonora Giancarlo, McKee Robin, Huang Chengyang, Patel Sanjeet, Lopez David, Mishra Nilamadhab, Pellegrini Matteo, Carey Michael, Garcia Benjamin A, Plath Kathrin   Proteomic and genomic approaches reveal critical functions of H3K9 methylation and heterochromatin protein-1gamma in reprogramming to pluripotency Nature Cell Biology, 2013; 15(7): 872-82.
Papp Bernadett, Plath Kathrin   Epigenetics of reprogramming to induced pluripotency Cell, 2013; 152(6): 1324-43.
Minkovsky Alissa, Barakat Tahsin Stefan, Sellami Nadia, Chin Mark Henry, Gunhanlar Nilhan, Gribnau Joost, Plath Kathrin   The pluripotency factor-bound intron 1 of Xist is dispensable for X chromosome inactivation and reactivation in vitro and in vivo Cell Reports, 2013; 3(3): 905-18.
Pera Martin F, Plath Kathrin   Cell reprogramming Current Opinion in Genetics & Development, 2012; 22(5): 401-2.
Nsair Ali, Schenke-Layland Katja, Van Handel Ben, Evseenko Denis, Kahn Michael, Zhao Peng, Mendelis Joseph, Heydarkhan Sanaz, Awaji Obina, Vottler Miriam, Geist Susanne, Chyu Jennifer, Gago-Lopez Nuria, Crooks Gay M, Plath Kathrin, Goldhaber Josh, Mikkola Hanna K A, MacLellan W Robb   Characterization and therapeutic potential of induced pluripotent stem cell-derived cardiovascular progenitor cells PloS One, 2012; 7(10): e45603.
Minkovsky Alissa, Patel Sanjeet, Plath Kathrin   Concise review: Pluripotency and the transcriptional inactivation of the female Mammalian X chromosome Stem Cells, 2012; 30(1): 48-54.
Diaz Perez Silvia V, Kim Rachel, Li Ziwei, Marquez Victor E, Patel Sanjeet, Plath Kathrin, Clark Amander T   Derivation of new human embryonic stem cell lines reveals rapid epigenetic progression in vitro that can be prevented by chemical modification of chromatin Human Molecular Genetics, 2012; 21(4): 751-64.
Karumbayaram Saravanan, Lee Peiyee, Azghadi Soheila F, Cooper Aaron R, Patterson Michaela, Kohn Donald B, Pyle April, Clark Amander, Byrne James, Zack Jerome A, Plath Kathrin, Lowry William E   From skin biopsy to neurons through a pluripotent intermediate under Good Manufacturing Practice protocols Stem Cells Translational Medicine, 2012; 1(1): 36-43.
Chen Xiao-Fen, Lehmann Lynn, Lin Justin J, Vashisht Ajay, Schmidt Ryan, Ferrari Roberto, Huang Chengyang, McKee Robin, Mosley Amber, Plath Kathrin, Kurdistani Siavash K, Wohlschlegel James, Carey Michael   Mediator and SAGA have distinct roles in Pol II preinitiation complex assembly and function Cell Reports, 2012; 2(5): 1061-7.
Denholtz Matthew, Plath Kathrin   Pluripotency in 3D: genome organization in pluripotent cells Current Opinion in Cell Biology, 2012; 24(6): 793-801.
Papp Bernadett, Plath Kathrin   Pluripotency re-centered around Esrrb The EMBO journal, 2012; 31(22): 4255-7.
Plath Kathrin, Srivastava Deepak, Alvarez-Buylla Arturo, Tanaka Elly M, Kriegstein Arnold R   Stem cells in the land of the rising sun: ISSCR 2012 Cell Stem Cell, 2012; 11(5): 607-14.
Schmidt Ryan, Plath Kathrin   The roles of the reprogramming factors Oct4, Sox2 and Klf4 in resetting the somatic cell epigenome during induced pluripotent stem cell generation Genome Biology, 2012; 13(10): 251.
Cooper Aaron R, Patel Sanjeet, Senadheera Shantha, Plath Kathrin, Kohn Donald B, Hollis Roger P   Highly efficient large-scale lentiviral vector concentration by tandem tangential flow filtration Journal of Virological Methods, 2011; 177(1): 1-9.
Ho Ritchie, Chronis Constantinos, Plath Kathrin   Mechanistic insights into reprogramming to induced pluripotency Journal of Cellular Physiology, 2011; 226(4): 868-78.
Lin Justin J, Lehmann Lynn W, Bonora Giancarlo, Sridharan Rupa, Vashisht Ajay A, Tran Nancy, Plath Kathrin, Wohlschlegel James A, Carey Michael   Mediator coordinates PIC assembly with recruitment of CHD1 Genes & Development, 2011; 25(20): 2198-209.
Plath Kathrin, Lowry William E   Progress in understanding reprogramming to the induced pluripotent state Nature Reviews Genetics, 2011; 12(4): 253-65.
Papp Bernadett, Plath Kathrin   Reprogramming to pluripotency: stepwise resetting of the epigenetic landscape Cell Research, 2011; 21(3): 486-501.
Sridharan Rupa, Plath Kathrin   Small RNAs loom large during reprogramming Cell Stem Cell, 2011; 8(6): 599-601.
Tchieu Jason, Kuoy Edward, Chin Mark H, Trinh Hung, Patterson Michaela, Sherman Sean P, Aimiuwu Otaren, Lindgren Anne, Hakimian Shahrad, Zack Jerome A, Clark Amander T, Pyle April D, Lowry William E, Plath Kathrin   Female human iPSCs retain an inactive X chromosome Cell Stem Cell, 2010; 7(3): 329-42.
Hiratani Ichiro, Ryba Tyrone, Itoh Mari, Rathjen Joy, Kulik Michael, Papp Bernadett, Fussner Eden, Bazett-Jones David P, Plath Kathrin, Dalton Stephen, Rathjen Peter D, Gilbert David M   Genome-wide dynamics of replication timing revealed by in vitro models of mouse embryogenesis Genome Research, 2010; 20(2): 155-69.
Mayshar Yoav, Ben-David Uri, Lavon Neta, Biancotti Juan-Carlos, Yakir Benjamin, Clark Amander T, Plath Kathrin, Lowry William E, Benvenisty Nissim   Identification and classification of chromosomal aberrations in human induced pluripotent stem cells Cell Stem Cell, 2010; 7(4): 521-31.
Mason Mike J, Plath Kathrin, Zhou Qing   Identification of context-dependent motifs by contrasting ChIP binding data Bioinformatics, 2010; 26(22): 2826-32.
Chin Mark H, Pellegrini Matteo, Plath Kathrin, Lowry William E   Molecular analyses of human induced pluripotent stem cells and embryonic stem cells Cell Stem Cell, 2010; 7(2): 263-9.
Daley George Q, Lensch M William, Jaenisch Rudolf, Meissner Alex, Plath Kathrin, Yamanaka Shinya.   Broader implications of defining standards for the pluripotency of iPSCs Cell Stem Cell, 2009; 4(3): 200-1.
Gaspar-Maia Alexandre, Alajem Adi, Polesso Fanny, Sridharan Rupa, Mason Mike J, Heidersbach Amy, Ramalho-Santos João, McManus Michael T, Plath Kathrin, Meshorer Eran, Ramalho-Santos Miguel.   Chd1 regulates open chromatin and pluripotency of embryonic stem cells Nature, 2009; 460(7257): 863-8.
Park Tae Sub, Galic Zoran, Conway Anne E, Lindgren Anne, van Handel Benjamin J, Magnusson Mattias, Richter Laura, Teitell Michael A, Mikkola Hanna K A, Lowry William E, Plath Kathrin, Clark Amander T.   Derivation of primordial germ cells from human embryonic and induced pluripotent stem cells is significantly improved by coculture with human fetal gonadal cells Stem Cells, 2009; 27(4): 783-95.
Karumbayaram Saravanan, Novitch Bennett G, Patterson Michaela, Umbach Joy A, Richter Laura, Lindgren Anne, Conway Anne E, Clark Amander T, Goldman Steve A, Plath Kathrin, Wiedau-Pazos Martina, Kornblum Harley I, Lowry William E.   Directed differentiation of human-induced pluripotent stem cells generates active motor neurons Stem Cells, 2009; 27(4): 806-11.
Hochedlinger Konrad, Plath Kathrin.   Epigenetic reprogramming and induced pluripotency Development, 2009; 136(4): 509-23.
Xie Wei, Song Chunying, Young Nicolas L, Sperling Adam S, Xu Feng, Sridharan Rupa, Conway Anne E, Garcia Benjamin A, Plath Kathrin, Clark Amander T, Grunstein Michael.   Histone h3 lysine 56 acetylation is linked to the core transcriptional network in human embryonic stem cells Molecular Cell, 2009; 33(4): 417-27.
Chin Mark H, Mason Mike J, Xie Wei, Volinia Stefano, Singer Mike, Peterson Cory, Ambartsumyan Gayane, Aimiuwu Otaren, Richter Laura, Zhang Jin, Khvorostov Ivan, Ott Vanessa, Grunstein Michael, Lavon Neta, Benvenisty Nissim, Croce Carlo M, Clark Amander T, Baxter Tim, Pyle April D, Teitell Mike A, Pelegrini Matteo, Plath Kathrin, Lowry William E.   Induced pluripotent stem cells and embryonic stem cells are distinguished by gene expression signatures Cell Stem Cell, 2009; 5(1): 111-23.
Saxe Jonathan P, Tomilin Alexey, Schöler Hans R, Plath Kathrin, Huang Jing.   Post-translational regulation of Oct4 transcriptional activity PloS One, 2009; 4(2): e4467.
Sridharan Rupa, Tchieu Jason, Mason Mike J, Yachechko Robin, Kuoy Edward, Horvath Steve, Zhou Qing, Plath Kathrin.   Role of the murine reprogramming factors in the induction of pluripotency CELL, 2009; 136(2): 364-77.
Mason Mike J, Fan Guoping, Plath Kathrin, Zhou Qing, Horvath Steve.   Signed weighted gene co-expression network analysis of transcriptional regulation in murine embryonic stem cells BMC Genomics, 2009; 10(7257): 327.
Xu Jian, Watts Jason A, Pope Scott D, Gadue Paul, Kamps Mark, Plath Kathrin, Zaret Kenneth S, Smale Stephen T   Transcriptional competence and the active marking of tissue-specific enhancers by defined transcription factors in embryonic and induced pluripotent stem cells Genes & Development, 2009; 23(24): 2824-38.
Kanellopoulou Chryssa, Muljo Stefan A, Dimitrov Stoil D, Chen Xi, Colin Christian, Plath Kathrin, Livingston David M.   X chromosome inactivation in the absence of Dicer Proceedings of the National Academy of Sciences of the United States of America, 2009; 106(4): 1122-7.
Lowry W E, Richter L, Yachechko R, Pyle A D, Tchieu J, Sridharan R, Clark A T, Plath K   Generation of human induced pluripotent stem cells from dermal fibroblasts Proc. Natl. Acad. Sci. U.S.A, 2008; 105(8): 2883-8.
Sridharan Rupa and Plath Kathrin.   Illuminating the black box of reprogramming Cell Stem Cell, 2008; 2(4): 295-7.
Schenke-Layland Katja, Rhodes Katrin E, Angelis Ekaterini, Butylkova Yekaterina, Heydarkhan-Hagvall Sepideh, Gekas Christos, Zhang Rui, Goldhaber Joshua I, Mikkola Hanna K, Plath Kathrin, MacLellan W Robb   Reprogrammed mouse fibroblasts differentiate into cells of the cardiovascular and hematopoietic lineages Stem Cells, 2008; 26(6): 1537-46.
Lowry William E and Plath Kathrin.   The many ways to make an iPS cell Nature Biotechnology, 2008; 26(11): 1246-8.
Maherali Nimet, Sridharan Rupa, Xie Wei, Utikal Jochen, Eminli Sarah, Arnold Katrin, Stadtfeld Matthias, Yachechko Robin, Tchieu Jason, Jaenisch Rudolf, Plath Kathrin, Hochedlinger Konrad   Directly reprogrammed fibroblasts show global epigenetic remodeling and widespread tissue contribution Cell stem cell, 2007; 1(1): 55-70.
Nusinow Dmitri A, Sharp Judith A, Morris Alana, Salas Sonia, Plath Kathrin, Panning Barbara   The histone domain of macroH2A1 contains several dispersed elements that are each sufficient to direct enrichment on the inactive X chromosome J. Mol. Biol, 2007; 371(1): 11-8.
Bernstein Bradley E, Mikkelsen Tarjei S, Xie Xiaohui, Kamal Michael, Huebert Dana J, Cuff James, Fry Ben, Meissner Alex, Wernig Marius, Plath Kathrin, Jaenisch Rudolf, Wagschal Alexandre, Feil Robert, Schreiber Stuart L, Lander Eric S   A bivalent chromatin structure marks key developmental genes in embryonic stem cells Cell, 2006; 125(2): 315-26.
Beard Caroline, Hochedlinger Konrad, Plath Kathrin, Wutz Anton, Jaenisch Rudolf   Efficient method to generate single-copy transgenic mice by site-specific integration in embryonic stem cells Genesis (New York, N.Y. : 2000), 2006; 44(1): 23-8.
Chu Feixia, Nusinow Dmitri A, Chalkley Robert J, Plath Kathrin, Panning Barbara, Burlingame Alma L   Mapping post-translational modifications of the histone variant MacroH2A1 using tandem mass spectrometry Molecular & cellular proteomics : MCP, 2006; 5(1): 194-203.
Boyer Laurie A, Plath Kathrin, Zeitlinger Julia, Brambrink Tobias, Medeiros Lea A, Lee Tong Ihn, Levine Stuart S, Wernig Marius, Tajonar Adriana, Ray Mridula K, Bell George W, Otte Arie P, Vidal Miguel, Gifford David K, Young Richard A, Jaenisch Rudolf   Polycomb complexes repress developmental regulators in murine embryonic stem cells Nature, 2006; 441(7091): 349-53.
de la Cruz Cecile C, Fang Jia, Plath Kathrin, Worringer Kathleen A, Nusinow Dmitri A, Zhang Yi, Panning Barbara   Developmental regulation of Suz 12 localization Chromosoma, 2005; 114(3): 183-92.
Plath Kathrin, Talbot Dale, Hamer Karien M, Otte Arie P, Yang Thomas P, Jaenisch Rudolf, Panning Barbara   Developmentally regulated alterations in Polycomb repressive complex 1 proteins on the inactive X chromosome The Journal of cell biology, 2004; 167(6): 1025-35.
Plath Kathrin, Wilkinson Barrie M, Stirling Colin J, Rapoport Tom A   Interactions between Sec complex and prepro-alpha-factor during posttranslational protein transport into the endoplasmic reticulum Molecular biology of the cell, 2004; 15(1): 1-10.
Plath Kathrin, Fang Jia, Mlynarczyk-Evans Susanna K, Cao Ru, Worringer Kathleen A, Wang Hengbin, de la Cruz Cecile C, Otte Arie P, Panning Barbara, Zhang Yi   Role of histone H3 lysine 27 methylation in X inactivation Science (New York, N.Y.), 2003; 300(5616): 131-5.
Plath Kathrin, Mlynarczyk-Evans Susanna, Nusinow Dmitri A, Panning Barbara   Xist RNA and the mechanism of X chromosome inactivation Annual review of genetics, 2002; 36: 233-78.
Plath K, Rapoport TA   Spontaneous release of cytosolic proteins from posttranslational substrates before their transport into the endoplasmic reticulum J Cell Biol, 2000; 151(1): 167-78.
Menetret JF, Neuhof A, Morgan DG, Plath K, Radermacher M, Rapoport TA, Akey CW   The structure of ribosome-channel complexes engaged in protein translocation Mol Cell, 2000; 6(5): 1219-32.
Matlack KE, Misselwitz B, Plath K, Rapoport TA   BiP acts as a molecular ratchet during posttranslational transport of prepro-alpha factor across the ER membrane Cell, 1999; 97(5): 553-64.
Rapoport TA, Matlack KE, Plath K, Misselwitz B, Staeck O   Posttranslational protein translocation across the membrane of the endoplasmic reticulum Biol Chem, 1999; 380(10): 1143-50.
Plath K, Mothes W, Wilkinson BM, Stirling CJ, Rapoport TA   Signal sequence recognition in posttranslational protein transport across the yeast ER membrane Cell, 1998; 94(6): 795-807.
Matlack KE, Plath K, Misselwitz B, Rapoport TA   Protein transport by purified yeast Sec complex and Kar2p without membranes Science, 1997; 277(5328): 938-41.
Finke K*, Plath K*, Panzner S, Prehn S, Rapoport TA, Hartmann E, Sommer T   A second trimeric complex containing homologs of the Sec61p complex functions in protein transport across the ER membrane of S. cerevisiae Embo J, 1996; 15(7): 1482-94 * both authors contributed equally.
Hanein D, Matlack KE, Jungnickel B, Plath K, Kalies KU, Miller KR, Rapoport TA, Akey CW   Oligomeric rings of the Sec61p complex induced by ligands required for protein translocation Cell, 1996; 87(4): 721-32.
Engel K, Schultz H, Martin F, Kotlyarov A, Plath K, Hahn M, Heinemann U, Gaestel M   Constitutive activation of mitogen-activated protein kinase-activated protein kinase 2 by mutation of phosphorylation sites and an A-helix motif J Biol Chem, 1995; 270(45): 27213-21.
Plath K, Engel K, Schwedersky G, Gaestel M   Characterization of the proline-rich region of mouse MAPKAP kinase 2: influence on catalytic properties and binding to the c-abl SH3 domain in vitro Biochem Biophys Res Commun, 1994; 203(2): 1188-94.
Engel K, Plath K, Gaestel M   The MAP kinase-activated protein kinase 2 contains a proline-rich SH3-binding domain FEBS Lett, 1993; 336(1): 143-7.
Jelinek David, Flores Aimee, Uebelhoer Melanie, Pasque Vincent, Plath Kathrin, Iruela-Arispe M Luisa, Christofk Heather R, Lowry William E, Coller Hilary A   Mapping Metabolism: Monitoring Lactate Dehydrogenase Activity Directly in Tissue Journal of visualized experiments : JoVE, 2018; 15(136): 732-740.
Patananan Alexander N, Sercel Alexander J, Wu Ting-Hsiang, Ahsan Fasih M, Torres Alejandro, Kennedy Stephanie A L, Vandiver Amy, Collier Amanda J, Mehrabi Artin, Van Lew Jon, Zakin Lise, Rodriguez Noe, Sixto Marcos, Tadros Wael, Lazar Adam, Sieling Peter A, Nguyen Thang L, Dawson Emma R, Braas Daniel, Golovato Justin, Cisneros Luis, Vaske Charles, Plath Kathrin, Rabizadeh Shahrooz, Niazi Kayvan R, Chiou Pei-Yu, Teitell Michael A   Pressure-Driven Mitochondrial Transfer Pipeline Generates Mammalian Cells of Desired Genetic Combinations and Fates Cell reports, 2020; 33(13): 108562.
Meshorer Eran, Plath Kathrin   Chromatin and Nuclear Architecture in Stem Cells Stem cell reports, 2020; 15(6): 1155-1157.
Purkayastha Arunima, Sen Chandani, Garcia Gustavo, Langerman Justin, Shia David W, Meneses Luisa K, Vijayaraj Preethi, Durra Abdo, Koloff Caroline R, Freund Delilah R, Chi Justin, Rickabaugh Tammy M, Mulay Apoorva, Konda Bindu, Sim Myung S, Stripp Barry R, Plath Kathrin, Arumugaswami Vaithilingaraja, Gomperts Brigitte N   Direct Exposure to SARS-CoV-2 and Cigarette Smoke Increases Infection Severity and Alters the Stem Cell-Derived Airway Repair Response Cell stem cell, 2020; 27(6): 869-875.e4.
Chitiashvili Tsotne, Dror Iris, Kim Rachel, Hsu Fei-Man, Chaudhari Rohan, Pandolfi Erica, Chen Di, Liebscher Simone, Schenke-Layland Katja, Plath Kathrin, Clark Amander   Female human primordial germ cells display X-chromosome dosage compensation despite the absence of X-inactivation Nature cell biology, 2020; 22(12): 1436-1446.
Pandya-Jones Amy, Markaki Yolanda, Serizay Jacques, Chitiashvili Tsotne, Mancia Leon Walter R, Damianov Andrey, Chronis Constantinos, Papp Bernadett, Chen Chun-Kan, McKee Robin, Wang Xiao-Jun, Chau Anthony, Sabri Shan, Leonhardt Heinrich, Zheng Sika, Guttman Mitchell, Black Douglas L, Plath Kathrin   A protein assembly mediates Xist localization and gene silencing Nature, 2020; 587(7832): 145-151.
Xi Haibin, Langerman Justin, Sabri Shan, Chien Peggie, Young Courtney S, Younesi Shahab, Hicks Michael, Gonzalez Karen, Fujiwara Wakana, Marzi Julia, Liebscher Simone, Spencer Melissa, Van Handel Ben, Evseenko Denis, Schenke-Layland Katja, Plath Kathrin, Pyle April D   A Human Skeletal Muscle Atlas Identifies the Trajectories of Stem and Progenitor Cells across Development and from Human Pluripotent Stem Cells Cell stem cell, 2020; 27(1): 181-185.
Takahashi Rie, Grzenda Adrienne, Allison Thomas F, Rawnsley Jeffrey, Balin Samuel J, Sabri Shan, Plath Kathrin, Lowry William E   Defining Transcriptional Signatures of Human Hair Follicle Cell States The Journal of investigative dermatology, 2020; 140(4): 764-773.e4.
Polioudakis Damon, de la Torre-Ubieta Luis, Langerman Justin, Elkins Andrew G, Shi Xu, Stein Jason L, Vuong Celine K, Nichterwitz Susanne, Gevorgian Melinda, Opland Carli K, Lu Daning, Connell William, Ruzzo Elizabeth K, Lowe Jennifer K, Hadzic Tarik, Hinz Flora I, Sabri Shan, Lowry William E, Gerstein Mark B, Plath Kathrin, Geschwind Daniel H   A Single-Cell Transcriptomic Atlas of Human Neocortical Development during Mid-gestation Neuron, 2019; 103(5): 785-801.e8.
Bonora Giancarlo, Rubbi Liudmilla, Morselli Marco, Ma Feiyang, Chronis Constantinos, Plath Kathrin, Pellegrini Matteo   DNA methylation estimation using methylation-sensitive restriction enzyme bisulfite sequencing (MREBS) PloS one, 2019; 14(4): e0214368.
Sun Fei, Chronis Constantinos, Kronenberg Michael, Chen Xiao-Fen, Su Trent, Lay Fides D, Plath Kathrin, Kurdistani Siavash K, Carey Michael F   Promoter-Enhancer Communication Occurs Primarily within Insulated Neighborhoods Molecular cell, 2019; 73(2): 250-263.e5.
Zhang Wensheng, Chronis Constantinos, Chen Xi, Zhang Heyao, Spalinskas Rapolas, Pardo Mercedes, Chen Liangliang, Wu Guangming, Zhu Zhexin, Yu Yong, Yu Lu, Choudhary Jyoti, Nichols Jennifer, Parast Mana M, Greber Boris, Sahlén Pelin, Plath Kathrin   The BAF and PRC2 Complex Subunits Dpf2 and Eed Antagonistically Converge on Tbx3 to Control ESC Differentiation Cell stem cell, 2019; 24(1): 138-152.e8.
Fu Kai, Chronis Constantinos, Soufi Abdenour, Bonora Giancarlo, Edwards Miguel, Smale Stephen T, Zaret Kenneth S, Plath Kathrin, Pellegrini Matteo   Comparison of reprogramming factor targets reveals both species-specific and conserved mechanisms in early iPSC reprogramming BMC genomics, 2018; 19(1): 956.
Di Stefano Bruno, Ueda Mai, Sabri Shan, Brumbaugh Justin, Huebner Aaron J, Sahakyan Anna, Clement Kendell, Clowers Katie J, Erickson Alison R, Shioda Keiko, Gygi Steven P, Gu Hongcang, Shioda Toshi, Meissner Alexander, Takashima Yasuhiro, Plath Kathrin, Hochedlinger Konrad   Reduced MEK inhibition preserves genomic stability in naive human embryonic stem cells Nature methods, 2018; 15(9): 732-740.
Sereti Konstantina-Ioanna, Nguyen Ngoc B, Kamran Paniz, Zhao Peng, Ranjbarvaziri Sara, Park Shuin, Sabri Shan, Engel James L, Sung Kevin, Kulkarni Rajan P, Ding Yichen, Hsiai Tzung K, Plath Kathrin, Ernst Jason, Sahoo Debashis, Mikkola Hanna K A, Iruela-Arispe M Luisa, Ardehali Reza   Analysis of cardiomyocyte clonal expansion during mouse heart development and injury Nature communications, 2018; 9(1): 754.