Karla M Neugebauer, PhD

• Albert Ko
• Anne Wyllie
• Ellen F Foxman
• Haifan Lin
• Harvey Kliman
• Joe Howard
• Joerg Bewersdorf
• Liza Konnikova
• Manoj M Pillai
• Marie-Louise Landry
• Matt Simon
• Nathan Grubaugh
• Richard A Martinello
• Seth Guller
• Shelli Farhadian
• Siyuan (Steven) Wang
• Stephanie Halene

Biochemistry; Biophysics; Cell Nucleus; Cell Biology; Molecular Biology; RNA Splicing; Saccharomyces cerevisiae; Schizosaccharomyces; Transcription, Genetic; Zebrafish; Alternative Splicing; Genomics; Nuclear Cap-Binding Protein Complex

• Transcription elongation defects link oncogenic SF3B1 mutations to targetable alterations in chromatin landscapeBoddu P, Gupta A, Roy R, De La Peña Avalos B, Olazabal-Herrero A, Neuenkirchen N, Zimmer J, Chandhok N, King D, Nannya Y, Ogawa S, Lin H, Simon M, Dray E, Kupfer G, Verma A, Neugebauer K, Pillai M. Transcription elongation defects link oncogenic SF3B1 mutations to targetable alterations in chromatin landscape. Molecular Cell 2024 PMID: 38521065, DOI: 10.1016/j.molcel.2024.02.032.
• Co-transcriptional gene regulation in eukaryotes and prokaryotesShine M, Gordon J, Schärfen L, Zigackova D, Herzel L, Neugebauer K. Co-transcriptional gene regulation in eukaryotes and prokaryotes. Nature Reviews Molecular Cell Biology 2024, 1-21. PMID: 38509203, DOI: 10.1038/s41580-024-00706-2.
• How cell biology can save the planetNeugebauer K. How cell biology can save the planet. Nature Cell Biology 2024, 26: 4-4. PMID: 38228830, DOI: 10.1038/s41556-023-01305-7.
• Impaired Early Spliceosome Complex Assembly Underlies Gene Body Elongation Transcription Defect in SF3B1K700EBoddu P, Gupta A, Roy R, De La Pena Avalos B, Herrero A, Zimmer J, Simon M, Chandhok N, King D, Neuenkirchen N, Dray E, Lin H, Kupfer G, Verma A, Neugebauer K, Pillai M. Impaired Early Spliceosome Complex Assembly Underlies Gene Body Elongation Transcription Defect in SF3B1K700E. Blood 2023, 142: 714. DOI: 10.1182/blood-2023-187303.
• Transcription Defects in SF3B1K700E Induce Targetable Alterations in the Chromatin LandscapeBoddu P, Gupta A, Roy R, Herrero A, Verma A, Neugebauer K, Pillai M. Transcription Defects in SF3B1K700E Induce Targetable Alterations in the Chromatin Landscape. Blood 2023, 142: 709. DOI: 10.1182/blood-2023-188083.
• Five questions on how biochemistry can combat climate changeChen K, Guo Y, How K, Acosta A, Documet D, Liang C, Arul D, Wood S, Moon K, Oliver L, Fajardo E, Kopyto M, Shine M, Neugebauer K. Five questions on how biochemistry can combat climate change. BBA Advances 2023, 4: 100111. PMID: 38075469, PMCID: PMC10709155, DOI: 10.1016/j.bbadva.2023.100111.
• Splicing under stress: A matter of time and placePodszywalow-Bartnicka P, Neugebauer K. Splicing under stress: A matter of time and place. Journal Of Cell Biology 2023, 222: e202311014. PMID: 37988026, PMCID: PMC10660129, DOI: 10.1083/jcb.202311014.
• The promoter as a trip navigator: Guiding alternative polyadenylation site destinationsBergfort A, Neugebauer K. The promoter as a trip navigator: Guiding alternative polyadenylation site destinations. Molecular Cell 2023, 83: 2395-2397. PMID: 37478824, DOI: 10.1016/j.molcel.2023.06.022.
• Tudor–dimethylarginine interactions: the condensed versionŠimčíková D, Gelles-Watnick S, Neugebauer K. Tudor–dimethylarginine interactions: the condensed version. Trends In Biochemical Sciences 2023, 48: 689-698. PMID: 37156649, PMCID: PMC10524826, DOI: 10.1016/j.tibs.2023.04.003.
• An integrated platform for high-throughput nanoscopyBarentine A, Lin Y, Courvan E, Kidd P, Liu M, Balduf L, Phan T, Rivera-Molina F, Grace M, Marin Z, Lessard M, Rios Chen J, Wang S, Neugebauer K, Bewersdorf J, Baddeley D. An integrated platform for high-throughput nanoscopy. Nature Biotechnology 2023, 41: 1549-1556. PMID: 36914886, PMCID: PMC10497732, DOI: 10.1038/s41587-023-01702-1.
• U2AF1 Splicing Factor Mutations Affect RNA Subcellular Compartmentalization in Myeloid MalignanciesBiancon G, Busarello E, Lessard M, Courvan E, Escayola D, VanOudenhove J, Lee V, Krick M, Bewersdorf J, Neugebauer K, Tebaldi T, Halene S. U2AF1 Splicing Factor Mutations Affect RNA Subcellular Compartmentalization in Myeloid Malignancies. Blood 2022, 140: 1271-1272. DOI: 10.1182/blood-2022-170043.
• Transcriptome-wide mapping reveals a diverse dihydrouridine landscape including mRNADraycott AS, Schaening-Burgos C, Rojas-Duran MF, Wilson L, Schärfen L, Neugebauer KM, Nachtergaele S, Gilbert WV. Transcriptome-wide mapping reveals a diverse dihydrouridine landscape including mRNA. PLOS Biology 2022, 20: e3001622. PMID: 35609439, PMCID: PMC9129914, DOI: 10.1371/journal.pbio.3001622.
• Integrative genome-wide analysis reveals EIF3A as a key downstream regulator of translational repressor protein Musashi 2 (MSI2)Karmakar S, Ramirez O, Paul KV, Gupta AK, Kumari V, Botti V, de los Mozos IR, Neuenkirchen N, Ross RJ, Karanicolas J, Neugebauer KM, Pillai MM. Integrative genome-wide analysis reveals EIF3A as a key downstream regulator of translational repressor protein Musashi 2 (MSI2). NAR Cancer 2022, 4: zcac015. PMID: 35528200, PMCID: PMC9070473, DOI: 10.1093/narcan/zcac015.
• Precision analysis of mutant U2AF1 activity reveals deployment of stress granules in myeloid malignanciesBiancon G, Joshi P, Zimmer JT, Hunck T, Gao Y, Lessard MD, Courchaine E, Barentine AES, Machyna M, Botti V, Qin A, Gbyli R, Patel A, Song Y, Kiefer L, Viero G, Neuenkirchen N, Lin H, Bewersdorf J, Simon MD, Neugebauer KM, Tebaldi T, Halene S. Precision analysis of mutant U2AF1 activity reveals deployment of stress granules in myeloid malignancies. Molecular Cell 2022, 82: 1107-1122.e7. PMID: 35303483, PMCID: PMC8988922, DOI: 10.1016/j.molcel.2022.02.025.
• PYME: an integrated platform for high-throughput nanoscopyBarentine A, Lin Y, Courvan E, Kidd P, Liu M, Balduf L, Phan T, Rivera-Molina F, Grace M, Marin Z, Chen J, Wang S, Neugebauer K, Baddeley D, Bewersdorf J. PYME: an integrated platform for high-throughput nanoscopy. Biophysical Journal 2022, 121: 137a. DOI: 10.1016/j.bpj.2021.11.2009.
• Identification of Alternative Polyadenylation in Cyanidioschyzon merolae Through Long-Read Sequencing of mRNASchärfen L, Zigackova D, Reimer KA, Stark MR, Slat VA, Francoeur NJ, Wells ML, Zhou L, Blackshear PJ, Neugebauer KM, Rader SD. Identification of Alternative Polyadenylation in Cyanidioschyzon merolae Through Long-Read Sequencing of mRNA. Frontiers In Genetics 2022, 12: 818697. PMID: 35154260, PMCID: PMC8831791, DOI: 10.3389/fgene.2021.818697.
• U2AF1 Mutations Enhance Stress Granule Response in Myeloid MalignanciesBiancon G, Joshi P, Zimmer J, Hunck T, Gao Y, Lessard M, Courchaine E, Barentine A, Machyna M, Botti V, Qin A, Gbyli R, Patel A, Song Y, Kiefer L, Viero G, Neuenkirchen N, Lin H, Bewersdorf J, Simon M, Neugebauer K, Tebaldi T, Halene S. U2AF1 Mutations Enhance Stress Granule Response in Myeloid Malignancies. Blood 2021, 138: 321. DOI: 10.1182/blood-2021-149618.
• Generation of scalable cancer models by combining AAV-intron-trap, CRISPR/Cas9, and inducible Cre-recombinaseBoddu PC, Gupta AK, Kim JS, Neugebauer KM, Waldman T, Pillai MM. Generation of scalable cancer models by combining AAV-intron-trap, CRISPR/Cas9, and inducible Cre-recombinase. Communications Biology 2021, 4: 1184. PMID: 34645977, PMCID: PMC8514589, DOI: 10.1038/s42003-021-02690-1.
• DMA-tudor interaction modules control the specificity of in vivo condensatesCourchaine EM, Barentine AES, Straube K, Lee DR, Bewersdorf J, Neugebauer KM. DMA-tudor interaction modules control the specificity of in vivo condensates. Cell 2021, 184: 3612-3625.e17. PMID: 34115980, PMCID: PMC8402948, DOI: 10.1016/j.cell.2021.05.008.
• Maternal respiratory SARS-CoV-2 infection in pregnancy is associated with a robust inflammatory response at the maternal-fetal interfaceLu-Culligan A, Chavan AR, Vijayakumar P, Irshaid L, Courchaine EM, Milano KM, Tang Z, Pope SD, Song E, Vogels CBF, Lu-Culligan WJ, Campbell KH, Casanovas-Massana A, Bermejo S, Toothaker JM, Lee HJ, Liu F, Schulz W, Fournier J, Muenker MC, Moore AJ, Team Y, Konnikova L, Neugebauer KM, Ring A, Grubaugh ND, Ko AI, Morotti R, Guller S, Kliman HJ, Iwasaki A, Farhadian SF. Maternal respiratory SARS-CoV-2 infection in pregnancy is associated with a robust inflammatory response at the maternal-fetal interface. Med 2021, 2: 591-610.e10. PMID: 33969332, PMCID: PMC8084634, DOI: 10.1016/j.medj.2021.04.016.
• Coast-to-Coast Spread of SARS-CoV-2 during the Early Epidemic in the United StatesFauver JR, Petrone ME, Hodcroft EB, Shioda K, Ehrlich HY, Watts AG, Vogels CBF, Brito AF, Alpert T, Muyombwe A, Razeq J, Downing R, Cheemarla NR, Wyllie AL, Kalinich CC, Ott IM, Quick J, Loman NJ, Neugebauer KM, Greninger AL, Jerome KR, Roychoudhury P, Xie H, Shrestha L, Huang ML, Pitzer VE, Iwasaki A, Omer SB, Khan K, Bogoch II, Martinello RA, Foxman EF, Landry ML, Neher RA, Ko AI, Grubaugh ND. Coast-to-Coast Spread of SARS-CoV-2 during the Early Epidemic in the United States. Cell 2020, 181: 990-996.e5. PMID: 32386545, PMCID: PMC7204677, DOI: 10.1016/j.cell.2020.04.021.
• Heat Oscillations Driven by the Embryonic Cell Cycle Reveal the Energetic Costs of SignalingRodenfels J, Neugebauer KM, Howard J. Heat Oscillations Driven by the Embryonic Cell Cycle Reveal the Energetic Costs of Signaling. Developmental Cell 2020, 53: 492. PMID: 32428456, PMCID: PMC7374639, DOI: 10.1016/j.devcel.2020.04.023.
• Contribution of increasing plasma membrane to the energetic cost of early zebrafish embryogenesisRodenfels J, Sartori P, Golfier S, Nagendra K, Neugebauer K, Howard J. Contribution of increasing plasma membrane to the energetic cost of early zebrafish embryogenesis. Molecular Biology Of The Cell 2020, 31: 520-526. PMID: 32049586, PMCID: PMC7202076, DOI: 10.1091/mbc.e19-09-0529.
• U2AF1 Driver Mutations in Hematopoietic Disorders Alter but Do Not Abrogate RNA Binding and Enlighten Structural Dependencies of the U2AF-RNA ComplexBiancon G, Joshi P, Hunck T, Gao Y, Botti V, Qin A, Sadykov M, Wang X, Viero G, Neuenkirchen N, Taylor A, Huang J, Ardasheva A, Fu X, Lin H, Pillai M, Kielkopf C, Neugebauer K, Tebaldi T, Halene S. U2AF1 Driver Mutations in Hematopoietic Disorders Alter but Do Not Abrogate RNA Binding and Enlighten Structural Dependencies of the U2AF-RNA Complex. Blood 2019, 134: 1230. DOI: 10.1182/blood-2019-130759.
• Uncoupling of nucleo-cytoplasmic RNA export and localization during stressHochberg-Laufer H, Schwed-Gross A, Neugebauer KM, Shav-Tal Y. Uncoupling of nucleo-cytoplasmic RNA export and localization during stress. Nucleic Acids Research 2019, 47: gkz168-. PMID: 30864659, PMCID: PMC6511838, DOI: 10.1093/nar/gkz168.
• Dynamics and Function of Nuclear Bodies during EmbryogenesisEscayola D, Neugebauer K. Dynamics and Function of Nuclear Bodies during Embryogenesis. Biochemistry 2018, 57: 2462-2469. PMID: 29473743, DOI: 10.1021/acs.biochem.7b01262.
• Are Cajal Bodies Droplet Organelles?Courchaine E, Neugebauer K. Are Cajal Bodies Droplet Organelles? Biophysical Journal 2018, 114: 440a. DOI: 10.1016/j.bpj.2017.11.2434.
• Coupling between Transcription & Splicing Tunes Gene ExpressionNeugebauer K. Coupling between Transcription & Splicing Tunes Gene Expression. Biophysical Journal 2018, 114: 366a. DOI: 10.1016/j.bpj.2017.11.2026.
• RNA tales – how embryos read and discard messages from momDespic V, Neugebauer KM. RNA tales – how embryos read and discard messages from mom. Journal Of Cell Science 2018, 131: jcs201996. PMID: 29467249, DOI: 10.1242/jcs.201996.
• Analysis of RNA-protein interactions in vertebrate embryos using UV crosslinking approachesDespic V, Dejung M, Butter F, Neugebauer KM. Analysis of RNA-protein interactions in vertebrate embryos using UV crosslinking approaches. Methods 2017, 126: 44-53. PMID: 28734934, DOI: 10.1016/j.ymeth.2017.07.013.
• Cellular differentiation state modulates the mRNA export activity of SR proteinsBotti V, McNicoll F, Steiner MC, Richter FM, Solovyeva A, Wegener M, Schwich OD, Poser I, Zarnack K, Wittig I, Neugebauer KM, Müller-McNicoll M. Cellular differentiation state modulates the mRNA export activity of SR proteins. Journal Of Cell Biology 2017, 216: 1993-2009. PMID: 28592444, PMCID: PMC5496613, DOI: 10.1083/jcb.201610051.
• Special focus on the Cajal BodyNeugebauer KM. Special focus on the Cajal Body. RNA Biology 2017, 14: 669-670. PMID: 28486008, PMCID: PMC5519238, DOI: 10.1080/15476286.2017.1316928.
• Purification of Zygotically Transcribed RNA through Metabolic Labeling of Early Zebrafish EmbryosHeyn P, Neugebauer KM. Purification of Zygotically Transcribed RNA through Metabolic Labeling of Early Zebrafish Embryos. 2017, 1605: 121-131. PMID: 28456961, DOI: 10.1007/978-1-4939-6988-3_8.
• Dynamic RNA–protein interactions underlie the zebrafish maternal-to-zygotic transitionDespic V, Dejung M, Gu M, Krishnan J, Zhang J, Herzel L, Straube K, Gerstein MB, Butter F, Neugebauer KM. Dynamic RNA–protein interactions underlie the zebrafish maternal-to-zygotic transition. Genome Research 2017, 27: 1184-1194. PMID: 28381614, PMCID: PMC5495070, DOI: 10.1101/gr.215954.116.
• Activation of transcription enforces the formation of distinct nuclear bodies in zebrafish embryosHeyn P, Salmonowicz H, Rodenfels J, Neugebauer KM. Activation of transcription enforces the formation of distinct nuclear bodies in zebrafish embryos. RNA Biology 2016, 14: 752-760. PMID: 27858508, PMCID: PMC5519242, DOI: 10.1080/15476286.2016.1255397.
• Splicing of Nascent RNA Coincides with Intron Exit from RNA Polymerase IIOesterreich F, Herzel L, Straube K, Hujer K, Howard J, Neugebauer KM. Splicing of Nascent RNA Coincides with Intron Exit from RNA Polymerase II. Cell 2016, 165: 372-381. PMID: 27020755, PMCID: PMC4826323, DOI: 10.1016/j.cell.2016.02.045.
• Coilin: The first 25 yearsMachyna M, Neugebauer KM, Staněk D. Coilin: The first 25 years. RNA Biology 2015, 12: 590-596. PMID: 25970135, PMCID: PMC4615369, DOI: 10.1080/15476286.2015.1034923.
• Quantification of co-transcriptional splicing from RNA-Seq dataHerzel L, Neugebauer KM. Quantification of co-transcriptional splicing from RNA-Seq data. Methods 2015, 85: 36-43. PMID: 25929182, DOI: 10.1016/j.ymeth.2015.04.024.
• RNA: master or servant?Neugebauer KM. RNA: master or servant? RNA 2015, 21: 701-702. PMID: 25780198, PMCID: PMC4371340, DOI: 10.1261/rna.051250.115.
• Introns and gene expression: Cellular constraints, transcriptional regulation, and evolutionary consequencesHeyn P, Kalinka AT, Tomancak P, Neugebauer KM. Introns and gene expression: Cellular constraints, transcriptional regulation, and evolutionary consequences. BioEssays 2014, 37: 148-154. PMID: 25400101, PMCID: PMC4654234, DOI: 10.1002/bies.201400138.
• The Coilin Interactome Identifies Hundreds of Small Noncoding RNAs that Traffic through Cajal BodiesMachyna M, Kehr S, Straube K, Kappei D, Buchholz F, Butter F, Ule J, Hertel J, Stadler PF, Neugebauer KM. The Coilin Interactome Identifies Hundreds of Small Noncoding RNAs that Traffic through Cajal Bodies. Molecular Cell 2014, 56: 389-399. PMID: 25514182, DOI: 10.1016/j.molcel.2014.10.004.
• Nuclear bodies: RNA‐rich powerhouses of the cell (471.3)Neugebauer K, Machyna M, Straube K, Heyn P. Nuclear bodies: RNA‐rich powerhouses of the cell (471.3). The FASEB Journal 2014, 28 DOI: 10.1096/fasebj.28.1_supplement.471.3.
• Immunopurification of Endogenous RNAs Associated with RNA Binding Proteins In vivoÄnkö M, Neugebauer K. Immunopurification of Endogenous RNAs Associated with RNA Binding Proteins In vivo. 2014, 1017-1028. DOI: 10.1002/9783527647064.ch45.
• The Earliest Transcribed Zygotic Genes Are Short, Newly Evolved, and Different across SpeciesHeyn P, Kircher M, Dahl A, Kelso J, Tomancak P, Kalinka AT, Neugebauer KM. The Earliest Transcribed Zygotic Genes Are Short, Newly Evolved, and Different across Species. Cell Reports 2014, 6: 285-292. PMID: 24440719, DOI: 10.1016/j.celrep.2013.12.030.
• The nuclear cap-binding complex interacts with the U4/U6·U5 tri-snRNP and promotes spliceosome assembly in mammalian cellsPabis M, Neufeld N, Steiner MC, Bojic T, Shav-Tal Y, Neugebauer KM. The nuclear cap-binding complex interacts with the U4/U6·U5 tri-snRNP and promotes spliceosome assembly in mammalian cells. RNA 2013, 19: 1054-1063. PMID: 23793891, PMCID: PMC3708526, DOI: 10.1261/rna.037069.112.
• Counting on co-transcriptional splicingBrugiolo M, Herzel L, Neugebauer KM. Counting on co-transcriptional splicing. Faculty Reviews 2013, 5: 9. PMID: 23638305, PMCID: PMC3619158, DOI: 10.12703/p5-9.
• How cells get the message: dynamic assembly and function of mRNA–protein complexesMüller-McNicoll M, Neugebauer KM. How cells get the message: dynamic assembly and function of mRNA–protein complexes. Nature Reviews Genetics 2013, 14: 275-287. PMID: 23478349, DOI: 10.1038/nrg3434.
• Cajal bodies: where form meets functionMachyna M, Heyn P, Neugebauer KM. Cajal bodies: where form meets function. Wiley Interdisciplinary Reviews - RNA 2012, 4: 17-34. PMID: 23042601, DOI: 10.1002/wrna.1139.
• First Exon Length Controls Active Chromatin Signatures and TranscriptionBieberstein NI, Oesterreich F, Straube K, Neugebauer KM. First Exon Length Controls Active Chromatin Signatures and Transcription. Cell Reports 2012, 2: 62-68. PMID: 22840397, DOI: 10.1016/j.celrep.2012.05.019.
• Transcription and Pre‐mRNA processing in space and timeNeugebauer K. Transcription and Pre‐mRNA processing in space and time. The FASEB Journal 2012, 26: 228.2-228.2. DOI: 10.1096/fasebj.26.1_supplement.228.2.
• The RNA-binding landscapes of two SR proteins reveal unique functions and binding to diverse RNA classesÄnkö ML, Müller-McNicoll M, Brandl H, Curk T, Gorup C, Henry I, Ule J, Neugebauer KM. The RNA-binding landscapes of two SR proteins reveal unique functions and binding to diverse RNA classes. Genome Biology 2012, 13: r17. PMID: 22436691, PMCID: PMC3439968, DOI: 10.1186/gb-2012-13-3-r17.
• RNA–protein interactions in vivo: global gets specificÄnkö M, Neugebauer KM. RNA–protein interactions in vivo: global gets specific. Trends In Biochemical Sciences 2012, 37: 255-262. PMID: 22425269, DOI: 10.1016/j.tibs.2012.02.005.
• Integration of Splicing with Nuclear and Cellular EventsSapra A, Neugebauer K. Integration of Splicing with Nuclear and Cellular Events. 2012, 109-117. DOI: 10.1002/9783527636778.ch9.
• Splicing Factor ChIP and ChRIP: Detection of Splicing and Splicing Factors at Genes by Chromatin ImmunoprecipitationSapra A, Oesterreich F, Pabis M, Listerman I, Bardehle N, Neugebauer K. Splicing Factor ChIP and ChRIP: Detection of Splicing and Splicing Factors at Genes by Chromatin Immunoprecipitation. 2012, 416-427. DOI: 10.1002/9783527636778.ch39.
• Structural basis for dimethylarginine recognition by the Tudor domains of human SMN and SPF30 proteinsTripsianes K, Madl T, Machyna M, Fessas D, Englbrecht C, Fischer U, Neugebauer KM, Sattler M. Structural basis for dimethylarginine recognition by the Tudor domains of human SMN and SPF30 proteins. Nature Structural & Molecular Biology 2011, 18: 1414-1420. PMID: 22101937, DOI: 10.1038/nsmb.2185.
• Cotranscriptional spliceosome assembly and splicing are independent of the Prp40p WW domainGörnemann J, Barrandon C, Hujer K, Rutz B, Rigaut G, Kotovic KM, Faux C, Neugebauer KM, Séraphin B. Cotranscriptional spliceosome assembly and splicing are independent of the Prp40p WW domain. RNA 2011, 17: 2119-2129. PMID: 22020974, PMCID: PMC3222125, DOI: 10.1261/rna.02646811.
• Pause locally, splice globallyOesterreich F, Bieberstein N, Neugebauer KM. Pause locally, splice globally. Trends In Cell Biology 2011, 21: 328-335. PMID: 21530266, DOI: 10.1016/j.tcb.2011.03.002.
• The In Vivo Kinetics of RNA Polymerase II Elongation during Co-Transcriptional SplicingBrody Y, Neufeld N, Bieberstein N, Causse SZ, Böhnlein EM, Neugebauer KM, Darzacq X, Shav-Tal Y. The In Vivo Kinetics of RNA Polymerase II Elongation during Co-Transcriptional Splicing. PLOS Biology 2011, 9: e1000573. PMID: 21264352, PMCID: PMC3019111, DOI: 10.1371/journal.pbio.1000573.
• Global Analysis of Nascent RNA Reveals Transcriptional Pausing in Terminal ExonsOesterreich F, Preibisch S, Neugebauer KM. Global Analysis of Nascent RNA Reveals Transcriptional Pausing in Terminal Exons. Molecular Cell 2010, 40: 571-581. PMID: 21095587, DOI: 10.1016/j.molcel.2010.11.004.
• The differential interaction of snRNPs with pre-mRNA reveals splicing kinetics in living cellsHuranová M, Ivani I, Benda A, Poser I, Brody Y, Hof M, Shav-Tal Y, Neugebauer KM, Staněk D. The differential interaction of snRNPs with pre-mRNA reveals splicing kinetics in living cells. Journal Of Cell Biology 2010, 191: 75-86. PMID: 20921136, PMCID: PMC2953428, DOI: 10.1083/jcb.201004030.
• Binding properties and dynamic localization of an alternative isoform of the cap-binding complex subunit CBP20Pabis M, Neufeld N, Shav-Tal Y, Neugebauer KM. Binding properties and dynamic localization of an alternative isoform of the cap-binding complex subunit CBP20. Nucleus 2010, 1: 412-421. PMID: 21326824, PMCID: PMC3037537, DOI: 10.4161/nucl.1.5.12839.
• Global analysis reveals SRp20- and SRp75-specific mRNPs in cycling and neural cellsÄnkö M, Morales L, Henry I, Beyer A, Neugebauer KM. Global analysis reveals SRp20- and SRp75-specific mRNPs in cycling and neural cells. Nature Structural & Molecular Biology 2010, 17: 962-970. PMID: 20639886, DOI: 10.1038/nsmb.1862.
• Coilin-dependent snRNP assembly is essential for zebrafish embryogenesisStrzelecka M, Trowitzsch S, Weber G, Lührmann R, Oates AC, Neugebauer KM. Coilin-dependent snRNP assembly is essential for zebrafish embryogenesis. Nature Structural & Molecular Biology 2010, 17: 403-409. PMID: 20357773, DOI: 10.1038/nsmb.1783.
• Dynamic control of Cajal body number during zebrafish embryogenesisStrzelecka M, Oates AC, Neugebauer KM. Dynamic control of Cajal body number during zebrafish embryogenesis. Nucleus 2010, 1: 96-108. PMID: 21327108, PMCID: PMC3035118, DOI: 10.4161/nucl.1.1.10680.
• SR Protein Family Members Display Diverse Activities in the Formation of Nascent and Mature mRNPs In VivoSapra AK, Änkö M, Grishina I, Lorenz M, Pabis M, Poser I, Rollins J, Weiland EM, Neugebauer KM. SR Protein Family Members Display Diverse Activities in the Formation of Nascent and Mature mRNPs In Vivo. Molecular Cell 2009, 34: 179-190. PMID: 19394295, DOI: 10.1016/j.molcel.2009.02.031.
• ReflectionsReichardt L, Tomaselli K, Neugebauer K, Bixby J, Lilien J, Reichardt L. Reflections. Neuron 2008, 60: 398-399. PMID: 18995807, PMCID: PMC2623248, DOI: 10.1016/j.neuron.2008.10.030.
• Fluorescent Detection of Nascent Transcripts and RNA‐binding Proteins in Cell NucleiGeiger J, Neugebauer K. Fluorescent Detection of Nascent Transcripts and RNA‐binding Proteins in Cell Nuclei. 2005, 729-736. DOI: 10.1002/9783527619504.ch44.
• SR proteins are autoantigens in patients with systemic lupus erythematosus: Importance of phosphoepitopesNeugebauer K, Merrill J, Wener M, Lahita R, Roth M. SR proteins are autoantigens in patients with systemic lupus erythematosus: Importance of phosphoepitopes. Arthritis & Rheumatism 2000, 43: 1768-1778. PMID: 10943867, DOI: 10.1002/1529-0131(200008)43:8<1768::aid-anr13>3.0.co;2-9.
• Regulation of Alternative Polyadenylation by U1 snRNPs and SRp20Lou H, Neugebauer K, Gagel R, Berget S. Regulation of Alternative Polyadenylation by U1 snRNPs and SRp20. Molecular And Cellular Biology 1998, 18: 4977-4985. PMID: 9710581, PMCID: PMC109082, DOI: 10.1128/mcb.18.9.4977.
• Transcription units as RNA processing unitsNeugebauer K, Roth M. Transcription units as RNA processing units. Genes & Development 1997, 11: 3279-3285. PMID: 9407022, DOI: 10.1101/gad.11.24.3279.
• Distribution of pre-mRNA splicing factors at sites of RNA polymerase II transcription.Neugebauer K, Roth M. Distribution of pre-mRNA splicing factors at sites of RNA polymerase II transcription. Genes & Development 1997, 11: 1148-1159. PMID: 9159396, DOI: 10.1101/gad.11.9.1148.
• A Subset of SR Proteins Activates Splicing of the Cardiac Troponin T Alternative Exon by Direct Interactions with an Exonic EnhancerRamchatesingh J, Zahler A, Neugebauer K, Roth M, Cooper T. A Subset of SR Proteins Activates Splicing of the Cardiac Troponin T Alternative Exon by Direct Interactions with an Exonic Enhancer. Molecular And Cellular Biology 1995, 15: 4898-4907. PMID: 7651409, PMCID: PMC230736, DOI: 10.1128/mcb.15.9.4898.
• A conserved epitope on a subset of SR proteins defines a larger family of Pre-mRNA splicing factors.Neugebauer K, Stolk J, Roth M. A conserved epitope on a subset of SR proteins defines a larger family of Pre-mRNA splicing factors. Journal Of Cell Biology 1995, 129: 899-908. PMID: 7538140, PMCID: PMC2120486, DOI: 10.1083/jcb.129.4.899.
• Human SR proteins and isolation of a cDNA encoding SRp75.Zahler A, Neugebauer K, Stolk J, Roth M. Human SR proteins and isolation of a cDNA encoding SRp75. Molecular And Cellular Biology 1993, 13: 4023-4028. PMID: 8321209, PMCID: PMC359951, DOI: 10.1128/mcb.13.7.4023.
• Human SR Proteins and Isolation of a cDNA Encoding SRp75Zahler A, Neugebauer K, Stolk J, Roth M. Human SR Proteins and Isolation of a cDNA Encoding SRp75. Molecular And Cellular Biology 1993, 13: 4023-4028. DOI: 10.1128/mcb.13.7.4023-4028.1993.
• Distinct Functions of SR Proteins in Alternative pre-mRNA SplicingZahler A, Neugebauer K, Lane W, Roth M. Distinct Functions of SR Proteins in Alternative pre-mRNA Splicing. Science 1993, 260: 219-222. PMID: 8385799, DOI: 10.1126/science.8385799.
• Adhesion of a chicken myeloblast cell line to fibrinogen and vitronectin through a beta 1-class integrin.Neugebauer K, Venstrom K, Reichardt L. Adhesion of a chicken myeloblast cell line to fibrinogen and vitronectin through a beta 1-class integrin. Journal Of Cell Biology 1992, 116: 809-815. PMID: 1370500, PMCID: PMC2289312, DOI: 10.1083/jcb.116.3.809.
• Adhesive interactions that regulate development of the retina and primary visual projection.Reichardt L, Bossy B, de Curtis I, Neugebauer K, Venstrom K, Sretavan D. Adhesive interactions that regulate development of the retina and primary visual projection. Cold Spring Harbor Symposia On Quantitative Biology 1992, 57: 419-29. PMID: 1339677, DOI: 10.1101/sqb.1992.057.01.047.
• 2001 interactions? An extracellular space odysseyTomaselli K, Neugebauer K. 2001 interactions? An extracellular space odyssey. Current Opinion In Neurobiology 1991, 1: 364-369. PMID: 1821678, DOI: 10.1016/0959-4388(91)90054-b.
• Vitronectin and thrombospondin promote retinal neurite outgrowth: Developmental regulation and role of integrinsNeugebauer K, Emmett C, Venstrom K, Reichardt L. Vitronectin and thrombospondin promote retinal neurite outgrowth: Developmental regulation and role of integrins. Neuron 1991, 6: 345-358. PMID: 1705807, DOI: 10.1016/0896-6273(91)90244-t.
• Cell-surface regulation of β1-integrin activity on developing retinal neuronsNeugebauer K, Rekhardt L. Cell-surface regulation of β1-integrin activity on developing retinal neurons. Nature 1991, 350: 68-71. PMID: 1706071, PMCID: PMC2710139, DOI: 10.1038/350068a0.
• Neuronal receptors that regulate axon growth.Reichardt L, Bossy B, Carbonetto S, de Curtis I, Emmett C, Hall D, Ignatius M, Lefcort F, Napolitano E, Large T, Neugebauer K, Tomaselli K. Neuronal receptors that regulate axon growth. Cold Spring Harbor Symposia On Quantitative Biology 1990, 55: 341-50. PMID: 2132826, DOI: 10.1101/sqb.1990.055.01.035.
• Integrins and Cell Adhesion Molecules: Neuronal Receptors That Regulate Axon Growth on Extracellular Matrices and Cell SurfacesReichardt L, Bixby J, Hall D, Ignatius M, Neugebauer K, Tomaselli K. Integrins and Cell Adhesion Molecules: Neuronal Receptors That Regulate Axon Growth on Extracellular Matrices and Cell Surfaces. Developmental Neuroscience 1989, 11: 332-347. PMID: 2551626, DOI: 10.1159/000111910.
• N-cadherin, NCAM, and integrins promote retinal neurite outgrowth on astrocytes in vitro.Neugebauer K, Tomaselli K, Lilien J, Reichardt L. N-cadherin, NCAM, and integrins promote retinal neurite outgrowth on astrocytes in vitro. Journal Of Cell Biology 1988, 107: 1177-1187. PMID: 3262111, PMCID: PMC2115273, DOI: 10.1083/jcb.107.3.1177.
• N-cadherin and integrins: Two receptor systems that mediate neuronal process outgrowth on astrocyte surfacesTomaselli K, Neugebauer K, Bixby J, Lilien J, Reichard L. N-cadherin and integrins: Two receptor systems that mediate neuronal process outgrowth on astrocyte surfaces. Neuron 1988, 1: 33-43. PMID: 2856086, DOI: 10.1016/0896-6273(88)90207-3.
• Embryonic Chick Neural Retinal Cell Interactions with Extracellular Matrix Proteins: Characterization of Neuronal ECM Receptors and Changes in Receptor Activity During DevelopmentHall D, Neugebauer K, Reichardt L. Embryonic Chick Neural Retinal Cell Interactions with Extracellular Matrix Proteins: Characterization of Neuronal ECM Receptors and Changes in Receptor Activity During Development. 1988, 151-170. DOI: 10.1007/978-1-4612-3920-8_9.
• Embryonic neural retinal cell response to extracellular matrix proteins: developmental changes and effects of the cell substratum attachment antibody (CSAT).Hall D, Neugebauer K, Reichardt L. Embryonic neural retinal cell response to extracellular matrix proteins: developmental changes and effects of the cell substratum attachment antibody (CSAT). Journal Of Cell Biology 1987, 104: 623-634. PMID: 3493247, PMCID: PMC2114555, DOI: 10.1083/jcb.104.3.623.