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skoch3's library [145 articles]

Recent papers added to skoch3's library ordered by importance.
  • Mapping and sequencing of structural variation from eight human genomes
    Nature, Vol. 453, No. 7191., pp. 56-64.
    by Jeffrey M Kidd, Gregory M Cooper, William F Donahue, Hillary S Hayden, Nick Sampas, Tina Graves, Nancy Hansen, Brian Teague, Can Alkan, Francesca Antonacci, Eric Haugen, Troy Zerr, Alice N Yamada, Peter Tsang, Tera L Newman, Eray Tüzün, Ze Cheng, Heather M Ebling, Nadeem Tusneem, Robert David, Will Gillett, Karen A Phelps, Molly Weaver, David Saranga, Adrianne Brand, Wei Tao, Erik Gustafson, Kevin Mckernan, Lin Chen, Maika Malig, Joshua D Smith, Joshua M Korn, Steven A Mccarroll, David A Altshuler, Daniel A Peiffer, Michael Dorschner, John Stamatoyannopoulos, David Schwartz, Deborah A Nickerson, James C Mullikin, Richard K Wilson, Laurakay Bruhn, Maynard V Olson, Rajinder Kaul, Douglas R Smith, Evan E Eichler
    posted to dna genome genomics mapping by skoch3 on 2008-08-20 08:07:21 as ***** along with 18 people and 2 groups matthewsuderman jfr hpaces Ema chad_davis bpb dchughes djkt balicea shikin psique kintoki kaniko aprasad vplagnol maximilianh chrisamiller jyuh GeneGo Koch_Lab
  • Active PHO5 chromatin encompasses variable numbers of nucleosomes at individual promoters
    Nature Structural & Molecular Biology, Vol. 13, No. 3. (19 February 2006), pp. 256-263.
    by Walter J Jessen, Scott A Hoose, Jessica A Kilgore, Michael P Kladde
    posted to chromatin pho5 remodeling single-molecule by skoch3 on 2008-06-19 18:10:01 as ***** along with 1 person and 1 group ramalldf Koch_Lab
  • Affinity purification of specific chromatin segments from chromosomal loci in yeast.
    Molecular and cellular biology, Vol. 23, No. 24. (December 2003), pp. 9275-9282.
    by J Griesenbeck, H Boeger, JS Strattan, RD Kornberg
    posted to chromatin isolation purification transcription yeast by skoch3 on 2008-05-29 07:03:50 as ***** along with 1 group Koch_Lab
  • Histone Octamer Instability under Single Molecule Experiment Conditions
    J. Biol. Chem., Vol. 280, No. 20. (20 May 2005), pp. 19958-19965.
    by Cyril Claudet, Dimitar Angelov, Philippe Bouvet, Stefan Dimitrov, Jan Bednar
    posted to biophysics chromatin native single-molecule by skoch3 on 2008-05-15 10:10:01 as ***** along with 1 group Koch_Lab
  • On-site manipulation of single whole-genome DNA molecules using optical tweezers
    Applied Physics Letters, Vol. 85, No. 21. (2004), pp. 5090-5092.
    by Hidehiro Oana, Koji Kubo, Kenichi Yoshikawa, Haruyuki Atomi, Tadayuki Imanaka
    posted to chromatin optical single-molecule tweezers by skoch3 on 2008-05-15 05:22:37 as ***** along with 1 person and 1 group hirokiS Koch_Lab
  • BRCA1 is a component of the RNA polymerase II holoenzyme
    Proceedings of the National Academy of Sciences, Vol. 94, No. 11. (27 May 1997), pp. 5605-5610.
    by Ralph Scully, Stephen F Anderson, David M Chao, Wanjiang Wei, Liyan Ye, Richard A Young, David M Livingston, Jeffrey D Parvin
    posted to brca1 holoenzyme ii pol transcription by skoch3 on 2008-05-05 08:21:01 as ***** along with 1 group Koch_Lab
  • The multiple nuclear functions of BRCA1: transcription, ubiquitination and DNA repair
    Current Opinion in Cell Biology, Vol. 15, No. 3. (June 2003), pp. 345-350.
    by Lea M Starita, Jeffrey D Parvin
    posted to brca1 damage dna repair transcription by skoch3 on 2008-05-05 06:08:58 as ***** along with 1 group Koch_Lab
  • The BRCA2-Interacting Protein BCCIP Functions in RAD51 and BRCA2 Focus Formation and Homologous Recombinational Repair
    Mol. Cell. Biol., Vol. 25, No. 5. (1 March 2005), pp. 1949-1957.
    by Huimei Lu, Xu Guo, Xiangbing Meng, Jingmei Liu, Chris Allen, Justin Wray, Jac A Nickoloff, Zhiyuan Shen
    posted to bccip brca2 damage dna hr rad51 repair by skoch3 on 2008-05-04 06:11:13 as ***** along with 1 group Koch_Lab
  • Human transcription elongation factor NELF: identification of novel subunits and reconstitution of the functionally active complex.
    Molecular and cellular biology, Vol. 23, No. 6. (March 2003), pp. 1863-1873.
    by T Narita, Y Yamaguchi, K Yano, S Sugimoto, S Chanarat, T Wada, DK Kim, J Hasegawa, M Omori, N Inukai, M Endoh, T Yamada, H Handa
    posted to brca1 cobra1 dsif nelf nelf-b transcription by skoch3 on 2008-05-02 18:01:59 as ***** along with 1 group Koch_Lab
  • RNA polymerase is poised for activation across the genome
    Nature Genetics, Vol. 39, No. 12. (11 November 2007), pp. 1507-1511.
    by Ginger W Muse, Daniel A Gilchrist, Sergei Nechaev, Ruchir Shah, Joel S Parker, Sherry F Grissom, Julia Zeitlinger, Karen Adelman
    posted to chip-chip drosophila ii pol stalled transcription by skoch3 on 2008-05-01 23:46:24 as ***** along with 4 people and 1 group margaritis rschulz caseybrown mikaelhuss Koch_Lab
  • Interplay of ion binding and attraction in DNA condensed by multivalent cations
    Nucl. Acids Res., Vol. 36, No. 2. (2 February 2008), pp. 501-510.
    by Brian A Todd, Donald C Rau
    posted to biophysics cations condensation dna force multivalent spectroscopy by skoch3 on 2008-04-28 20:51:56 as ***** along with 1 person and 2 groups sobolevnrm baker-group Koch_Lab
  • BRCA1 is associated with a human SWI/SNF-related complex: linking chromatin remodeling to breast cancer.
    Cell, Vol. 102, No. 2. (21 July 2000), pp. 257-265.
    by DA Bochar, L Wang, H Beniya, A Kinev, Y Xue, WS Lane, W Wang, F Kashanchi, R Shiekhattar
    posted to brca1 chromatin remodeling swisnf transcription by skoch3 on 2008-04-23 21:14:22 as ***** along with 1 group Koch_Lab
  • Good Timing in the Cell Cycle for Precise DNA Repair by BRCA1.
    Cell Cycle, Vol. 4, No. 9. (13 September 2005)
    by Stephen T Durant, Jac A Nickoloff
    posted to brca1 chromatin dna dsb hr mrn nhej repair by skoch3 on 2008-04-16 07:08:54 as ***** along with 1 person and 1 group ecattell Koch_Lab
  • ATP-dependent chromatin remodeling factors and DNA damage repair
    Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis, Vol. 618, No. 1-2. (1 May 2007), pp. 65-80.
    by Mary A Osley, Toyoko Tsukuda, Jac A Nickoloff
    posted to chromatin damage dna dsb ner repair review by skoch3 on 2008-04-16 07:04:35 as ***** along with 1 group Koch_Lab
  • Single-molecule experiments in vitro and in silico.
    Science, Vol. 316, No. 5828. (25 May 2007), pp. 1144-1148.
    by M Sotomayor, K Schulten
    posted to dynamic dynamics force in-silico molecular single-molecule smd spectroscopy by skoch3 on 2008-03-31 16:57:09 as ***** along with 2 people and 1 group choonpeng hsekiguc Koch_Lab
  • Optical trapping
    Review of Scientific Instruments, Vol. 75, No. 9. (2004), pp. 2787-2809.
    by Keir C Neuman, Steven M Block
    posted to howto optical review trapping tweezers by skoch3 on 2008-03-16 04:12:12 as ***** along with 1 group Koch_Lab
  • H2B ubiquitylation in transcriptional control: a FACT-finding mission
    Genes Dev., Vol. 21, No. 7. (1 April 2007), pp. 737-743.
    by Nicholas R Laribee, Stephen M Fuchs, Brian D Strahl
    posted to chromatin histone perspective transcription ubiquitylation by skoch3 on 2008-01-11 05:43:18 as *****
  • Transcription Elongation Factors Repress Transcription Initiation from Cryptic Sites
    Science, Vol. 301, No. 5636. (22 August 2003), pp. 1096-1099.
    by Craig D Kaplan, Lisa Laprade, Fred Winston
    posted to chromatin cryptic initiation spt6 transcription by skoch3 on 2008-01-09 23:02:56 as ***** along with 1 person siebert
  • Tracking FACT and the RNA Polymerase II Elongation Complex Through Chromatin in Vivo
    Science, Vol. 301, No. 5636. (22 August 2003), pp. 1094-1096.
    by Abbie Saunders, Janis Werner, Erik D Andrulis, Takahiro Nakayama, Susumu Hirose, Danny Reinberg, John T Lis
    posted to chromatin fact polytene transcription by skoch3 on 2008-01-09 21:24:02 as *****
  • FACT Facilitates Transcription-Dependent Nucleosome Alteration
    Science, Vol. 301, No. 5636. (22 August 2003), pp. 1090-1093.
    by Rimma Belotserkovskaya, Sangtaek Oh, Vladimir A Bondarenko, George Orphanides, Vasily M Studitsky, Danny Reinberg
    posted to chromatin fact transcription by skoch3 on 2008-01-09 21:16:48 as *****
  • Visualizing single DNA-bound proteins using DNA as a scanning probe
    Nature Methods, Vol. 4, No. 12. (11 November 2007), pp. 1031-1036.
    by Maarten C Noom, Bram van den Broek, Joost van Mameren, Gijs JL Wuite
    posted to biophysics dna dynamic force optical protein single-molecule spectroscopy tweezers by skoch3 on 2007-12-26 22:27:17 as ***** along with 1 group Koch_Lab
  • Mapping histone modifications by nucleosome immunoprecipitation.
    Methods Enzymol, Vol. 410 (2006), pp. 416-430.
    by DJ Clark, CH Shen
    posted to chip chromatin immunoprecipitation minichromosome review by skoch3 on 2007-12-16 07:11:51 as *****
  • Chop it, ChIP it, check it: the current status of chromatin immunoprecipitation.
    Front Biosci, Vol. 13 (2008), pp. 929-943.
    by P Collas, JA Dahl
    posted to chip chromatin immunoprecipitation review by skoch3 on 2007-12-16 07:04:19 as ***** along with 1 group Koch_Lab
  • Single Sub-20 nm Wide, Centimeter-Long Nanofluidic Channel Fabricated by Novel Nanoimprint Mold Fabrication and Direct Imprinting.
    Nano Lett (1 November 2007)
    by Xiaogan Liang, Keith J Morton, Robert H Austin, Stephen Y Chou
    posted to dna nanochannels nanofluidics nanotechnology by skoch3 on 2007-11-19 09:49:00 as ***** along with 1 group Koch_Lab
  • Search for Fractional-Charge Particles in Meteoritic Material
    Physical Review Letters, Vol. 99, No. 16. (2007)
    by Peter C Kim, Eric R Lee, Irwin T Lee, Martin L Perl, Valerie Halyo, Dinesh Loomba
    posted to automated charge fractional millikan physics by skoch3 on 2007-11-12 22:53:41 as *****
  • Transcription through chromatin by RNA polymerase II: histone displacement and exchange.
    Mutat Res, Vol. 618, No. 1-2. (1 May 2007), pp. 116-129.
    by OI Kulaeva, DA Gaykalova, VM Studitsky
    posted to chromatin histone modeling remodeling review rnap by skoch3 on 2007-11-06 23:01:33 as ***** along with 1 group Koch_Lab
  • Measuring the mass, density, and size of particles and cells using a suspended microchannel resonator
    Applied Physics Letters, Vol. 91, No. 12. (2007)
    by Michel Godin, Andrea K Bryan, Thomas P Burg, Ken Babcock, Scott R Manalis
    posted to detection high mass mems throughput by skoch3 on 2007-10-31 04:17:02 as ***** along with 1 person and 1 group cdppublications Koch_Lab
  • Predicting the rupture probabilities of molecular bonds in series.
    Biophys J, Vol. 93, No. 4. (15 August 2007), pp. 1215-1223.
    by G Neuert, CH Albrecht, HE Gaub
    posted to biophysics dna dynamic force sensor spectroscopy by skoch3 on 2007-09-25 10:29:25 as ***** along with 1 group Koch_Lab
  • Direct Measurement of Local Chromatin Fluidity Using Optical Trap Modulation Force Spectroscopy
    Biophys. J., Vol. 91, No. 12. (15 December 2006), pp. 4632-4637.
    by T Roopa, GV Shivashankar
    posted to biophysics chromatin force mammalian optical single-molecule tweezers by skoch3 on 2007-05-10 08:29:20 as ***** along with 1 group Koch_Lab
  • Chromatin Fibers, One-at-a-time
    Journal of Molecular Biology, Vol. 331, No. 1. (1 August 2003), pp. 1-19.
    by Jordanka Zlatanova, Sanford H Leuba
    posted to chromatin review single-molecule techniques by skoch3 on 2007-04-25 09:47:24 as ***** along with 1 group Koch_Lab
  • Multiscale Modeling of Nucleosome Dynamics
    Biophys. J., Vol. 92, No. 5. (1 March 2007), pp. 1457-1470.
    by Shantanu Sharma, Feng Ding, Nikolay V Dokholyan
    posted to dna dynamics molecular nucleosomes by skoch3 on 2007-04-24 06:48:09 as ***** along with 4 people and 9 groups aalibes shantanu choonpeng phisics structural_bioinformatics MathBio Biostatistics Bioinformatics microRNA Computational_Systems_Biology EvolutionaryComputation Computational-Neurobiology Koch_Lab
  • Three-dimensional force microscope: A nanometric optical tracking and magnetic manipulation system for the biomedical sciences
    Review of Scientific Instruments, Vol. 76, No. 5. (2005)
    by JK Fisher, JR Cummings, KV Desai, L Vicci, B Wilde, K Keller, C Weigle, G Bishop, RM Taylor, Ii, CW Davis, RC Boucher, Timothy E O'Brien, R Superfine
    posted to 3d biophysics force magnetic microscope nanomanipulation spectroscopy by skoch3 on 2007-04-19 19:13:17 as ***** along with 1 group Koch_Lab
  • Thin-foil magnetic force system for high-numerical-aperture microscopy
    Review of Scientific Instruments, Vol. 77, No. 2. (2006)
    by JK Fisher, J Cribb, KV Desai, L Vicci, B Wilde, K Keller, RM Taylor, Ii, J Haase, K Bloom, Timothy E O'Brien, R Superfine
    posted to biophysics force magnetic microfabricated pieces pole spectroscopy by skoch3 on 2007-04-19 19:09:28 as ***** along with 1 group Koch_Lab
  • Measurement of the Temperature Dependence of the Casimir-Polder Force
    Physical Review Letters, Vol. 98, No. 6. (2007)
    by JM Obrecht, RJ Wild, M Antezza, LP Pitaevskii, S Stringari, EA Cornell
    posted to fluctuation field electromagnetic einstein condensate casmir-polder casmir bose physics mems force by skoch3 on 2007-02-09 06:54:23 as ***** along with 2 people and 2 groups madhadron swhitlock Koch_Lab Qugatopia
  • Drosophila Paf1 modulates chromatin structure at actively transcribed genes.
    Mol Cell Biol, Vol. 26, No. 1. (January 2006), pp. 250-260.
    by K Adelman, W Wei, MB Ardehali, J Werner, B Zhu, D Reinberg, JT Lis
    posted to chromatin drosophila fact histone modification paf1 regulation spt6 transcription by skoch3 on 2007-02-03 09:27:21 as ***** along with 1 person and 1 group emmahe Koch_Lab
  • Chromatin remodelling at a DNA double-strand break site in Saccharomyces cerevisiae
    Nature, Vol. 438, No. 7066., pp. 379-383.
    by Toyoko Tsukuda, Alastair B Fleming, Jac A Nickoloff, Mary A Osley
    posted to yeast repair remodeling dna chromatin by skoch3 on 2007-02-03 09:03:54 as ***** along with 1 person and 1 group DNAReplication Koch_Lab
  • Tuneable elastomeric nanochannels for nanofluidic manipulation
    Nat Mater, Vol. 6, No. 6. (June 2007), pp. 424-428.
    by Dongeun Huh, KL Mills, Xiaoyue Zhu, Mark A Burns, MD Thouless, Shuichi Takayama
    posted to dna nanochannels nanotechnology pdms by skoch3 on 2008-07-01 06:41:58 as **** along with 1 group Koch_Lab
  • A general method for manipulating DNA sequences from any organism with optical tweezers
    Nucleic Acids Research, Vol. 34, No. 2. (2006), pp. e15-e15.
    by Derek N Fuller, Gregory J Gemmen, John P Rickgauer, Aurelie Dupont, Rachel Millin, Pierre Recouvreux, Douglas E Smith
    posted to dna optical pcr single-molecule tethering tweezers by skoch3 on 2008-05-20 00:10:11 as **** along with 1 group Koch_Lab
  • BCCIP regulates homologous recombination by distinct domains and suppresses spontaneous DNA damage.
    Nucleic acids research, Vol. 35, No. 21. (2007), pp. 7160-7170.
    by H Lu, J Yue, X Meng, JA Nickoloff, Z Shen
    posted to bccip brca2 damage dna hr repair by skoch3 on 2008-05-04 06:04:31 as **** along with 1 group Koch_Lab
  • Checkpoint kinase 2-mediated phosphorylation of BRCA1 regulates the fidelity of nonhomologous end-joining.
    Cancer research, Vol. 66, No. 3. (1 February 2006), pp. 1401-1408.
    by J Zhuang, J Zhang, H Willers, H Wang, JH Chung, DC van Gent, DE Hallahan, SN Powell, F Xia
    posted to brca1 damage dna dsb hr nhej repair by skoch3 on 2008-05-04 05:45:23 as **** along with 1 group Koch_Lab
  • BRCA1-induced large-scale chromatin unfolding and allele-specific effects of cancer-predisposing mutations.
    The Journal of cell biology, Vol. 155, No. 6. (10 December 2001), pp. 911-921.
    by Q Ye, YF Hu, H Zhong, AC Nye, AS Belmont, R Li
    posted to brca1 chromatin cobra1 transcription by skoch3 on 2008-05-03 05:08:47 as ****
  • Ten-microsecond MD simulation of a fast-folding WW domain
    Biophys. J. (13 March 2008), biophysj.108.131565.
    by Peter L Freddolino, Feng Liu, Martin H Gruebele, Klaus Schulten
    posted to folding md protein by skoch3 on 2008-04-23 20:30:59 as **** along with 3 people and 1 group paulschlesinger samjlord biehl Koch_Lab
  • BRCA1 cooperates with NUFIP and P-TEFb to activate transcription by RNA polymerase II.
    Oncogene, Vol. 23, No. 31. (8 July 2004), pp. 5316-5329.
    by P Cabart, HK Chew, S Murphy
    posted to brca1 elongation p-tefb transcription by skoch3 on 2008-04-16 08:36:51 as **** along with 1 group Koch_Lab
  • From the Cover: Direct DNA binding by Brca1
    Proceedings of the National Academy of Sciences, Vol. 98, No. 11. (22 May 2001), pp. 6086-6091.
    by Tanya T Paull, David Cortez, Blair Bowers, Stephen J Elledge, Martin Gellert
    posted to brca1 damage dna dsb mrn repair by skoch3 on 2008-04-16 07:15:47 as **** along with 1 group Koch_Lab
  • The roles of BRCA1 and BRCA2 and associated proteins in the maintenance of genomic stability.
    Oncogene, Vol. 25, No. 43. (25 September 2006), pp. 5864-5874.
    by K Gudmundsdottir, A Ashworth
    posted to brca1 brca2 dna dsb repair by skoch3 on 2008-04-16 07:12:35 as **** along with 1 group Koch_Lab
  • Mg2+-Induced Compaction of Single RNA Molecules Monitored by Tethered Particle Microscopy
    Biophys. J., Vol. 90, No. 10. (15 May 2006), pp. 3672-3685.
    by Newby, Eva Vocker, Seth Blumberg, Stefanie Redemann, Arivalagan Gajraj, Jens-Christian Meiners, Nils G Walter
    posted to motion particle rna tethered tpm by skoch3 on 2008-03-18 04:33:06 as **** along with 1 person and 1 group ssfeldman Koch_Lab
  • Mapping proteinDNA interactions in vivo with formaldehyde: Evidence that histone H4 is retained on a highly transcribed gene
    Cell, Vol. 53, No. 6. (17 June 1988), pp. 937-947.
    by Mark J Solomon, Pamela L Larsen, Alexander Varshavsky
    posted to chip chromatin by skoch3 on 2008-01-30 20:10:59 as ****
  • Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome.
    Nat Genet (4 February 2007)
    by Nathaniel D D Heintzman, Rhona K K Stuart, Gary Hon, Yutao Fu, Christina W W Ching, R David D Hawkins, Leah O O Barrera, Sara Van Calcar, Chunxu Qu, Keith A A Ching, Wei Wang, Zhiping Weng, Roland D D Green, Gregory E E Crawford, Bing Ren
    posted to chip chromatin enhancers promoters transcription by skoch3 on 2008-01-02 23:01:09 as **** along with 7 people and 2 groups kengg djkt mgaldzic olympos epigenetics caseybrown inesdesantiago CHIP Plantandetc
  • The Great Hunt For Extra Compliance
    Biophys. J., Vol. 93, No. 12. (15 December 2007), 4099.
    by Jan Liphardt
    posted to biophysics dna elasticity wlc by skoch3 on 2007-11-29 04:28:47 as **** along with 1 group Koch_Lab
  • Elasticity of short DNA molecules: theory and experiment for contour lengths of 0.6-7 microm
    Biophys. J. (31 August 2007), biophysj.107.112995.
    by Yeonee Seol, Jinyu Li, Philip Nelson, Thomas T Perkins, MD Betterton
    posted to biophysics dna elasticity wlc by skoch3 on 2007-11-29 04:27:30 as **** along with 2 people and 1 group norris ssfeldman Koch_Lab
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