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Items: 26

1.

Functional equivalence of germ plasm organizers.

Krishnakumar P, Riemer S, Perera R, Lingner T, Goloborodko A, Khalifa H, Bontems F, Kaufholz F, El-Brolosy MA, Dosch R.

PLoS Genet. 2018 Nov 6;14(11):e1007696. doi: 10.1371/journal.pgen.1007696. eCollection 2018 Nov.

2.

Poor Splice-Site Recognition in a Humanized Zebrafish Knockin Model for the Recurrent Deep-Intronic c.7595-2144A>G Mutation in USH2A.

Slijkerman R, Goloborodko A, Broekman S, de Vrieze E, Hetterschijt L, Peters T, Gerits M, Kremer H, van Wijk E.

Zebrafish. 2018 Dec;15(6):597-609. doi: 10.1089/zeb.2018.1613. Epub 2018 Oct 3.

PMID:
30281416
3.

Emerging Evidence of Chromosome Folding by Loop Extrusion.

Fudenberg G, Abdennur N, Imakaev M, Goloborodko A, Mirny LA.

Cold Spring Harb Symp Quant Biol. 2017;82:45-55. doi: 10.1101/sqb.2017.82.034710. Epub 2018 May 4.

4.

A pathway for mitotic chromosome formation.

Gibcus JH, Samejima K, Goloborodko A, Samejima I, Naumova N, Nuebler J, Kanemaki MT, Xie L, Paulson JR, Earnshaw WC, Mirny LA, Dekker J.

Science. 2018 Feb 9;359(6376). pii: eaao6135. doi: 10.1126/science.aao6135. Epub 2018 Jan 18.

5.

Two independent modes of chromatin organization revealed by cohesin removal.

Schwarzer W, Abdennur N, Goloborodko A, Pekowska A, Fudenberg G, Loe-Mie Y, Fonseca NA, Huber W, Haering CH, Mirny L, Spitz F.

Nature. 2017 Nov 2;551(7678):51-56. doi: 10.1038/nature24281. Epub 2017 Sep 27.

6.

SMC complexes differentially compact mitotic chromosomes according to genomic context.

Schalbetter SA, Goloborodko A, Fudenberg G, Belton JM, Miles C, Yu M, Dekker J, Mirny L, Baxter J.

Nat Cell Biol. 2017 Sep;19(9):1071-1080. doi: 10.1038/ncb3594. Epub 2017 Aug 21.

7.

Targeted Degradation of CTCF Decouples Local Insulation of Chromosome Domains from Genomic Compartmentalization.

Nora EP, Goloborodko A, Valton AL, Gibcus JH, Uebersohn A, Abdennur N, Dekker J, Mirny LA, Bruneau BG.

Cell. 2017 May 18;169(5):930-944.e22. doi: 10.1016/j.cell.2017.05.004.

8.

Micro-C XL: assaying chromosome conformation from the nucleosome to the entire genome.

Hsieh TS, Fudenberg G, Goloborodko A, Rando OJ.

Nat Methods. 2016 Dec;13(12):1009-1011. doi: 10.1038/nmeth.4025. Epub 2016 Oct 10.

PMID:
27723753
9.

Hematopoietic Stem Cells Are the Major Source of Multilineage Hematopoiesis in Adult Animals.

Sawai CM, Babovic S, Upadhaya S, Knapp DJHF, Lavin Y, Lau CM, Goloborodko A, Feng J, Fujisaki J, Ding L, Mirny LA, Merad M, Eaves CJ, Reizis B.

Immunity. 2016 Sep 20;45(3):597-609. doi: 10.1016/j.immuni.2016.08.007. Epub 2016 Aug 30.

10.

Chromosome Compaction by Active Loop Extrusion.

Goloborodko A, Marko JF, Mirny LA.

Biophys J. 2016 May 24;110(10):2162-8. doi: 10.1016/j.bpj.2016.02.041.

11.

Formation of Chromosomal Domains by Loop Extrusion.

Fudenberg G, Imakaev M, Lu C, Goloborodko A, Abdennur N, Mirny LA.

Cell Rep. 2016 May 31;15(9):2038-49. doi: 10.1016/j.celrep.2016.04.085. Epub 2016 May 19.

12.

Compaction and segregation of sister chromatids via active loop extrusion.

Goloborodko A, Imakaev MV, Marko JF, Mirny L.

Elife. 2016 May 18;5. pii: e14864. doi: 10.7554/eLife.14864.

13.

Activity of secukinumab, an anti-IL-17A antibody, on brain lesions in RRMS: results from a randomized, proof-of-concept study.

Havrdov√° E, Belova A, Goloborodko A, Tisserant A, Wright A, Wallstroem E, Garren H, Maguire RP, Johns DR.

J Neurol. 2016 Jul;263(7):1287-95. doi: 10.1007/s00415-016-8128-x. Epub 2016 May 3.

PMID:
27142710
14.

Adaptive wavefront sensor based on the Talbot phenomenon.

Podanchuk DV, Goloborodko AA, Kotov MM, Kovalenko AV, Kurashov VN, Dan'ko VP.

Appl Opt. 2016 Apr 20;55(12):B150-7. doi: 10.1364/AO.55.00B150.

PMID:
27140122
15.

Application of Statistical Thermodynamics To Predict the Adsorption Properties of Polypeptides in Reversed-Phase HPLC.

Tarasova IA, Goloborodko AA, Perlova TY, Pridatchenko ML, Gorshkov AV, Evreinov VV, Ivanov AR, Gorshkov MV.

Anal Chem. 2015 Jul 7;87(13):6562-9. doi: 10.1021/acs.analchem.5b00595. Epub 2015 Jun 10.

PMID:
26023813
16.

Bottlenecks of the wavefront sensor based on the Talbot effect.

Podanchuk D, Kovalenko A, Kurashov V, Kotov M, Goloborodko A, Danko V.

Appl Opt. 2014 Apr 1;53(10):B223-30. doi: 10.1364/AO.53.00B223.

PMID:
24787208
17.

Pyteomics--a Python framework for exploratory data analysis and rapid software prototyping in proteomics.

Goloborodko AA, Levitsky LI, Ivanov MV, Gorshkov MV.

J Am Soc Mass Spectrom. 2013 Feb;24(2):301-4. doi: 10.1007/s13361-012-0516-6. Epub 2013 Jan 5.

PMID:
23292976
18.

Combination of Edman degradation of peptides with liquid chromatography/mass spectrometry workflow for peptide identification in bottom-up proteomics.

Lobas AA, Verenchikov AN, Goloborodko AA, Levitsky LI, Gorshkov MV.

Rapid Commun Mass Spectrom. 2013 Feb 15;27(3):391-400. doi: 10.1002/rcm.6462.

PMID:
23280970
19.

Iterative correction of Hi-C data reveals hallmarks of chromosome organization.

Imakaev M, Fudenberg G, McCord RP, Naumova N, Goloborodko A, Lajoie BR, Dekker J, Mirny LA.

Nat Methods. 2012 Oct;9(10):999-1003. doi: 10.1038/nmeth.2148. Epub 2012 Sep 2.

20.

Limitation of predictive 2-D liquid chromatography in reducing the database search space in shotgun proteomics: in silico studies.

Moskovets E, Goloborodko AA, Gorshkov AV, Gorshkov MV.

J Sep Sci. 2012 Jul;35(14):1771-8. doi: 10.1002/jssc.201100798.

PMID:
22807359
21.

Wavefront sensor based on the Talbot effect with the precorrected holographic grating.

Podanchuk D, Kurashov V, Goloborodko A, Dan'ko V, Kotov M, Goloborodko N.

Appl Opt. 2012 Apr 1;51(10):C125-32. doi: 10.1364/AO.51.00C125.

PMID:
22505088
22.

Sequence scrambling in shotgun proteomics is negligible.

Goloborodko AA, Gorshkov MV, Good DM, Zubarev RA.

J Am Soc Mass Spectrom. 2011 Jul;22(7):1121-4. doi: 10.1007/s13361-011-0130-z. Epub 2011 Apr 15.

PMID:
21953093
23.

On the utility of predictive chromatography to complement mass spectrometry based intact protein identification.

Pridatchenko ML, Perlova TY, Ben Hamidane H, Goloborodko AA, Tarasova IA, Gorshkov AV, Evreinov VV, Tsybin YO, Gorshkov MV.

Anal Bioanal Chem. 2012 Mar;402(8):2521-9. doi: 10.1007/s00216-011-5350-3. Epub 2011 Sep 8.

PMID:
21901462
24.

Sequence-specific predictive chromatography to assist mass spectrometric analysis of asparagine deamidation and aspartate isomerization in peptides.

Sargaeva NP, Goloborodko AA, O'Connor PB, Moskovets E, Gorshkov MV.

Electrophoresis. 2011 Aug;32(15):1962-9. doi: 10.1002/elps.201000507. Epub 2011 May 9.

PMID:
21557257
25.

Retention time prediction using the model of liquid chromatography of biomacromolecules at critical conditions in LC-MS phosphopeptide analysis.

Perlova TY, Goloborodko AA, Margolin Y, Pridatchenko ML, Tarasova IA, Gorshkov AV, Moskovets E, Ivanov AR, Gorshkov MV.

Proteomics. 2010 Oct;10(19):3458-68. doi: 10.1002/pmic.200900837.

PMID:
20815086
26.

Empirical approach to false discovery rate estimation in shotgun proteomics.

Goloborodko AA, Mayerhofer C, Zubarev AR, Tarasova IA, Gorshkov AV, Zubarev RA, Gorshkov MV.

Rapid Commun Mass Spectrom. 2010 Feb;24(4):454-62. doi: 10.1002/rcm.4417.

PMID:
20069687

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