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Items: 1 to 50 of 308

1.

Global patterns and drivers of ecosystem functioning in rivers and riparian zones.

Tiegs SD, Costello DM, Isken MW, Woodward G, McIntyre PB, Gessner MO, Chauvet E, Griffiths NA, Flecker AS, Acuña V, Albariño R, Allen DC, Alonso C, Andino P, Arango C, Aroviita J, Barbosa MVM, Barmuta LA, Baxter CV, Bell TDC, Bellinger B, Boyero L, Brown LE, Bruder A, Bruesewitz DA, Burdon FJ, Callisto M, Canhoto C, Capps KA, Castillo MM, Clapcott J, Colas F, Colón-Gaud C, Cornut J, Crespo-Pérez V, Cross WF, Culp JM, Danger M, Dangles O, de Eyto E, Derry AM, Villanueva VD, Douglas MM, Elosegi A, Encalada AC, Entrekin S, Espinosa R, Ethaiya D, Ferreira V, Ferriol C, Flanagan KM, Fleituch T, Follstad Shah JJ, Frainer Barbosa A, Friberg N, Frost PC, Garcia EA, García Lago L, García Soto PE, Ghate S, Giling DP, Gilmer A, Gonçalves JF Jr, Gonzales RK, Graça MAS, Grace M, Grossart HP, Guérold F, Gulis V, Hepp LU, Higgins S, Hishi T, Huddart J, Hudson J, Imberger S, Iñiguez-Armijos C, Iwata T, Janetski DJ, Jennings E, Kirkwood AE, Koning AA, Kosten S, Kuehn KA, Laudon H, Leavitt PR, Lemes da Silva AL, Leroux SJ, LeRoy CJ, Lisi PJ, MacKenzie R, Marcarelli AM, Masese FO, McKie BG, Oliveira Medeiros A, Meissner K, Miliša M, Mishra S, Miyake Y, Moerke A, Mombrikotb S, Mooney R, Moulton T, Muotka T, Negishi JN, Neres-Lima V, Nieminen ML, Nimptsch J, Ondruch J, Paavola R, Pardo I, Patrick CJ, Peeters ETHM, Pozo J, Pringle C, Prussian A, Quenta E, Quesada A, Reid B, Richardson JS, Rigosi A, Rincón J, Rîşnoveanu G, Robinson CT, Rodríguez-Gallego L, Royer TV, Rusak JA, Santamans AC, Selmeczy GB, Simiyu G, Skuja A, Smykla J, Sridhar KR, Sponseller R, Stoler A, Swan CM, Szlag D, Teixeira-de Mello F, Tonkin JD, Uusheimo S, Veach AM, Vilbaste S, Vought LBM, Wang CP, Webster JR, Wilson PB, Woelfl S, Xenopoulos MA, Yates AG, Yoshimura C, Yule CM, Zhang YX, Zwart JA.

Sci Adv. 2019 Jan 9;5(1):eaav0486. doi: 10.1126/sciadv.aav0486. eCollection 2019 Jan.

2.

Preferences for health economics presentations among vaccine policymakers and researchers.

Richardson JS, Messonnier ML, Prosser LA.

Vaccine. 2018 Oct 15;36(43):6416-6423. doi: 10.1016/j.vaccine.2018.08.049. Epub 2018 Sep 17.

3.

Priming of leaf litter decomposition by algae seems of minor importance in natural streams during autumn.

Elosegi A, Nicolás A, Richardson JS.

PLoS One. 2018 Sep 7;13(9):e0200180. doi: 10.1371/journal.pone.0200180. eCollection 2018.

4.

Protecting U.S. temporary waterways.

Marshall JC, Acuña V, Allen DC, Bonada N, Boulton AJ, Carlson SM, Dahm CN, Datry T, Leigh C, Negus P, Richardson JS, Sabater S, Stevenson RJ, Steward AL, Stubbington R, Tockner K, Vander Vorste R.

Science. 2018 Aug 31;361(6405):856-857. doi: 10.1126/science.aav0839. No abstract available.

PMID:
30166478
5.

Assessment of detailed conformations suggests strategies for improving cryoEM models: Helix at lower resolution, ensembles, pre-refinement fixups, and validation at multi-residue length scale.

Richardson JS, Williams CJ, Videau LL, Chen VB, Richardson DC.

J Struct Biol. 2018 Nov;204(2):301-312. doi: 10.1016/j.jsb.2018.08.007. Epub 2018 Aug 11.

PMID:
30107233
6.

Expanding Resilience Comparisons to Address Management Needs: A Response to Ingrisch and Bahn.

Yeung ACY, Richardson JS.

Trends Ecol Evol. 2018 Sep;33(9):647-649. doi: 10.1016/j.tree.2018.06.005. Epub 2018 Jul 18. No abstract available.

PMID:
30031562
7.

Death by Suicide in the First Year After Irregular Discharge From Inpatient Hospitalization.

Riblet N, Richardson JS, Shiner B, Peltzman TR, Watts BV, McCarthy JF.

Psychiatr Serv. 2018 Sep 1;69(9):1032-1035. doi: 10.1176/appi.ps.201800024. Epub 2018 Jun 1.

PMID:
29852826
8.

The energetic consequences of habitat structure for forest stream salmonids.

Naman SM, Rosenfeld JS, Kiffney PM, Richardson JS.

J Anim Ecol. 2018 Sep;87(5):1383-1394. doi: 10.1111/1365-2656.12845. Epub 2018 May 29.

PMID:
29737519
9.

Model validation: local diagnosis, correction and when to quit.

Richardson JS, Williams CJ, Hintze BJ, Chen VB, Prisant MG, Videau LL, Richardson DC.

Acta Crystallogr D Struct Biol. 2018 Feb 1;74(Pt 2):132-142. doi: 10.1107/S2059798317009834. Epub 2018 Feb 1.

11.

MolProbity: More and better reference data for improved all-atom structure validation.

Williams CJ, Headd JJ, Moriarty NW, Prisant MG, Videau LL, Deis LN, Verma V, Keedy DA, Hintze BJ, Chen VB, Jain S, Lewis SM, Arendall WB 3rd, Snoeyink J, Adams PD, Lovell SC, Richardson JS, Richardson DC.

Protein Sci. 2018 Jan;27(1):293-315. doi: 10.1002/pro.3330. Epub 2017 Nov 27.

12.

Chlorpyrifos interacts with other agricultural stressors to alter stream communities in laboratory microcosms.

Chará-Serna AM, Richardson JS.

Ecol Appl. 2018 Jan;28(1):162-176. doi: 10.1002/eap.1637. Epub 2017 Dec 12.

PMID:
29024139
13.

Mismodeled purines: implicit alternates and hidden Hoogsteens.

Hintze BJ, Richardson JS, Richardson DC.

Acta Crystallogr D Struct Biol. 2017 Oct 1;73(Pt 10):852-859. doi: 10.1107/S2059798317013729. Epub 2017 Oct 2.

14.

Impact of Telephone-Based Problem-Solving Treatment on the Use of Medical and Psychological Services in the Military.

Richardson JS, Fann JR, Bell KR, Temkin N.

J Head Trauma Rehabil. 2018 Mar/Apr;33(2):E1-E6. doi: 10.1097/HTR.0000000000000299.

PMID:
28422894
15.

Economic evaluation of telephone-based concussion management for combat-related mild traumatic brain injury.

Richardson JS, Guzauskas GF, Fann JR, Temkin NR, Bush NE, Bell KR, Gahm GA, Smolenski DJ, Brockway JA, Hansen RN.

J Telemed Telecare. 2018 May;24(4):282-289. doi: 10.1177/1357633X17696586. Epub 2017 Apr 3.

PMID:
28372513
16.

Broad Analysis of Vicinal Disulfides: Occurrences, Conformations with Cis or with Trans Peptides, and Functional Roles Including Sugar Binding.

Richardson JS, Videau LL, Williams CJ, Richardson DC.

J Mol Biol. 2017 May 5;429(9):1321-1335. doi: 10.1016/j.jmb.2017.03.017. Epub 2017 Mar 20.

17.

Chalepin: isolated from Ruta angustifolia L. Pers induces mitochondrial mediated apoptosis in lung carcinoma cells.

Richardson JS, Sethi G, Lee GS, Malek SN.

BMC Complement Altern Med. 2016 Oct 12;16(1):389.

18.

Molprobity's ultimate rotamer-library distributions for model validation.

Hintze BJ, Lewis SM, Richardson JS, Richardson DC.

Proteins. 2016 Sep;84(9):1177-89. doi: 10.1002/prot.25039. Epub 2016 Jun 23.

19.

A test of the effects of timing of a pulsed resource subsidy on stream ecosystems.

Sato T, El-Sabaawi RW, Campbell K, Ohta T, Richardson JS.

J Anim Ecol. 2016 Sep;85(5):1136-46. doi: 10.1111/1365-2656.12516. Epub 2016 Apr 21.

PMID:
26972564
20.

Warming alters food web-driven changes in the CO2 flux of experimental pond ecosystems.

Atwood TB, Hammill E, Kratina P, Greig HS, Shurin JB, Richardson JS.

Biol Lett. 2015 Dec;11(12):20150785. doi: 10.1098/rsbl.2015.0785.

21.

Some Conceptual and Operational Considerations when Measuring 'Resilience': A Response to Hodgson et al.

Yeung ACY, Richardson JS.

Trends Ecol Evol. 2016 Jan;31(1):2-3. doi: 10.1016/j.tree.2015.10.005. Epub 2015 Nov 19. No abstract available.

PMID:
26607002
22.

Computational Methods for RNA Structure Validation and Improvement.

Jain S, Richardson DC, Richardson JS.

Methods Enzymol. 2015;558:181-212. doi: 10.1016/bs.mie.2015.01.007. Epub 2015 Apr 2.

PMID:
26068742
23.

Adenovirus-Vectored Vaccine Provides Postexposure Protection to Ebola Virus-Infected Nonhuman Primates.

Wong G, Richardson JS, Pillet S, Racine T, Patel A, Soule G, Ennis J, Turner J, Qiu X, Kobinger GP.

J Infect Dis. 2015 Oct 1;212 Suppl 2:S379-83. doi: 10.1093/infdis/jiv102. Epub 2015 May 9.

24.

New insights into Hoogsteen base pairs in DNA duplexes from a structure-based survey.

Zhou H, Hintze BJ, Kimsey IJ, Sathyamoorthy B, Yang S, Richardson JS, Al-Hashimi HM.

Nucleic Acids Res. 2015 Apr 20;43(7):3420-33. doi: 10.1093/nar/gkv241. Epub 2015 Mar 26. Review.

25.

Intranasal immunization with an adenovirus vaccine protects guinea pigs from Ebola virus transmission by infected animals.

Wong G, Richardson JS, Cutts T, Qiu X, Kobinger GP.

Antiviral Res. 2015 Apr;116:17-9. doi: 10.1016/j.antiviral.2015.01.001. Epub 2015 Jan 14.

26.

Ebola virus transmission in guinea pigs.

Wong G, Qiu X, Richardson JS, Cutts T, Collignon B, Gren J, Aviles J, Embury-Hyatt C, Kobinger GP.

J Virol. 2015 Jan 15;89(2):1314-23. doi: 10.1128/JVI.02836-14. Epub 2014 Nov 12.

27.

New tools provide a second look at HDV ribozyme structure, dynamics and cleavage.

Kapral GJ, Jain S, Noeske J, Doudna JA, Richardson DC, Richardson JS.

Nucleic Acids Res. 2014 Nov 10;42(20):12833-46. doi: 10.1093/nar/gku992. Epub 2014 Oct 17.

28.

Multiscale conformational heterogeneity in staphylococcal protein a: possible determinant of functional plasticity.

Deis LN, Pemble CW 4th, Qi Y, Hagarman A, Richardson DC, Richardson JS, Oas TG.

Structure. 2014 Oct 7;22(10):1467-77. doi: 10.1016/j.str.2014.08.014.

29.

The return on investment of postdischarge follow-up calls for suicidal ideation or deliberate self-harm.

Richardson JS, Mark TL, McKeon R.

Psychiatr Serv. 2014 Aug 1;65(8):1012-9. doi: 10.1176/appi.ps.201300196.

PMID:
24788454
30.

Trophic-level dependent effects on CO2 emissions from experimental stream ecosystems.

Atwood TB, Hammill E, Richardson JS.

Glob Chang Biol. 2014 Nov;20(11):3386-96. doi: 10.1111/gcb.12516. Epub 2014 Feb 6.

PMID:
24753392
31.

Automated identification of elemental ions in macromolecular crystal structures.

Echols N, Morshed N, Afonine PV, McCoy AJ, Miller MD, Read RJ, Richardson JS, Terwilliger TC, Adams PD.

Acta Crystallogr D Biol Crystallogr. 2014 Apr;70(Pt 4):1104-14. doi: 10.1107/S1399004714001308. Epub 2014 Mar 20.

32.

Biophysical highlights from 54 years of macromolecular crystallography.

Richardson JS, Richardson DC.

Biophys J. 2014 Feb 4;106(3):510-25. doi: 10.1016/j.bpj.2014.01.001. Review.

33.

Competitive displacement alters top-down effects on carbon dioxide concentrations in a freshwater ecosystem.

Atwood TB, Hammill E, Srivastava DS, Richardson JS.

Oecologia. 2014 May;175(1):353-61. doi: 10.1007/s00442-013-2877-3. Epub 2014 Jan 8.

PMID:
24399484
34.

Quantitative gradient of subsidies reveals a threshold in community-level trophic cascades.

Klemmer AJ, Richardson JS.

Ecology. 2013 Sep;94(9):1920-6.

PMID:
24279263
35.

Crystallographic model validation: from diagnosis to healing.

Richardson JS, Prisant MG, Richardson DC.

Curr Opin Struct Biol. 2013 Oct;23(5):707-14. doi: 10.1016/j.sbi.2013.06.004. Epub 2013 Sep 21. Review.

36.

Recommendations of the wwPDB NMR Validation Task Force.

Montelione GT, Nilges M, Bax A, Güntert P, Herrmann T, Richardson JS, Schwieters CD, Vranken WF, Vuister GW, Wishart DS, Berman HM, Kleywegt GJ, Markley JL.

Structure. 2013 Sep 3;21(9):1563-70. doi: 10.1016/j.str.2013.07.021.

37.

Advances, interactions, and future developments in the CNS, Phenix, and Rosetta structural biology software systems.

Adams PD, Baker D, Brunger AT, Das R, DiMaio F, Read RJ, Richardson DC, Richardson JS, Terwilliger TC.

Annu Rev Biophys. 2013;42:265-87. doi: 10.1146/annurev-biophys-083012-130253. Epub 2013 Feb 28. Review.

PMID:
23451892
38.

Doing molecular biophysics: finding, naming, and picturing signal within complexity.

Richardson JS, Richardson DC.

Annu Rev Biophys. 2013;42:1-28. doi: 10.1146/annurev-biophys-083012-130353. Epub 2013 Feb 28.

39.

Scientific benchmarks for guiding macromolecular energy function improvement.

Leaver-Fay A, O'Meara MJ, Tyka M, Jacak R, Song Y, Kellogg EH, Thompson J, Davis IW, Pache RA, Lyskov S, Gray JJ, Kortemme T, Richardson JS, Havranek JJ, Snoeyink J, Baker D, Kuhlman B.

Methods Enzymol. 2013;523:109-43. doi: 10.1016/B978-0-12-394292-0.00006-0.

40.

OSPREY: protein design with ensembles, flexibility, and provable algorithms.

Gainza P, Roberts KE, Georgiev I, Lilien RH, Keedy DA, Chen CY, Reza F, Anderson AC, Richardson DC, Richardson JS, Donald BR.

Methods Enzymol. 2013;523:87-107. doi: 10.1016/B978-0-12-394292-0.00005-9.

41.

Airway delivery of an adenovirus-based Ebola virus vaccine bypasses existing immunity to homologous adenovirus in nonhuman primates.

Richardson JS, Pillet S, Bello AJ, Kobinger GP.

J Virol. 2013 Apr;87(7):3668-77. doi: 10.1128/JVI.02864-12. Epub 2013 Jan 9.

42.

Immune parameters correlate with protection against ebola virus infection in rodents and nonhuman primates.

Wong G, Richardson JS, Pillet S, Patel A, Qiu X, Alimonti J, Hogan J, Zhang Y, Takada A, Feldmann H, Kobinger GP.

Sci Transl Med. 2012 Oct 31;4(158):158ra146. doi: 10.1126/scitranslmed.3004582.

43.

Studying and polishing the PDB's macromolecules.

Richardson JS, Richardson DC.

Biopolymers. 2013 Mar;99(3):170-82. doi: 10.1002/bip.22108. Epub 2012 Sep 29. Review.

44.

Pentamers not found in the universal proteome can enhance antigen specific immune responses and adjuvant vaccines.

Patel A, Dong JC, Trost B, Richardson JS, Tohme S, Babiuk S, Kusalik A, Kung SK, Kobinger GP.

PLoS One. 2012;7(8):e43802. doi: 10.1371/journal.pone.0043802. Epub 2012 Aug 24.

45.

The role of local backrub motions in evolved and designed mutations.

Keedy DA, Georgiev I, Triplett EB, Donald BR, Richardson DC, Richardson JS.

PLoS Comput Biol. 2012;8(8):e1002629. doi: 10.1371/journal.pcbi.1002629. Epub 2012 Aug 2.

46.

Graphical tools for macromolecular crystallography in PHENIX.

Echols N, Grosse-Kunstleve RW, Afonine PV, Bunkóczi G, Chen VB, Headd JJ, McCoy AJ, Moriarty NW, Read RJ, Richardson DC, Richardson JS, Terwilliger TC, Adams PD.

J Appl Crystallogr. 2012 Jun 1;45(Pt 3):581-586. Epub 2012 May 16.

47.

Current and historical drivers of landscape genetic structure differ in core and peripheral salamander populations.

Dudaniec RY, Spear SF, Richardson JS, Storfer A.

PLoS One. 2012;7(5):e36769. doi: 10.1371/journal.pone.0036769. Epub 2012 May 10.

48.

Use of knowledge-based restraints in phenix.refine to improve macromolecular refinement at low resolution.

Headd JJ, Echols N, Afonine PV, Grosse-Kunstleve RW, Chen VB, Moriarty NW, Richardson DC, Richardson JS, Adams PD.

Acta Crystallogr D Biol Crystallogr. 2012 Apr;68(Pt 4):381-90. doi: 10.1107/S0907444911047834. Epub 2012 Mar 16.

49.
50.

Evaluation of Different Strategies for Post-Exposure Treatment of Ebola Virus Infection in Rodents.

Richardson JS, Wong G, Pillet S, Schindle S, Ennis J, Turner J, Strong JE, Kobinger GP.

J Bioterror Biodef. 2011 Oct 20;(S1). pii: 007.

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