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Items: 1 to 50 of 139

1.

Exome resequencing and GWAS for growth, ecophysiology, and chemical and metabolomic composition of wood of Populus trichocarpa.

Guerra FP, Suren H, Holliday J, Richards JH, Fiehn O, Famula R, Stanton BJ, Shuren R, Sykes R, Davis MF, Neale DB.

BMC Genomics. 2019 Nov 20;20(1):875. doi: 10.1186/s12864-019-6160-9.

2.

Combining phenotype, genotype and environment to uncover genetic components underlying water use efficiency in Persian walnut.

Arab MM, Marrano A, Abdollahi-Arpanahi R, Leslie CA, Cheng H, Neale DB, Vahdati K.

J Exp Bot. 2019 Oct 23. pii: erz467. doi: 10.1093/jxb/erz467. [Epub ahead of print]

PMID:
31639822
3.

Deciphering of the Genetic Control of Phenology, Yield, and Pellicle Color in Persian Walnut (Juglans regia L.).

Marrano A, Sideli GM, Leslie CA, Cheng H, Neale DB.

Front Plant Sci. 2019 Sep 20;10:1140. doi: 10.3389/fpls.2019.01140. eCollection 2019.

4.

Environmental Genome-Wide Association Reveals Climate Adaptation Is Shaped by Subtle to Moderate Allele Frequency Shifts in Loblolly Pine.

De La Torre AR, Wilhite B, Neale DB.

Genome Biol Evol. 2019 Oct 1;11(10):2976-2989. doi: 10.1093/gbe/evz220.

5.

Engineered Fibrillar Fibronectin Networks as Three-Dimensional Tissue Scaffolds.

Jordahl S, Solorio L, Neale DB, McDermott S, Jordahl JH, Fox A, Dunlay C, Xiao A, Brown M, Wicha M, Luker GD, Lahann J.

Adv Mater. 2019 Nov;31(46):e1904580. doi: 10.1002/adma.201904580. Epub 2019 Sep 30.

PMID:
31565823
6.

A Reference Genome Sequence for the European Silver Fir (Abies alba Mill.): A Community-Generated Genomic Resource.

Mosca E, Cruz F, Gómez-Garrido J, Bianco L, Rellstab C, Brodbeck S, Csilléry K, Fady B, Fladung M, Fussi B, Gömöry D, González-Martínez SC, Grivet D, Gut M, Hansen OK, Heer K, Kaya Z, Krutovsky KV, Kersten B, Liepelt S, Opgenoorth L, Sperisen C, Ullrich KK, Vendramin GG, Westergren M, Ziegenhagen B, Alioto T, Gugerli F, Heinze B, Höhn M, Troggio M, Neale DB.

G3 (Bethesda). 2019 Jul 9;9(7):2039-2049. doi: 10.1534/g3.119.400083.

7.

Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization.

Montanari S, Bianco L, Allen BJ, Martínez-García PJ, Bassil NV, Postman J, Knäbel M, Kitson B, Deng CH, Chagné D, Crepeau MW, Langley CH, Evans K, Dhingra A, Troggio M, Neale DB.

BMC Genomics. 2019 May 2;20(1):331. doi: 10.1186/s12864-019-5712-3.

8.

Genome-wide patterns of population structure and association mapping of nut-related traits in Persian walnut populations from Iran using the Axiom J. regia 700K SNP array.

Arab MM, Marrano A, Abdollahi-Arpanahi R, Leslie CA, Askari H, Neale DB, Vahdati K.

Sci Rep. 2019 Apr 23;9(1):6376. doi: 10.1038/s41598-019-42940-1.

9.

Emerging Trends in Information-Driven Engineering of Complex Biological Systems.

Steier A, Muñiz A, Neale D, Lahann J.

Adv Mater. 2019 Jun;31(26):e1806898. doi: 10.1002/adma.201806898. Epub 2019 Apr 8. Review.

PMID:
30957921
10.

Synthesis and Structure-Activity Relationships of Inhibitors That Target the C-Terminal MEEVD on Heat Shock Protein 90.

Rahimi MN, Buckton LK, Zaiter SS, Kho J, Chan V, Guo A, Konesan J, Kwon S, Lam LKO, Lawler MF, Leong M, Moldovan GD, Neale DA, Thornton G, McAlpine SR.

ACS Med Chem Lett. 2017 Dec 13;9(2):73-77. doi: 10.1021/acsmedchemlett.7b00310. eCollection 2018 Feb 8.

11.

A new genomic tool for walnut (Juglans regia L.): development and validation of the high-density Axiom™ J. regia 700K SNP genotyping array.

Marrano A, Martínez-García PJ, Bianco L, Sideli GM, Di Pierro EA, Leslie CA, Stevens KA, Crepeau MW, Troggio M, Langley CH, Neale DB.

Plant Biotechnol J. 2019 Jun;17(6):1027-1036. doi: 10.1111/pbi.13034. Epub 2018 Dec 4.

12.

The Role of Regulatory, Social, and Dialogic Dynamics on Young Children's Productive Collaboration in Group Problem Solving.

Pino-Pasternak D, Whitebread D, Neale D.

New Dir Child Adolesc Dev. 2018 Dec;2018(162):41-66. doi: 10.1002/cad.20262. Epub 2018 Oct 29.

PMID:
30371966
13.

Genomic architecture of complex traits in loblolly pine.

De La Torre AR, Puiu D, Crepeau MW, Stevens K, Salzberg SL, Langley CH, Neale DB.

New Phytol. 2019 Mar;221(4):1789-1801. doi: 10.1111/nph.15535. Epub 2018 Nov 9.

PMID:
30318590
14.

Accessing the Inaccessible: Redefining Play as a Spectrum.

Zosh JM, Hirsh-Pasek K, Hopkins EJ, Jensen H, Liu C, Neale D, Solis SL, Whitebread D.

Front Psychol. 2018 Aug 2;9:1124. doi: 10.3389/fpsyg.2018.01124. eCollection 2018. Review.

15.

Genomic signatures of different adaptations to environmental stimuli between wild and cultivated Vitis vinifera L.

Marrano A, Micheletti D, Lorenzi S, Neale D, Grando MS.

Hortic Res. 2018 Jul 1;5:34. doi: 10.1038/s41438-018-0041-2. eCollection 2018.

16.

Genomic Variation Among and Within Six Juglans Species.

Stevens KA, Woeste K, Chakraborty S, Crepeau MW, Leslie CA, Martínez-García PJ, Puiu D, Romero-Severson J, Coggeshall M, Dandekar AM, Kluepfel D, Neale DB, Salzberg SL, Langley CH.

G3 (Bethesda). 2018 Jul 2;8(7):2153-2165. doi: 10.1534/g3.118.200030.

17.

Toward a Neuroscientific Understanding of Play: A Dimensional Coding Framework for Analyzing Infant-Adult Play Patterns.

Neale D, Clackson K, Georgieva S, Dedetas H, Scarpate M, Wass S, Leong V.

Front Psychol. 2018 Mar 21;9:273. doi: 10.3389/fpsyg.2018.00273. eCollection 2018.

18.

Comparative Transcriptomics Among Four White Pine Species.

Baker EAG, Wegrzyn JL, Sezen UU, Falk T, Maloney PE, Vogler DR, Delfino-Mix A, Jensen C, Mitton J, Wright J, Knaus B, Rai H, Cronn R, Gonzalez-Ibeas D, Vasquez-Gross HA, Famula RA, Liu JJ, Kueppers LM, Neale DB.

G3 (Bethesda). 2018 May 4;8(5):1461-1474. doi: 10.1534/g3.118.200257.

19.

The psychology of babies: how relationships support development from birth to two.

Neale D.

J Reprod Infant Psychol. 2017 Feb;35(1):103-104. doi: 10.1080/02646838.2016.1186267. Epub 2016 Jun 15. No abstract available.

PMID:
29517287
20.

Environmental effects on fine-scale spatial genetic structure in four Alpine keystone forest tree species.

Mosca E, Di Pierro EA, Budde KB, Neale DB, González-Martínez SC.

Mol Ecol. 2018 Feb;27(3):647-658. doi: 10.1111/mec.14469. Epub 2018 Jan 29.

PMID:
29274175
21.

High rate of adaptive evolution in two widespread European pines.

Grivet D, Avia K, Vaattovaara A, Eckert AJ, Neale DB, Savolainen O, González-Martínez SC.

Mol Ecol. 2017 Dec;26(24):6857-6870. doi: 10.1111/mec.14402. Epub 2017 Dec 2.

PMID:
29110402
22.

Erratum to: An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing.

Zimin AV, Stevens KA, Crepeau MW, Puiu D, Wegrzyn JL, Yorke JA, Langley CH, Neale DB, Salzberg SL.

Gigascience. 2017 Oct 1;6(10):1. doi: 10.1093/gigascience/gix072.

23.

The Douglas-Fir Genome Sequence Reveals Specialization of the Photosynthetic Apparatus in Pinaceae.

Neale DB, McGuire PE, Wheeler NC, Stevens KA, Crepeau MW, Cardeno C, Zimin AV, Puiu D, Pertea GM, Sezen UU, Casola C, Koralewski TE, Paul R, Gonzalez-Ibeas D, Zaman S, Cronn R, Yandell M, Holt C, Langley CH, Yorke JA, Salzberg SL, Wegrzyn JL.

G3 (Bethesda). 2017 Sep 7;7(9):3157-3167. doi: 10.1534/g3.117.300078.

24.

Transcription through the eye of a needle: daily and annual cyclic gene expression variation in Douglas-fir needles.

Cronn R, Dolan PC, Jogdeo S, Wegrzyn JL, Neale DB, St Clair JB, Denver DR.

BMC Genomics. 2017 Jul 24;18(1):558. doi: 10.1186/s12864-017-3916-y.

25.

Genome-wide association study identifies a major gene for beech bark disease resistance in American beech (Fagus grandifolia Ehrh.).

Ćalić I, Koch J, Carey D, Addo-Quaye C, Carlson JE, Neale DB.

BMC Genomics. 2017 Jul 20;18(1):547. doi: 10.1186/s12864-017-3931-z.

26.

An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing.

Zimin AV, Stevens KA, Crepeau MW, Puiu D, Wegrzyn JL, Yorke JA, Langley CH, Neale DB, Salzberg SL.

Gigascience. 2017 Jan 1;6(1):1-4. doi: 10.1093/gigascience/giw016. Erratum in: Gigascience. 2017 Oct 1;6(10):1.

27.

Water availability drives signatures of local adaptation in whitebark pine (Pinus albicaulis Engelm.) across fine spatial scales of the Lake Tahoe Basin, USA.

Lind BM, Friedline CJ, Wegrzyn JL, Maloney PE, Vogler DR, Neale DB, Eckert AJ.

Mol Ecol. 2017 Jun;26(12):3168-3185. doi: 10.1111/mec.14106. Epub 2017 May 6.

PMID:
28316116
28.

Novel Insights into Tree Biology and Genome Evolution as Revealed Through Genomics.

Neale DB, Martínez-García PJ, De La Torre AR, Montanari S, Wei XX.

Annu Rev Plant Biol. 2017 Apr 28;68:457-483. doi: 10.1146/annurev-arplant-042916-041049. Epub 2017 Feb 6. Review.

PMID:
28226237
29.

Genetic heterogeneity underlying variation in a locally adaptive clinal trait in Pinus sylvestris revealed by a Bayesian multipopulation analysis.

Kujala ST, Knürr T, Kärkkäinen K, Neale DB, Sillanpää MJ, Savolainen O.

Heredity (Edinb). 2017 May;118(5):413-423. doi: 10.1038/hdy.2016.115. Epub 2016 Nov 30.

30.

Assessing the Gene Content of the Megagenome: Sugar Pine (Pinus lambertiana).

Gonzalez-Ibeas D, Martinez-Garcia PJ, Famula RA, Delfino-Mix A, Stevens KA, Loopstra CA, Langley CH, Neale DB, Wegrzyn JL.

G3 (Bethesda). 2016 Dec 7;6(12):3787-3802. doi: 10.1534/g3.116.032805.

31.

Sequence of the Sugar Pine Megagenome.

Stevens KA, Wegrzyn JL, Zimin A, Puiu D, Crepeau M, Cardeno C, Paul R, Gonzalez-Ibeas D, Koriabine M, Holtz-Morris AE, Martínez-García PJ, Sezen UU, Marçais G, Jermstad K, McGuire PE, Loopstra CA, Davis JM, Eckert A, de Jong P, Yorke JA, Salzberg SL, Neale DB, Langley CH.

Genetics. 2016 Dec;204(4):1613-1626. Epub 2016 Oct 28.

32.

Quantitative trait loci influencing forking defects in an outbred pedigree of loblolly pine.

Xiong JS, McKeand SE, Isik F, Wegrzyn J, Neale DB, Zeng ZB, da Costa E Silva L, Whetten RW.

BMC Genet. 2016 Oct 18;17(1):138.

33.

The walnut (Juglans regia) genome sequence reveals diversity in genes coding for the biosynthesis of non-structural polyphenols.

Martínez-García PJ, Crepeau MW, Puiu D, Gonzalez-Ibeas D, Whalen J, Stevens KA, Paul R, Butterfield TS, Britton MT, Reagan RL, Chakraborty S, Walawage SL, Vasquez-Gross HA, Cardeno C, Famula RA, Pratt K, Kuruganti S, Aradhya MK, Leslie CA, Dandekar AM, Salzberg SL, Wegrzyn JL, Langley CH, Neale DB.

Plant J. 2016 Sep;87(5):507-32. doi: 10.1111/tpj.13207. Epub 2016 Jul 18.

34.

Evaluation of a bilayered, micropatterned hydrogel dressing for full-thickness wound healing.

Magin CM, Neale DB, Drinker MC, Willenberg BJ, Reddy ST, La Perle KM, Schultz GS, Brennan AB.

Exp Biol Med (Maywood). 2016 May;241(9):986-95. doi: 10.1177/1535370216640943. Epub 2016 Mar 31.

35.

YeATS - a tool suite for analyzing RNA-seq derived transcriptome identifies a highly transcribed putative extensin in heartwood/sapwood transition zone in black walnut.

Chakraborty S, Britton M, Wegrzyn J, Butterfield T, Martínez-García PJ, Reagan RL, Rao BJ, Leslie CA, Aradhaya M, Neale D, Woeste K, Dandekar AM.

Version 2. F1000Res. 2015 Jun 17 [revised 2015 Jan 1];4:155. doi: 10.12688/f1000research.6617.2. eCollection 2015.

36.

Emergency Room Utilization After Medically Complicated Pregnancies: A Medicaid Claims Analysis.

Harris A, Chang HY, Wang L, Sylvia M, Neale D, Levine D, Bennett W.

J Womens Health (Larchmt). 2015 Sep;24(9):745-54. doi: 10.1089/jwh.2014.5125. Epub 2015 Jul 30.

37.

A Consensus Genetic Map for Pinus taeda and Pinus elliottii and Extent of Linkage Disequilibrium in Two Genotype-Phenotype Discovery Populations of Pinus taeda.

Westbrook JW, Chhatre VE, Wu LS, Chamala S, Neves LG, Muñoz P, Martínez-García PJ, Neale DB, Kirst M, Mockaitis K, Nelson CD, Peter GF, Davis JM, Echt CS.

G3 (Bethesda). 2015 Jun 11;5(8):1685-94. doi: 10.1534/g3.115.019588.

38.

Development and applications of an outcomes assessment framework for care management programs in learning health systems.

Wang L, Kuntz-Melcavage K, Forrest CB, Lu Y, Piet L, Evans K, Uriyo M, Sherry M, Richardson R, Hawkins M, Neale D.

EGEMS (Wash DC). 2015 Apr 23;3(1):1119. doi: 10.13063/2327-9214.1119. eCollection 2015.

39.

Use of pharmacotherapies for smoking cessation: analysis of pregnant and postpartum Medicaid enrollees.

Jarlenski MP, Chisolm MS, Kachur S, Neale DM, Bennett WL.

Am J Prev Med. 2015 May;48(5):528-34. doi: 10.1016/j.amepre.2014.10.019.

40.

Micro- and macro-geographic scale effect on the molecular imprint of selection and adaptation in Norway spruce.

Scalfi M, Mosca E, Di Pierro EA, Troggio M, Vendramin GG, Sperisen C, La Porta N, Neale DB.

PLoS One. 2014 Dec 31;9(12):e115499. doi: 10.1371/journal.pone.0115499. eCollection 2014.

41.

Discovering candidate genes that regulate resin canal number in Pinus taeda stems by integrating genetic analysis across environments, ages, and populations.

Westbrook JW, Walker AR, Neves LG, Munoz P, Resende MF Jr, Neale DB, Wegrzyn JL, Huber DA, Kirst M, Davis JM, Peter GF.

New Phytol. 2015 Jan;205(2):627-41. doi: 10.1111/nph.13074. Epub 2014 Sep 30.

42.

An empirical evaluation of two-stage species tree inference strategies using a multilocus dataset from North American pines.

DeGiorgio M, Syring J, Eckert AJ, Liston A, Cronn R, Neale DB, Rosenberg NA.

BMC Evol Biol. 2014 Mar 29;14:67. doi: 10.1186/1471-2148-14-67.

43.

Unique features of the loblolly pine (Pinus taeda L.) megagenome revealed through sequence annotation.

Wegrzyn JL, Liechty JD, Stevens KA, Wu LS, Loopstra CA, Vasquez-Gross HA, Dougherty WM, Lin BY, Zieve JJ, Martínez-García PJ, Holt C, Yandell M, Zimin AV, Yorke JA, Crepeau MW, Puiu D, Salzberg SL, Dejong PJ, Mockaitis K, Main D, Langley CH, Neale DB.

Genetics. 2014 Mar;196(3):891-909. doi: 10.1534/genetics.113.159996.

44.

Sequencing and assembly of the 22-gb loblolly pine genome.

Zimin A, Stevens KA, Crepeau MW, Holtz-Morris A, Koriabine M, Marçais G, Puiu D, Roberts M, Wegrzyn JL, de Jong PJ, Neale DB, Salzberg SL, Yorke JA, Langley CH.

Genetics. 2014 Mar;196(3):875-90. doi: 10.1534/genetics.113.159715.

45.

Decoding the massive genome of loblolly pine using haploid DNA and novel assembly strategies.

Neale DB, Wegrzyn JL, Stevens KA, Zimin AV, Puiu D, Crepeau MW, Cardeno C, Koriabine M, Holtz-Morris AE, Liechty JD, Martínez-García PJ, Vasquez-Gross HA, Lin BY, Zieve JJ, Dougherty WM, Fuentes-Soriano S, Wu LS, Gilbert D, Marçais G, Roberts M, Holt C, Yandell M, Davis JM, Smith KE, Dean JF, Lorenz WW, Whetten RW, Sederoff R, Wheeler N, McGuire PE, Main D, Loopstra CA, Mockaitis K, deJong PJ, Yorke JA, Salzberg SL, Langley CH.

Genome Biol. 2014 Mar 4;15(3):R59. doi: 10.1186/gb-2014-15-3-r59.

46.

Utilization of primary and obstetric care after medically complicated pregnancies: an analysis of medical claims data.

Bennett WL, Chang HY, Levine DM, Wang L, Neale D, Werner EF, Clark JM.

J Gen Intern Med. 2014 Apr;29(4):636-45. doi: 10.1007/s11606-013-2744-2. Epub 2014 Jan 29.

47.

Multilocus analyses reveal little evidence for lineage-wide adaptive evolution within major clades of soft pines (Pinus subgenus Strobus).

Eckert AJ, Bower AD, Jermstad KD, Wegrzyn JL, Knaus BJ, Syring JV, Neale DB.

Mol Ecol. 2013 Nov;22(22):5635-50. doi: 10.1111/mec.12514. Epub 2013 Oct 18.

PMID:
24134614
48.

The evolutionary genetics of the genes underlying phenotypic associations for loblolly pine (Pinus taeda, Pinaceae).

Eckert AJ, Wegrzyn JL, Liechty JD, Lee JM, Cumbie WP, Davis JM, Goldfarb B, Loopstra CA, Palle SR, Quesada T, Langley CH, Neale DB.

Genetics. 2013 Dec;195(4):1353-72. doi: 10.1534/genetics.113.157198. Epub 2013 Oct 11.

49.

Environmental versus geographical determinants of genetic structure in two subalpine conifers.

Mosca E, González-Martínez SC, Neale DB.

New Phytol. 2014 Jan;201(1):180-92. doi: 10.1111/nph.12476. Epub 2013 Sep 16.

50.

Insights into the loblolly pine genome: characterization of BAC and fosmid sequences.

Wegrzyn JL, Lin BY, Zieve JJ, Dougherty WM, Martínez-García PJ, Koriabine M, Holtz-Morris A, deJong P, Crepeau M, Langley CH, Puiu D, Salzberg SL, Neale DB, Stevens KA.

PLoS One. 2013 Sep 4;8(9):e72439. doi: 10.1371/journal.pone.0072439. eCollection 2013.

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