Bickhart, D: search on Z-Library

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1

Butyrate Induced IGF2 Activation Correlated with Distinct Chromatin Signatures Due to Histone Modification

Li, Congjun, Shin, Joo Heon, Li, Robert, Gao, Yuan, Bickhart, Derek, Liu, George, Li, Weizhong, Wu, Sitao, Li, Congjun

Journal:

Gene Regulation and Systems Biology

Year:

2013

Language:

english

File:

PDF, 3.68 MB

english, 2013

2

Genome to Phenome: Improving Animal Health, Production, and Well-Being – A New USDA Blueprint for Animal Genome Research 2018–2027

Rexroad, Caird, Vallet, Jeffrey, Matukumalli, Lakshmi Kumar, Reecy, James, Bickhart, Derek, Blackburn, Harvey, Boggess, Mark, Cheng, Hans, Clutter, Archie, Cockett, Noelle, Ernst, Catherine, Fulton, J

Journal:

Frontiers in Genetics

Year:

2019

Language:

english

File:

PDF, 3.91 MB

english, 2019

3

Rolling coal: The greenhouse gas emissions of coal rail transport for electricity generation

Sherwood, John, Bickhart, Robert, Murawski, Emily, Dhanani, Zemin, Lytle, Blake, Carbajales-Dale, Patricia, Carbajales-Dale, Michael

Journal:

Journal of Cleaner Production

Year:

2020

File:

PDF, 4.39 MB

2020

4

Copy number variation of individual cattle genomes using next-generation sequencing

Bickhart, D. M., Hou, Y., Schroeder, S. G., Alkan, C., Cardone, M. F., Matukumalli, L. K., Song, J., Schnabel, R. D., Ventura, M., Taylor, J. F., Garcia, J. F., Van Tassell, C. P., Sonstegard, T. S.,

Journal:

Genome Research

Year:

2012

Language:

english

File:

PDF, 1.38 MB

english, 2012

5

[Methods in Molecular Biology] Copy Number Variants Volume 1833 (Methods and Protocols) ||

Bickhart, Derek M.

Year:

2018

Language:

english

File:

PDF, 6.48 MB

english, 2018

6

Chromosome-level assembly of the water buffalo genome surpasses human and goat genomes in sequence contiguity

Low, Wai Yee, Tearle, Rick, Bickhart, Derek M., Rosen, Benjamin D., Kingan, Sarah B., Swale, Thomas, Thibaud-Nissen, Françoise, Murphy, Terence D., Young, Rachel, Lefevre, Lucas, Hume, David A., Colli

Journal:

Nature Communications

Year:

2019

Language:

english

File:

PDF, 2.31 MB

english, 2019

7

Comparative sequence alignment reveals River Buffalo genomic structural differences compared with cattle

Li, Wenli, Bickhart, Derek M., Ramunno, Luigi, Iamartino, Daniela, Williams, John L., Liu, George E.

Journal:

Year:

2018

Language:

english

File:

PDF, 749 KB

english, 2018

8

Comparative whole genome DNA methylation profiling of cattle sperm and somatic tissues reveals striking hypomethylated patterns in sperm

Zhou, Yang, Connor, Erin E, Bickhart, Derek M, Li, Congjun, Baldwin, Ransom L, Schroeder, Steven G, Rosen, Benjamin D, Yang, Liguo, Van Tassell, Curtis P, Liu, George E

Journal:

Year:

2018

Language:

english

File:

PDF, 1011 KB

english, 2018

9

Effect of consuming endophyte-infected fescue seed on transcript abundance in the mammary gland of lactating and dry cows, as assessed by RNA sequencing

Capuco, Anthony V., Bickhart, Derek, Li, Congjun, Evock-Clover, Christina M., Choudhary, Ratan K., Grossi, Paolo, Bertoni, Giuseppe, Trevisi, Erminio, Aiken, Glen E., McLeod, Kyle R., Baldwin, Ransom

Journal:

Journal of Dairy Science

Year:

2018

Language:

english

File:

PDF, 8.21 MB

english, 2018

10

Analysis of copy number variations in Holstein cows identify potential mechanisms contributing to differences in residual feed intake

Yali Hou, Derek M. Bickhart, Hoyoung Chung, Jana L. Hutchison, H. Duane Norman, Erin E. Connor, George E. Liu

Journal:

Functional & Integrative Genomics

Year:

2012

Language:

english

File:

PDF, 334 KB

english, 2012

11

De novo assembly of haplotype-resolved genomes with trio binning

Koren, Sergey, Rhie, Arang, Walenz, Brian P, Dilthey, Alexander T, Bickhart, Derek M, Kingan, Sarah B, Hiendleder, Stefan, Williams, John L, Smith, Timothy P L, Phillippy, Adam M

Journal:

Nature Biotechnology

Year:

2018

Language:

english

File:

PDF, 2.68 MB

english, 2018

12

Fine Mapping for Weaver Syndrome in Brown Swiss Cattle and the Identification of 41 Concordant Mutations across NRCAM, PNPLA8 and CTTNBP2

McClure, Matthew, Kim, Euisoo, Bickhart, Derek, Null, Daniel, Cooper, Tabatha, Cole, John, Wiggans, George, Ajmone-Marsan, Paolo, Colli, Licia, Santus, Enrico, Liu, George E., Schroeder, Steve, Matuku

Journal:

Year:

2013

Language:

english

File:

PDF, 923 KB

english, 2013

13

[Methods in Molecular Biology] Copy Number Variants Volume 1833 (Methods and Protocols) || Structural Variation Detection and Analysis Using Bionano Optical Mapping

Bickhart, Derek M.

Year:

2018

Language:

english

File:

PDF, 763 KB

english, 2018

14

A genome-wide survey reveals a deletion polymorphism associated with resistance to gastrointestinal nematodes in Angus cattle

Xu, Lingyang, Hou, Yali, Bickhart, Derek M., Song, Jiuzhou, Van Tassell, Curtis P., Sonstegard, Tad S., Liu, George E.

Journal:

Functional & Integrative Genomics

Year:

2014

Language:

english

File:

PDF, 1.06 MB

english, 2014

15

[Methods in Molecular Biology] Copy Number Variants Volume 1833 (Methods and Protocols) || Using SAAS-CNV to Detect and Characterize Somatic Copy Number Alterations in Cancer Genomes from Next Generation Sequencing and SNP Array Data

Bickhart, Derek M.

Year:

2018

Language:

english

File:

PDF, 1.26 MB

english, 2018

16

De novo assembly of the cattle reference genome with single-molecule sequencing

Rosen, Benjamin D, Bickhart, Derek M, Schnabel, Robert D, Koren, Sergey, Elsik, Christine G, Tseng, Elizabeth, Rowan, Troy N, Low, Wai Y, Zimin, Aleksey, Couldrey, Christine, Hall, Richard, Li, Wenli,

Journal:

Year:

2020

File:

PDF, 1.91 MB

2020

17

[Methods in Molecular Biology] Copy Number Variants Volume 1833 (Methods and Protocols) || Whole-Genome Shotgun Sequence CNV Detection Using Read Depth

Bickhart, Derek M.

Year:

2018

Language:

english

File:

PDF, 236 KB

english, 2018

18

Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation

Bickhart, Derek M., Watson, Mick, Koren, Sergey, Panke-Buisse, Kevin, Cersosimo, Laura M., Press, Maximilian O., Van Tassell, Curtis P., Van Kessel, Jo Ann S., Haley, Bradd J., Kim, Seon Woo, Heiner,

Journal:

Year:

2019

Language:

english

File:

PDF, 3.56 MB

english, 2019

19

[Methods in Molecular Biology] Copy Number Variants Volume 1833 (Methods and Protocols) || Detecting Small Inversions Using SRinversion

Bickhart, Derek M.

Year:

2018

Language:

english

File:

PDF, 281 KB

english, 2018

20

Reduced representation bisulphite sequencing of ten bovine somatic tissues reveals DNA methylation patterns and their impacts on gene expression

Zhou, Yang, Xu, Lingyang, Bickhart, Derek M., abdel Hay, El Hamidi, Schroeder, Steven G., Connor, Erin E., Alexander, Leeson J., Sonstegard, Tad S., Van Tassell, Curtis P., Chen, Hong, Liu, George E.

Journal:

Year:

2016

Language:

english

File:

PDF, 1.10 MB

english, 2016

21

SUBJECTIVE AGE AND COGNITIVE, PHYSICAL, AND PSYCHOSOCIAL HEALTH IN OLDER ADULTS

Sprague, Briana N, Troutman, Sara B W, Bickhart, Sara E, Jiya, Nathanael, Ross, Lesley A

Journal:

Innovation in Aging

Year:

2019

File:

PDF, 80 KB

2019

22

[Methods in Molecular Biology] Copy Number Variants Volume 1833 (Methods and Protocols) || Detection of CNVs in NGS Data Using VS-CNV

Bickhart, Derek M.

Year:

2018

Language:

english

File:

PDF, 586 KB

english, 2018

23

[Methods in Molecular Biology] Copy Number Variants Volume 1833 (Methods and Protocols) || Statistical Detection of Genome Differences Based on CNV Segments

Bickhart, Derek M.

Year:

2018

Language:

english

File:

PDF, 432 KB

english, 2018

24

Revealing misassembled segments in the bovine reference genome by high resolution linkage disequilibrium scan

Utsunomiya, Adam T. H., Santos, Daniel J. A., Boison, Solomon A., Utsunomiya, Yuri T., Milanesi, Marco, Bickhart, Derek M., Ajmone-Marsan, Paolo, Sölkner, Johann, Garcia, José F., da Fonseca, Ricardo,

Journal:

Year:

2016

Language:

english

File:

PDF, 2.05 MB

english, 2016

25

Genomic structural differences between cattle and River Buffalo identified through comparative genomic and transcriptomic analysis

Li, Wenli, Bickhart, Derek M., Ramunno, Luigi, Iamartino, Daniela, Williams, John L., Liu, George E.

Journal:

Year:

2018

Language:

english

File:

PDF, 118 KB

english, 2018

26

Author Correction: Transcriptomics analysis of host liver and meta-transcriptome analysis of rumen epimural microbial community in young calves treated with artificial dosing of rumen content from adult donor cow

Li, Wenli, Edwards, Andrea, Riehle, Christina, Cox, Madison S., Raabis, Sarah, Skarlupka, Joseph H., Steinberger, Andrew J., Walling, Jason, Bickhart, Derek, Suen, Garret

Journal:

Scientific Reports

Year:

2019

Language:

english

File:

PDF, 674 KB

english, 2019

27

Assessing signatures of selection through variation in linkage disequilibrium between taurine and indicine cattle

Pérez O’Brien, Ana M, Utsunomiya, Yuri T, Mészáros, Gábor, Bickhart, Derek M, Liu, George E, Van Tassell, Curtis P, Sonstegard, Tad S, Da Silva, Marcos VB, Garcia, José, Sölkner, Johann

Journal:

Genetics Selection Evolution

Year:

2014

Language:

english

File:

PDF, 1.04 MB

english, 2014

28

Genome wide CNV analysis reveals additional variants associated with milk production traits in Holsteins

Lingyang Xu,John B Cole,Derek M Bickhart,Yali Hou,Jiuzhou Song…

Journal:

Year:

2014

Language:

english

File:

PDF, 1.88 MB

english, 2014

29

Increasing the number of single nucleotide polymorphisms used in genomic evaluation of dairy cattle

Wiggans, G.R., Cooper, T.A., VanRaden, P.M., Van Tassell, C.P., Bickhart, D.M., Sonstegard, T.S.

Journal:

Journal of Dairy Science

Year:

2016

Language:

english

File:

PDF, 290 KB

english, 2016

30

Systematic profiling of short tandem repeats in the cattle genome

Xu, Lingyang, Haasl, Ryan J., Sun, Jiajie, Zhou, Yang, Bickhart, Derek M., Li, Junya, Song, Jiuzhou, Sonstegard, Tad S., Van Tassell, Curtis P., Lewin, Harris A., Liu, George E.

Journal:

Genome Biology and Evolution

Year:

2016

Language:

english

File:

PDF, 1.67 MB

english, 2016

31

Determination of quantitative trait nucleotides by concordance analysis between quantitative trait loci and marker genotypes of US Holsteins

Weller, J.I., Bickhart, D.M., Wiggans, G.R., Tooker, M.E., O'Connell, J.R., Jiang, J., Ron, M., VanRaden, P.M.

Journal:

Journal of Dairy Science

Year:

2018

Language:

english

File:

PDF, 628 KB

english, 2018

32

Snack Time: A Patient Centered Intervention to Improve The Hospital Experience for Oncology Patients

Roit, S., Bickhart, A.

Journal:

Journal of the Academy of Nutrition and Dietetics

Year:

2018

Language:

english

File:

PDF, 57 KB

english, 2018

33

Validating the use of bovine buccal sampling as a proxy for the rumen microbiota using a time course and random forest classification approach

Young, Juliana, Skarlupka, Joseph H., Cox, Madison S., Resende, Rafael Tassinari, Fischer, Amelie, Kalscheur, Kenneth F., McClure, Jennifer C., Cole, John B., Suen, Garret, Bickhart, Derek M.

Journal:

Applied and Environmental Microbiology

Year:

2020

File:

PDF, 2.80 MB

2020

34

Fine mapping of copy number variations on two cattle genome assemblies using high density SNP array

Yali Hou, Derek M Bickhart, Miranda L Hvinden, Congjun Li, Jiuzhou Song…

Journal:

Year:

2012

Language:

english

File:

PDF, 1.85 MB

english, 2012

35

0372 Sexed-semen usage for Holstein AI in the United States.

Hutchison, J. L., Bickhart, D. M.

Journal:

Journal of Animal Science

Year:

2016

Language:

english

File:

PDF, 246 KB

english, 2016

36

Genomic predictions combining SNP markers and copy number variations in Nellore cattle

Hay, El Hamidi A., Utsunomiya, Yuri T., Xu, Lingyang, Zhou, Yang, Neves, Haroldo H. R., Carvalheiro, Roberto, Bickhart, Derek M., Ma, Li, Garcia, Jose Fernando, Liu, George E.

Journal:

Year:

2018

Language:

english

File:

PDF, 447 KB

english, 2018

37

Scaffolding of long read assemblies using long range contact information

Ghurye, Jay, Pop, Mihai, Koren, Sergey, Bickhart, Derek, Chin, Chen-Shan

Journal:

Year:

2017

Language:

english

File:

PDF, 1.24 MB

english, 2017

38

Genomic regions showing copy number variations associate with resistance or susceptibility to gastrointestinal nematodes in Angus cattle

Yali Hou, George E. Liu, Derek M. Bickhart, Lakshmi K. Matukumalli, Congjun Li, Jiuzhou Song, Louis C. Gasbarre, Curtis P. Van Tassell, Tad S. Sonstegard

Journal:

Functional & Integrative Genomics

Year:

2012

Language:

english

File:

PDF, 471 KB

english, 2012

39

Genomic divergence of zebu and taurine cattle identified through high-density SNP genotyping

Porto-Neto, Laercio R, Sonstegard, Tad S, Liu, George E, Bickhart, Derek M, Da Silva, Marcos VB, Machado, Marco A, Utsunomiya, Yuri T, Garcia, Jose F, Gondro, Cedric, Van Tassell, Curtis P

Journal:

Year:

2013

Language:

english

File:

PDF, 582 KB

english, 2013

40

Genome characteristics of facultatively symbiotic Frankia sp. strains reflect host range and host plant biogeography

Normand, P., Lapierre, P., Tisa, L. S., Gogarten, J. P., Alloisio, N., Bagnarol, E., Bassi, C. A., Berry, A. M., Bickhart, D. M., Choisne, N., Couloux, A., Cournoyer, B., Cruveiller, S., Daubin, V., D

Journal:

Genome Research

Year:

2006

Language:

english

File:

PDF, 513 KB

english, 2006

41

Bovine Exome Sequence Analysis and Targeted SNP Genotyping of Recessive Fertility Defects BH1, HH2, and HH3 Reveal a Putative Causative Mutation in SMC2 for HH3

McClure, Matthew C., Bickhart, Derek, Null, Dan, VanRaden, Paul, Xu, Lingyang, Wiggans, George, Liu, George, Schroeder, Steve, Glasscock, Jarret, Armstrong, Jon, Cole, John B., Van Tassell, Curtis P.,

Journal:

Year:

2014

Language:

english

File:

PDF, 185 KB

english, 2014

42

Convergent Evolution of Slick Coat in Cattle through Truncation Mutations in the Prolactin Receptor

Porto-Neto, Laercio R., Bickhart, Derek M., Landaeta-Hernandez, Antonio J., Utsunomiya, Yuri T., Pagan, Melvin, Jimenez, Esbal, Hansen, Peter J., Dikmen, Serdal, Schroeder, Steven G., Kim, Eui-Soo, Su

Journal:

Frontiers in Genetics

Year:

2018

Language:

english

File:

PDF, 1.48 MB

english, 2018

43

[Methods in Molecular Biology] Copy Number Variants Volume 1833 (Methods and Protocols) || Identification of Copy Number Variants from SNP Arrays Using PennCNV

Bickhart, Derek M.

Year:

2018

Language:

english

File:

PDF, 693 KB

english, 2018

44

0302 Identifying and calling insertions, deletions, and single-base mutations efficiently from sequence data

VanRaden, P. M., Bickhart, D. M., O'Connell, J. R.

Journal:

Journal of Animal Science

Year:

2016

Language:

english

File:

PDF, 278 KB

english, 2016

45

Host–rumen microbe interactions may be leveraged to improve the productivity of dairy cows 1

Bickhart, D.M., Weimer, P.J.

Journal:

Journal of Dairy Science

Year:

2017

Language:

english

File:

PDF, 424 KB

english, 2017

46

0288 Calculation of genomic predicted transmitting abilities for bovine respiratory disease complex in Holsteins

VanTassell, C. P., Spangler, G., Bickhart, D. M., Wiggans, G. R., Cole, J. B., Taylor, J. F., Neibergs, H. L., Seabury, C. M., Van Eenennaam, A. L., Womack, J. E.

Journal:

Journal of Animal Science

Year:

2016

Language:

english

File:

PDF, 254 KB

english, 2016

47

[Methods in Molecular Biology] Copy Number Variants Volume 1833 (Methods and Protocols) || Structural Variant Breakpoint Detection with novoBreak

Bickhart, Derek M.

Year:

2018

Language:

english

File:

PDF, 873 KB

english, 2018

48

metaFlye: scalable long-read metagenome assembly using repeat graphs

Kolmogorov, Mikhail, Bickhart, Derek M., Behsaz, Bahar, Gurevich, Alexey, Rayko, Mikhail, Shin, Sung Bong, Kuhn, Kristen, Yuan, Jeffrey, Polevikov, Evgeny, Smith, Timothy P. L., Pevzner, Pavel A.

Journal:

Year:

2020

File:

PDF, 11.41 MB

2020

49

The challenges and importance of structural variation detection in livestock

Bickhart, Derek M., Liu, George E.

Journal:

Frontiers in Genetics

Year:

2014

Language:

english

File:

PDF, 698 KB

english, 2014

50

[Methods in Molecular Biology] Copy Number Variants Volume 1833 (Methods and Protocols) || Using HaMMLET for Bayesian Segmentation of WGS Read-Depth Data

Bickhart, Derek M.

Year:

2018

Language:

english

File:

PDF, 312 KB

english, 2018

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