Matthew T Weirauch: search on Z-Library

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1

A compendium of RNA-binding motifs for decoding gene regulation

Ray, Debashish, Kazan, Hilal, Cook, Kate B., Weirauch, Matthew T., Najafabadi, Hamed S., Li, Xiao, Gueroussov, Serge, Albu, Mihai, Zheng, Hong, Yang, Ally, Na, Hong, Irimia, Manuel, Matzat, Leah H., D

Journal:

Year:

2013

Language:

english

File:

PDF, 1.60 MB

english, 2013

2

Determination and Inference of Eukaryotic Transcription Factor Sequence Specificity

Weirauch, Matthew T., Yang, Ally, Albu, Mihai, Cote, Atina G., Montenegro-Montero, Alejandro, Drewe, Philipp, Najafabadi, Hamed S., Lambert, Samuel A., Mann, Ishminder, Cook, Kate, Zheng, Hong, Goity,

Journal:

Year:

2014

Language:

english

File:

PDF, 3.53 MB

english, 2014

3

Predicting the sequence specificities of DNA- and RNA-binding proteins by deep learning

Alipanahi, Babak, Delong, Andrew, Weirauch, Matthew T, Frey, Brendan J

Journal:

Nature Biotechnology

Year:

2015

Language:

english

File:

PDF, 2.98 MB

english, 2015

4

The genetic etiology of eosinophilic esophagitis

Kottyan, Leah C., Parameswaran, Sreeja, Weirauch, Matthew T., Rothenberg, Marc E., Martin, Lisa J.

Journal:

Journal of Allergy and Clinical Immunology

Year:

2020

File:

PDF, 525 KB

2020

5

Affinity regression predicts the recognition code of nucleic acid–binding proteins

Pelossof, Raphael, Singh, Irtisha, Yang, Julie L, Weirauch, Matthew T, Hughes, Timothy R, Leslie, Christina S

Journal:

Nature Biotechnology

Year:

2015

Language:

english

File:

PDF, 6.45 MB

english, 2015

6

Temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in Arabidopsis

Chang, Katherine Noelani, Zhong, Shan, Weirauch, Matthew T, Hon, Gary, Pelizzola, Mattia, Li, Hai, Huang, Shao-shan Carol, Schmitz, Robert J, Urich, Mark A, Kuo, Dwight, Nery, Joseph R, Qiao, Hong, Ya

Journal:

Year:

2013

Language:

english

File:

PDF, 1.15 MB

english, 2013

7

Molecular mechanisms underlying milk production and viviparity in the cockroach, Diploptera punctata

Jennings, Emily C., Korthauer, Matthew W., Hendershot, Jacob M., Bailey, Samuel T., Weirauch, Matthew T., Ribeiro, Jose MC., Benoit, Joshua B.

Journal:

Insect Biochemistry and Molecular Biology

Year:

2020

File:

PDF, 5.29 MB

2020

8

Nasal DNA methylation differentiates severe from nonâsevere asthma in AfricanâAmerican children

Zhu, Tao, Zhang, Xue, Chen, Xiaoting, Anthony, Brown P., Weirauch, Matthew T., Guilbert, Theresa W., Khurana Hershey, Gurjit K., Biagini, Jocelyn M., Ji, Hong

Journal:

Year:

2020

File:

PDF, 13.28 MB

2020

9

The Human Transcription Factors

Lambert, Samuel A., Jolma, Arttu, Campitelli, Laura F., Das, Pratyush K., Yin, Yimeng, Albu, Mihai, Chen, Xiaoting, Taipale, Jussi, Hughes, Timothy R., Weirauch, Matthew T.

Journal:

Year:

2018

Language:

english

File:

PDF, 340 KB

english, 2018

10

The Human Transcription Factors

Lambert, Samuel A., Jolma, Arttu, Campitelli, Laura F., Das, Pratyush K., Yin, Yimeng, Albu, Mihai, Chen, Xiaoting, Taipale, Jussi, Hughes, Timothy R., Weirauch, Matthew T.

Journal:

Year:

2018

Language:

english

File:

PDF, 4.62 MB

english, 2018

11

Evaluation of methods for modeling transcription factor sequence specificity

Weirauch, Matthew T, Cote, Atina, Norel, Raquel, Annala, Matti, Zhao, Yue, Riley, Todd R, Saez-Rodriguez, Julio, Cokelaer, Thomas, Vedenko, Anastasia, Talukder, Shaheynoor, Agius, Phaedra, Arvey, Aaro

Journal:

Nature Biotechnology

Year:

2013

Language:

english

File:

PDF, 2.05 MB

english, 2013

12

C2H2 zinc finger proteins greatly expand the human regulatory lexicon

Najafabadi, Hamed S, Mnaimneh, Sanie, Schmitges, Frank W, Garton, Michael, Lam, Kathy N, Yang, Ally, Albu, Mihai, Weirauch, Matthew T, Radovani, Ernest, Kim, Philip M, Greenblatt, Jack, Frey, Brendan

Journal:

Nature Biotechnology

Year:

2015

Language:

english

File:

PDF, 1.90 MB

english, 2015

13

NFE2L2 Interacts with Second Hand Smoke Exposure to Increase the Risk and Severity of Pediatric Asthma

Johansson, Elisabet, Myers, Jocelyn Biagini, Martin, Lisa, He, Hua, Weirauch, Matthew, Chen, Xiaoting, Hershey, Gurjit Khurana

Journal:

Journal of Allergy and Clinical Immunology

Year:

2020

File:

PDF, 103 KB

2020

14

A global analysis of genetic interactions inCaenorhabditis elegans

Alexandra B Byrne, Matthew T Weirauch, Victoria Wong, Martina Koeva, Scott J Dixon, Joshua M Stuart, Peter J Roy

Journal:

Journal of Biology

Year:

2007

Language:

english

File:

PDF, 6.28 MB

english, 2007

15

[WORLD SCIENTIFIC Proceedings of the Pacific Symposium - Kohala Coast, Hawaii, USA (4 – 8 January 2015)] Biocomputing 2015 - META-ANALYSIS OF DIFFERENTIAL GENE CO-EXPRESSION: APPLICATION TO LUPUS

MAKASHIR, SUMIT B., KOTTYAN, LEAH C., WEIRAUCH, MATTHEW T.

Language:

english

File:

PDF, 887 KB

english

16

Transcriptional determinants of tolerogenic and immunogenic states during dendritic cell maturation

Vander Lugt, Bryan, Riddell, Jeremy, Khan, Aly A., Hackney, Jason A., Lesch, Justin, DeVoss, Jason, Weirauch, Matthew T., Singh, Harinder, Mellman, Ira

Journal:

The Journal of Cell Biology

Year:

2017

Language:

english

File:

PDF, 1.85 MB

english, 2017

17

Temporal, spatial, and phenotypical changes of PDGFRα expressing fibroblasts during late lung development

Endale, Mehari, Ahlfeld, Shawn, Bao, Erik, Chen, Xiaoting, Green, Jenna, Bess, Zach, Weirauch, Matthew T., Xu, Yan, Perl, Anne Karina

Journal:

Developmental Biology

Year:

2017

Language:

english

File:

PDF, 2.88 MB

english, 2017

18

The Epstein-Barr virus B-ZIP protein Zta recognizes specific DNA sequences containing 5-methylcytosine and 5-hydroxymethylcytosine

Tillo, Desiree, Ray, Sreejana, Syed, Khund Sayeed, Gaylor, Mary Rose, He, Ximiao, Wang, Jun, Assad, Nima, Durell, Stewart, Porollo, Aleksey, Weirauch, Matthew T., Vinson, Charles

Journal:

Year:

2017

Language:

english

File:

PDF, 4.50 MB

english, 2017

19

Making it big in allergy

Kottyan, Leah C., Weirauch, Matthew T., Rothenberg, Marc E.

Journal:

Journal of Allergy and Clinical Immunology

Year:

2015

Language:

english

File:

PDF, 487 KB

english, 2015

20

A FOXO1-induced oncogenic network defines the AML1-ETO pre-leukemic program

Lin, Shan, Ptasinska, Anetta, Chen, Xiaoting, Shrestha, Mahesh, Assi, Salam A., Chin, Paulynn S., Imperato, Maria R., Aronow, Bruce, Zhang, Jingsong, Weirauch, Matthew T., Bonifer, Constanze, Mulloy,

Journal:

Year:

2017

Language:

english

File:

PDF, 1.40 MB

english, 2017

21

Lupus Risk Variant Increases pSTAT1 Binding and Decreases ETS1 Expression

Lu, Xiaoming, Zoller, Erin E., Weirauch, Matthew T., Wu, Zhiguo, Namjou, Bahram, Williams, Adrienne H., Ziegler, Julie T., Comeau, Mary E., Marion, Miranda C., Glenn, Stuart B., Adler, Adam, Shen, Nan

Journal:

The American Journal of Human Genetics

Year:

2015

Language:

english

File:

PDF, 969 KB

english, 2015

22

Divergence of transcriptional landscape occurs early in B cell activation

Fowler, Trent, Garruss, Alexander S, Ghosh, Amalendu, De, Supriyo, Becker, Kevin G, Wood, William H, Weirauch, Matthew T, Smale, Stephen T, Aronow, Bruce, Sen, Ranjan, Roy, Ananda L

Journal:

Epigenetics & Chromatin

Year:

2015

Language:

english

File:

PDF, 2.69 MB

english, 2015

23

PARP1 activation increases expression of modified tumor suppressors and pathways underlying development of aggressive hepatoblastoma

Valanejad, Leila, Cast, Ashley, Wright, Mary, Bissig, Karl-Dimiter, Karns, Rebekah, Weirauch, Matthew T., Timchenko, Nikolai

Journal:

Communications Biology

Year:

2018

Language:

english

File:

PDF, 2.51 MB

english, 2018

24

Enrichment of genomic pathways based on differential DNA methylation associated with chronic postsurgical pain and anxiety in children – a prospective, pilot study

Chidambaran, Vidya, Zhang, Xue, Geisler, Kristie, Stubbeman, Bobbie L, Chen, Xiaoting, Weirauch, Matthew T., Meller, Jarek, Ji, Hong

Journal:

The Journal of Pain

Year:

2019

Language:

english

File:

PDF, 1.46 MB

english, 2019

25

Similarity regression predicts evolution of transcription factor sequence specificity

Lambert, Samuel A., Yang, Ally W. H., Sasse, Alexander, Cowley, Gwendolyn, Albu, Mihai, Caddick, Mark X., Morris, Quaid D., Weirauch, Matthew T., Hughes, Timothy R.

Journal:

Nature Genetics

Year:

2019

Language:

english

File:

PDF, 4.45 MB

english, 2019

26

79: Genetic variants at AGTR2 locus increase risk of preterm birth

Rossi, Robert M., Runyon, Jillian, Chawla, Mehak, Miller, Daniel, Forney, Carmy, Chen, Xiaoting, Lynch, Arthur, Wang, Li, Zhang, Ge, Weirauch, Matthew, Kottyan, Leah, Muglia, Louis

Journal:

American Journal of Obstetrics and Gynecology

Year:

2020

File:

PDF, 1.30 MB

2020

27

Information-based methods for predicting gene function from systematic gene knock-downs

Matthew T Weirauch, Christopher K Wong, Alexandra B Byrne, Joshua M Stuart

Journal:

BMC Bioinformatics

Year:

2008

Language:

english

File:

PDF, 965 KB

english, 2008

28

KIF3A genetic variation is associated with pediatric asthma in the presence of eczema independent of allergic rhinitis

Johansson, Elisabet, Biagini Myers, Jocelyn M., Martin, Lisa J., He, Hua, Pilipenko, Valentina, Mersha, Tesfaye, Weirauch, Matthew, Salomonis, Nathan, Ryan, Patrick, LeMasters, Grace K., Bernstein, Da

Journal:

Journal of Allergy and Clinical Immunology

Year:

2017

Language:

english

File:

PDF, 1.28 MB

english, 2017

29

Paternally Inherited DLK1 Deletion Associated With Familial Central Precocious Puberty

Dauber, Andrew, Cunha-Silva, Marina, Macedo, Delanie B., Brito, Vinicius N., Abreu, Ana Paula, Roberts, Stephanie A., Montenegro, Luciana R., Andrew, Melissa, Kirby, Andrew, Weirauch, Matthew T., Labi

Journal:

Journal of Clinical Endocrinology & Metabolism

Year:

2017

Language:

english

File:

PDF, 720 KB

english, 2017

30

Eosinophilic Esophagitis Risk Variant at 2p23 Dampens IL-13-Induced Calpain-14 Promoter Activity in a STAT6-Dependent Manner

Kottyan, Leah Claire, Miller, Daniel E., Maddox, Avery, Lynch, Arthur, Schroeder, Connor, Lee, Josh, Brusilovsky, Michael, Weirauch, Matthew T., Rothenberg, Marc E.

Journal:

Journal of Allergy and Clinical Immunology

Year:

2017

Language:

english

File:

PDF, 125 KB

english, 2017

31

Screening for Functional Non-coding Genetic Variants Using Electrophoretic Mobility Shift Assay (EMSA) and DNA-affinity Precipitation Assay (DAPA)

Miller, Daniel E., Patel, Zubin H., Lu, Xiaoming, Lynch, Arthur T., Weirauch, Matthew T., Kottyan, Leah C.

Journal:

Journal of Visualized Experiments

Year:

2016

Language:

english

File:

PDF, 568 KB

english, 2016

32

Diesel exhaust and house dust mite allergen lead to common changes in the airway methylome and hydroxymethylome

Zhang, Xue, Chen, Xiaoting, Weirauch, Matthew T, Zhang, Xiang, Burleson, J D, Brandt, Eric B, Ji, Hong, Baccarelli, Andrea

Journal:

Environmental Epigenetics

Year:

2018

Language:

english

File:

PDF, 2.07 MB

english, 2018

33

Regulatory Variants of ATF3, CDH17 and FAM71A are Risk Factors for Diisocyanate Induced Occupational Asthma (DA)

Lummus, Zana L., Kesavalu, Banu, Kaufman, Kenneth, Yao, Jianbo, Weirauch, Matthew T., Kottyan, Leah C., Miller, Daniel, Cartier, André, Cruz, Maria-Jesus, Lemiere, Catherine, Muñoz, Xavier, Quirce, Sa

Journal:

Journal of Allergy and Clinical Immunology

Year:

2018

Language:

english

File:

PDF, 128 KB

english, 2018

34

Global Unsupervised Splicing Analysis of Leukemia Reveals a Persistent Prognostic Signature That Precurses Oncogenesis

Grimes, H., Venkatasubramanian, Meenakshi, Chou, Chih-Hsing, Olsson, Andre, Chen, Xiaoting, Chetal, Kashish, Newkold, Tess, Kulkarni, Aishwarya, Meyers, Kasiani, Weirauch, Matthew, Salomonis, Nathan

Journal:

Experimental Hematology

Year:

2018

Language:

english

File:

PDF, 161 KB

english, 2018

35

DNA methylation Variation Associated with the Severity of Childhood Asthma

Ji, Hong, Zhang, Xue, Myers, Jocelyn Biagini, Chen, Xiaoting, Weirauch, Matthew, Guilbert, Theresa, Hershey, Gurjit Khurana

Journal:

Journal of Allergy and Clinical Immunology

Year:

2020

File:

PDF, 101 KB

2020

36

Dramatic changes in transcription factor binding over evolutionary time

Matthew T Weirauch,Timothy R Hughes

Journal:

Year:

2010

Language:

english

File:

PDF, 303 KB

english, 2010

37

Multiple layers of transcriptional regulation by PLZF in NKT-cell development

Mao, Ai-Ping, Constantinides, Michael G., Mathew, Rebecca, Zuo, Zhixiang, Chen, Xiaoting, Weirauch, Matthew T., Bendelac, Albert

Journal:

Proceedings of the National Academy of Sciences

Year:

2016

Language:

english

File:

PDF, 1.34 MB

english, 2016

38

Similarity regression predicts evolution of transcription factor sequence specificity

Lambert, Samuel A., Yang, Ally W. H., Sasse, Alexander, Cowley, Gwendolyn, Albu, Mihai, Caddick, Mark X., Morris, Quaid D., Weirauch, Matthew T., Hughes, Timothy R.

Journal:

Nature Genetics

Year:

2019

File:

PDF, 4.45 MB

2019

39

Super-enhancer switching drives a burst in gene expression at the mitosis-to-meiosis transition

Maezawa, So, Sakashita, Akihiko, Yukawa, Masashi, Chen, Xiaoting, Takahashi, Kazuki, Alavattam, Kris G., Nakata, Ippo, Weirauch, Matthew T., Barski, Artem, Namekawa, Satoshi H.

Journal:

Nature Structural and Molecular Biology

Year:

2020

File:

PDF, 20.91 MB

2020

40

Mapping and Dynamics of Regulatory DNA and Transcription Factor Networks in A. thaliana

Sullivan, Alessandra M., Arsovski, Andrej A., Lempe, Janne, Bubb, Kerry L., Weirauch, Matthew T., Sabo, Peter J., Sandstrom, Richard, Thurman, Robert E., Neph, Shane, Reynolds, Alex P., Stergachis, An

Journal:

Year:

2014

Language:

english

File:

PDF, 5.89 MB

english, 2014

41

Requirement for Dicer in Maintenance of Monosynaptic Sensory-Motor Circuits in the Spinal Cord

Imai, Fumiyasu, Chen, Xiaoting, Weirauch, Matthew T., Yoshida, Yutaka

Journal:

Year:

2016

Language:

english

File:

PDF, 4.07 MB

english, 2016

42

Dataset on transcriptional profiles and the developmental characteristics of PDGFRα expressing lung fibroblasts

Endale, Mehari, Ahlfeld, Shawn, Bao, Erik, Chen, Xiaoting, Green, Jenna, Bess, Zach, Weirauch, Matthew, Xu, Yan, Perl, Anne Karina

Journal:

Year:

2017

Language:

english

File:

PDF, 952 KB

english, 2017

43

Prostate apoptosis response protein 4 sensitizes human colon cancer cells to chemotherapeutic 5-FU through mediation of an NFκB and microRNA network

Bi-Dar Wang, Christina Leah B Kline, Danielle M Pastor, Thomas L Olson, Bryan Frank, Truong Luu, Arun K Sharma, Gavin Robertson, Matthew T Weirauch, Steven R Patierno, Joshua M Stuart, Rosalyn B Irby,

Journal:

Molecular Cancer

Year:

2010

Language:

english

File:

PDF, 4.01 MB

english, 2010

44

TET1 contributes to allergic airway inflammation and regulates interferon and aryl hydrocarbon receptor signaling pathways in bronchial epithelial cells

Burleson, J. D., Siniard, Dylan, Yadagiri, Veda K., Chen, Xiaoting, Weirauch, Matthew T., Ruff, Brandy P., Brandt, Eric B., Hershey, Gurjit K. Khurana, Ji, Hong

Journal:

Scientific Reports

Year:

2019

Language:

english

File:

PDF, 3.41 MB

english, 2019

45

Massively Parallel Reporter Assays (MPRAs) Identify Allelic Transcriptional Dysregulation in Atopic Dermatitis

Eapen, Amy, Lu, Xiaoming, Forney, Carmy, Parameswaran, Sreeja, Ray, John, Weirauch, Matthew, Kottyan, Leah

Journal:

Journal of Allergy and Clinical Immunology

Year:

2020

File:

PDF, 106 KB

2020

46

Structural basis for recognition of AT-rich DNA by unrelated xenogeneic silencing proteins

Blair R. G. Gordon, Yifei Li, Atina Cote, Matthew T. Weirauch, Pengfei Ding, Timothy R. Hughes, William Wiley Navarre, Bin Xia and Jun Liu

Journal:

Proceedings of the National Academy of Sciences

Year:

2011

Language:

english

File:

PDF, 1.17 MB

english, 2011

47

DNA methylation at the mu-1 opioid receptor gene (OPRM1) promoter predicts preoperative, acute, and chronic postsurgical pain after spine fusion

Chidambaran, Vidya, Zhang, Xue, Martin, Lisa, Ding, Lili, Weirauch, Matthew, Geisler, Kristie, Stubbeman, Bobbie, Sadhasivam, Senthilkumar, Ji, Hong

Journal:

Pharmacogenomics and Personalized Medicine

Year:

2017

Language:

english

File:

PDF, 441 KB

english, 2017

48

Human Virus Transcriptional Regulators

Liu, Xing, Hong, Ted, Parameswaran, Sreeja, Ernst, Kevin, Marazzi, Ivan, Weirauch, Matthew T., Fuxman Bass, Juan I.

Journal:

Year:

2020

File:

PDF, 3.49 MB

2020

49

Comparative trichome morphology in feather-legged assassin bugs (Insecta: Heteroptera: Reduviidae: Holoptilinae)

Christiane Weirauch, Matthew Bulbert, Gerasimos Cassis

Journal:

Zoologischer Anzeiger - A Journal of Comparative Zoology

Year:

2010

Language:

english

File:

PDF, 5.67 MB

english, 2010

50

Conserved expression without conserved regulatory sequence: the more things change, the more they stay the same

Matthew T. Weirauch, Timothy R. Hughes

Journal:

Trends in Genetics

Year:

2010

Language:

english

File:

PDF, 471 KB

english, 2010

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