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1

Chemical Space Mimicry for Drug Discovery

Yuan, William, Jiang, Dadi, Nambiar, Dhanya K., Liew, Lydia P., Hay, Michael P., Bloomstein, Joshua, Lu, Peter, Turner, Brandon, Le, Quynh-Thu, Tibshirani, Robert, Khatri, Purvesh, Moloney, Mark G., K

Journal:

Journal of Chemical Information and Modeling

Year:

2017

Language:

english

File:

PDF, 3.51 MB

english, 2017

2

Septic Cardiomyopathy

Sweeney, Timothy E., Khatri, Purvesh

Journal:

Critical Care Medicine

Year:

2017

Language:

english

File:

PDF, 62 KB

english, 2017

3

Multicohort Analysis of Whole-Blood Gene Expression Data Does Not Form a Robust Diagnostic for Acute Respiratory Distress Syndrome

Sweeney, Timothy E., Thomas, Neal J., Howrylak, Judie A., Wong, Hector R., Rogers, Angela J., Khatri, Purvesh

Journal:

Critical Care Medicine

Year:

2018

Language:

english

File:

PDF, 789 KB

english, 2018

4

Early life immunity in the era of systems biology: understanding development and disease

Schaffert, Steven, Khatri, Purvesh

Journal:

Genome Medicine

Year:

2018

Language:

english

File:

PDF, 276 KB

english, 2018

5

Computational and Systems Immunology: A Student’s Perspective

Good, Zinaida, Glanville, Jacob, Gee, Marvin H., Davis, Mark M., Khatri, Purvesh

Journal:

Trends in Immunology

Year:

2019

File:

PDF, 383 KB

2019

6

Response to: âSuccessful treatment of plasma exchange for refractory systemic juvenile idiopathic arthritis complicated with macrophage activation syndrome and severe lung diseaseâ by Sato et al

Saper, Vivian E, Chen, Guangbo, Guillerman, R Paul, Khatri, Purvesh, Cron, Randy Q, Mellins, Elizabeth D

Journal:

Annals of the Rheumatic Diseases

Year:

2020

File:

PDF, 175 KB

2020

7

A microarray analysis of the effects of moderate hypothermia and rewarming on gene expression by human hepatocytes (HepG2)

Larry A. Sonna, Matthew M. Kuhlmeier, Purvesh Khatri, Dechang Chen, Craig M. Lilly

Journal:

Cell Stress and Chaperones

Year:

2010

Language:

english

File:

PDF, 615 KB

english, 2010

8

Cell type–specific gene expression differences in complex tissues

Shen-Orr, Shai S, Tibshirani, Robert, Khatri, Purvesh, Bodian, Dale L, Staedtler, Frank, Perry, Nicholas M, Hastie, Trevor, Sarwal, Minnie M, Davis, Mark M, Butte, Atul J

Journal:

Year:

2010

Language:

english

File:

PDF, 659 KB

english, 2010

9

Extracting Cell-type-specific Gene Expression Differences from Complex Tissues

Shai Shen-Orr, Alexander Gaidarski, Robert Tibshirani, Purvesh Khatri, Mark Davis, Atul Butte

Journal:

Clinical Immunology

Year:

2010

Language:

english

File:

PDF, 39 KB

english, 2010

10

Reliability and reproducibility issues in DNA microarray measurements

Sorin Draghici, Purvesh Khatri, Aron C. Eklund, Zoltan Szallasi

Journal:

Trends in Genetics

Year:

2006

Language:

english

File:

PDF, 181 KB

english, 2006

11

Comparison of multiplex meta analysis techniques for understanding the acute rejection of solid organ transplants

Alexander A Morgan, Purvesh Khatri, Richard Hayden Jones, Minnie M Sarwal, Atul J Butte

Journal:

BMC Bioinformatics

Year:

2010

Language:

english

File:

PDF, 471 KB

english, 2010

12

Profiling Gene Expression Using Onto-Express

Purvesh Khatri, Sorin Draghici, G.Charles Ostermeier, Stephen A. Krawetz

Journal:

Year:

2002

Language:

english

File:

PDF, 836 KB

english, 2002

13

Spermatozoal RNA profiles of normal fertile men

G Charles Ostermeier, David J Dix, David Miller, Purvesh Khatri, Stephen A Krawetz

Journal:

Year:

2002

Language:

english

File:

PDF, 1.36 MB

english, 2002

14

Global functional profiling of gene expression

Sorin Drǎghici, Purvesh Khatri, Rui P. Martins, G.Charles Ostermeier, Stephen A. Krawetz

Journal:

Year:

2003

Language:

english

File:

PDF, 504 KB

english, 2003

15

SMYD3 links lysine methylation of MAP3K2 to Ras-driven cancer

Mazur, Pawel K., Reynoird, Nicolas, Khatri, Purvesh, Jansen, Pascal W. T. C., Wilkinson, Alex W., Liu, Shichong, Barbash, Olena, Van Aller, Glenn S., Huddleston, Michael, Dhanak, Dashyant, Tummino, Pe

Journal:

Year:

2014

Language:

english

File:

PDF, 6.40 MB

english, 2014

16

Gene Expression Can Robustly Separate Infectious and Non-Infectious Inflammation

Sweeney, Timothy E., Khatri, Purvesh

Journal:

Journal of the American College of Surgeons

Year:

2014

Language:

english

File:

PDF, 48 KB

english, 2014

17

Biomarkers in solid organ transplantation: establishing personalized transplantation medicine

Silke Roedder,Matthew Vitalone,Purvesh Khatri,Minnie M Sarwal

Journal:

Genome Medicine

Year:

2011

Language:

english

File:

PDF, 484 KB

english, 2011

18

Integrated multi-cohort transcriptional meta-analysis of neurodegenerative diseases

Li, Matthew D, Burns, Terry C, Morgan, Alexander A, Khatri, Purvesh

Journal:

Acta Neuropathologica Communications

Year:

2014

Language:

english

File:

PDF, 1.80 MB

english, 2014

19

[IEEE 2008 IEEE International Joint Conference on Neural Networks (IJCNN 2008 - Hong Kong) - Hong Kong, China (2008.06.1-2008.06.8)] 2008 IEEE International Joint Conference on Neural Networks (IEEE World Congress on Computational Intelligence) - Identifying uncertainty regions in Support Vector Machines using geometric margin and convex hulls

Voichita, Calin, Khatri, Purvesh, Draghici, Sorin

Year:

2008

Language:

english

File:

PDF, 187 KB

english, 2008

20

The center for expanded data annotation and retrieval

Musen, Mark A., Bean, Carol A., Cheung, Kei-Hoi, Dumontier, Michel, Durante, Kim A., Gevaert, Olivier, Gonzalez-Beltran, Alejandra, Khatri, Purvesh, Kleinstein, Steven H., O’Connor, Martin J., Pouliot

Journal:

Journal of the American Medical Informatics Association

Year:

2015

Language:

english

File:

PDF, 1.25 MB

english, 2015

21

Ten Years of Pathway Analysis: Current Approaches and Outstanding Challenges

Khatri, Purvesh, Sirota, Marina, Butte, Atul J., Ouzounis, Christos A.

Journal:

PLoS Computational Biology

Year:

2012

Language:

english

File:

PDF, 644 KB

english, 2012

22

Progressive histological damage in renal allografts is associated with expression of innate and adaptive immunity genes

Naesens, Maarten, Khatri, Purvesh, Li, Li, Sigdel, Tara K, Vitalone, Matthew J, Chen, Rong, Butte, Atul J, Salvatierra, Oscar, Sarwal, Minnie M

Journal:

Kidney International

Year:

2011

Language:

english

File:

PDF, 386 KB

english, 2011

23

Integrated, Multi-cohort Analysis Identifies Conserved Transcriptional Signatures across Multiple Respiratory Viruses

Andres-Terre, Marta, McGuire, Helen M., Pouliot, Yannick, Bongen, Erika, Sweeney, Timothy E., Tato, Cristina M., Khatri, Purvesh

Journal:

Year:

2015

Language:

english

File:

PDF, 3.28 MB

english, 2015

24

Abstract 172

Januszyk, Michael, Jahchan, Nadine, Khatri, Purvesh, Rennert, Robbert C., Sorkin, Michael, Sage, Julien, Longaker, Michael T., Butte, Atul J., Gurtner, Geoffrey C.

Journal:

Plastic & Reconstructive Surgery

Year:

2015

Language:

english

File:

PDF, 255 KB

english, 2015

25

Comprehensive Validation of the FAIM3 : PLAC8 Ratio in Time-matched Public Gene Expression Data

Sweeney, Timothy E., Khatri, Purvesh

Journal:

American Journal of Respiratory and Critical Care Medicine

Year:

2015

Language:

english

File:

PDF, 501 KB

english, 2015

26

Using gene arrays in diagnosis of rejection

Khatri, Purvesh, Sarwal, Minnie M

Journal:

Current Opinion in Organ Transplantation

Year:

2009

Language:

english

File:

PDF, 103 KB

english, 2009

27

1002

Sweeney, Timothy, Shidham, Aaditya, Wong, Hector, Khatri, Purvesh

Journal:

Critical Care Medicine

Year:

2014

Language:

english

File:

PDF, 48 KB

english, 2014

28

997

Sweeney, Timothy, Wong, Hector, Andrews, Jason, Spain, David, Khatri, Purvesh

Journal:

Critical Care Medicine

Year:

2015

Language:

english

File:

PDF, 53 KB

english, 2015

29

A microarray analysis of the effects of moderate hypothermia and rewarming on gene expression by human hepatocytes (HepG2)

Larry A. Sonna, Matthew M. Kuhlmeier, Purvesh Khatri, Dechang Chen and Craig M. Lilly

Journal:

Cell Stress and Chaperones

Year:

2010

Language:

english

File:

PDF, 2.94 MB

english, 2010

30

Complement pathway amplifies caspase-11–dependent cell death and endotoxin-induced sepsis severity

Napier, Brooke A., Brubaker, Sky W., Sweeney, Timothy E., Monette, Patrick, Rothmeier, Greggory H., Gertsvolf, Nina A., Puschnik, Andreas, Carette, Jan E., Khatri, Purvesh, Monack, Denise M.

Journal:

Journal of Experimental Medicine

Year:

2016

Language:

english

File:

PDF, 2.28 MB

english, 2016

31

Blood transcriptional signatures for tuberculosis diagnosis: a glass half-empty perspective – Authors' reply

Sweeney, Timothy E, Khatri, Purvesh

Journal:

The Lancet Respiratory Medicine

Year:

2016

Language:

english

File:

PDF, 162 KB

english, 2016

32

NIH Public Access

Mazur, Pawel K, Reynoird, Nicolas, Khatri, Purvesh, Jansen, Pascal W T C, Liu, Shichong, Barbash, Olena, Aller, Glenn S Van, Huddleston, Michael, Dhanak, Dashyant, Tummino, Peter J, Kruger, Ryan G, Ga

Year:

2014

Language:

english

File:

PDF, 1.40 MB

english, 2014

33

Hospital-acquired Pneumonia: A Host of Factors

Sweeney, Timothy E., Khatri, Purvesh

Journal:

American Journal of Respiratory and Critical Care Medicine

Year:

2016

Language:

english

File:

PDF, 441 KB

english, 2016

34

[WORLD SCIENTIFIC Proceedings of the Pacific Symposium - Kohala Coast, Hawaii, USA (4 – 8 January 2017)] Biocomputing 2017 - META-ANALYSIS OF CONTINUOUS PHENOTYPES IDENTIFIES A GENE SIGNATURE THAT CORRELATES WITH COPD DISEASE STATUS

SCOTT, MADELEINE, VALLANIA, FRANCESCO, KHATRI, PURVESH

Language:

english

File:

PDF, 4.28 MB

english

35

Gene Expression Analysis to Assess the Relevance of Rodent Models to Human Lung Injury

Sweeney, Timothy E, Lofgren, Shane, Khatri, Purvesh, Rogers, Angela J

Journal:

American Journal of Respiratory Cell and Molecular Biology

Year:

2017

Language:

english

File:

PDF, 1.13 MB

english, 2017

36

A B-Cell Gene Signature Correlates With the Extent of Gluten-Induced Intestinal Injury in Celiac Disease

Garber, Mitchell E., Saldanha, Alok, Parker, Joel S., Jones, Wendell D., Kaukinen, Katri, Laurila, Kaija, Lähdeaho, Marja-Leena, Khatri, Purvesh, Khosla, Chaitan, Adelman, Daniel C., Mäki, Markku

Journal:

CMGH Cellular and Molecular Gastroenterology and Hepatology

Year:

2017

Language:

english

File:

PDF, 2.23 MB

english, 2017

37

The authors reply

Sweeney, Timothy E., Khatri, Purvesh

Journal:

Critical Care Medicine

Year:

2017

Language:

english

File:

PDF, 81 KB

english, 2017

38

Benchmarking Sepsis Gene Expression Diagnostics Using Public Data*

Sweeney, Timothy E., Khatri, Purvesh

Journal:

Critical Care Medicine

Year:

2017

Language:

english

File:

PDF, 732 KB

english, 2017

39

Validation of the Sepsis MetaScore for Diagnosis of Neonatal Sepsis

Sweeney, Timothy E., Wynn, James L., Cernada, María, Serna, Eva, Wong, Hector R., Baker, Henry V., Vento, Máximo, Khatri, Purvesh

Journal:

Journal of the Pediatric Infectious Diseases Society

Year:

2017

Language:

english

File:

PDF, 412 KB

english, 2017

40

Generalizable Biomarkers in Critical Care

Sweeney, Timothy E., Khatri, Purvesh

Journal:

Critical Care Medicine

Year:

2017

Language:

english

File:

PDF, 230 KB

english, 2017

41

The authors reply

Sweeney, Timothy E., Khatri, Purvesh

Journal:

Critical Care Medicine

Year:

2017

Language:

english

File:

PDF, 45 KB

english, 2017

42

Pediatric Sepsis Endotypes Among Adults With Sepsis

Wong, Hector R., Sweeney, Timothy E., Hart, Kimberly W., Khatri, Purvesh, Lindsell, Christopher J.

Journal:

Critical Care Medicine

Year:

2017

Language:

english

File:

PDF, 126 KB

english, 2017

43

Gene annotation bias impedes biomedical research

Haynes, Winston A., Tomczak, Aurelie, Khatri, Purvesh

Journal:

Scientific Reports

Year:

2018

Language:

english

File:

PDF, 2.04 MB

english, 2018

44

A Human Genome-wide RNAi Screen Reveals Diverse Modulators that Mediate IRE1α-XBP1 Activation

Yang, Zhifen, Zhang, Jing, Jiang, Dadi, Khatri, Purvesh, Solow-Cordero, David E., Toesca, Diego A.S., Koumenis, Constantinos, Denko, Nicholas C., Giaccia, Amato J., Le, Quynh-Thu, Koong, Albert C.

Journal:

Molecular Cancer Research

Year:

2018

Language:

english

File:

PDF, 15.86 MB

english, 2018

45

[IEEE 2017 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) - Kansas City, MO (2017.11.13-2017.11.16)] 2017 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) - Complementing single-cell RNA-seq using bulk transcriptional profiles

Haynes, Winston A., Vallania, Francesco, Khatri, Purvesh

Year:

2017

Language:

english

File:

PDF, 316 KB

english, 2017

46

Future Research Directions in Pneumonia: NHLBI Working Group Report

Dela Cruz, Charles S, Wunderink, Richard G, Christiani, David C, Cormier, Stephania A, Crothers, Kristina, Doerschuk, Claire M., Evans, Scott E, Goldstein, Daniel R., Khatri, Purvesh, Kobzik, Lester,

Journal:

American Journal of Respiratory and Critical Care Medicine

Year:

2018

Language:

english

File:

PDF, 620 KB

english, 2018

47

Single-Cell Chromatin Modification Profiling Reveals Increased Epigenetic Variations with Aging

Cheung, Peggie, Vallania, Francesco, Warsinske, Hayley C., Donato, Michele, Schaffert, Steven, Chang, Sarah E., Dvorak, Mai, Dekker, Cornelia L., Davis, Mark M., Utz, Paul J., Khatri, Purvesh, Kuo, Al

Journal:

Year:

2018

Language:

english

File:

PDF, 7.08 MB

english, 2018

48

Unique transcriptomic response to sepsis is observed among patients of different age groups

Raymond, Steven L., López, María Cecilia, Baker, Henry V., Larson, Shawn D., Efron, Philip A., Sweeney, Timothy E., Khatri, Purvesh, Moldawer, Lyle L., Wynn, James L., Dileepan, Kottarappat N.

Journal:

Year:

2017

Language:

english

File:

PDF, 3.89 MB

english, 2017

49

Single-cell epigenetics – Chromatin modification atlas unveiled by mass cytometry

Cheung, Peggie, Vallania, Francesco, Dvorak, Mai, Chang, Sarah E., Schaffert, Steven, Donato, Michele, Rao, Aditya, Mao, Rong, Utz, Paul J., Khatri, Purvesh, Kuo, Alex J.

Journal:

Clinical Immunology

Year:

2018

Language:

english

File:

PDF, 5.24 MB

english, 2018

50

KLRD1-expressing natural killer cells predict influenza susceptibility

Bongen, Erika, Vallania, Francesco, Utz, Paul J., Khatri, Purvesh

Journal:

Genome Medicine

Year:

2018

Language:

english

File:

PDF, 1.28 MB

english, 2018

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