Search Results - "SCHLAUCH, DANIEL"

RNA-Seq analysis in MeV by Howe, Eleanor A., Sinha, Raktim, Schlauch, Daniel, Quackenbush, John

“…RNA-Seq is an exciting methodology that leverages the power of high-throughput sequencing to measure RNA transcript counts at an unprecedented accuracy…”
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Outcomes of COVID‐19 in hospitalized solid organ transplant recipients compared to a matched cohort of non‐transplant patients at a national healthcare system in the United States by Fisher, Arielle M., Schlauch, Daniel, Mulloy, Matthew, Dao, Ann, Reyad, Ashraf I., Correll, Mick, Fromell, Gregg J., Pittman, James, Bingaman, Adam W., Sankarapandian, Balamurugan, Allam, Sridhar R.

“…Data describing outcomes of solid organ transplant (SOT) recipients with coronavirus disease 2019 (COVID‐19) are variable, and the association between SOT…”
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The Network Zoo: a multilingual package for the inference and analysis of gene regulatory networks by Ben Guebila, Marouen, Wang, Tian, Lopes-Ramos, Camila M, Fanfani, Viola, Weighill, Des, Burkholz, Rebekka, Schlauch, Daniel, Paulson, Joseph N, Altenbuchinger, Michael, Shutta, Katherine H, Sonawane, Abhijeet R, Lim, James, Calderer, Genis, van IJzendoorn, David G P, Morgan, Daniel, Marin, Alessandro, Chen, Cho-Yi, Song, Qi, Saha, Enakshi, DeMeo, Dawn L, Padi, Megha, Platig, John, Kuijjer, Marieke L, Glass, Kimberly, Quackenbush, John

“…Inference and analysis of gene regulatory networks (GRNs) require software that integrates multi-omic data from various sources. The Network Zoo (netZoo;…”
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Extracorporeal Membrane Oxygenation for Acute Respiratory Failure Due to COVID-19: A Multicenter Matched Cohort Study by Whitmore, Sage P, Cyr, Katherine J, Cohen, Elliott S, Schlauch, Daniel J, Gidwani, Hitesh V, Sterling, Rachel K, Castiglia, Robert P, Stell, Owen T, Jarzembowski, Jamie L, Kunavarapu, Chandra R, McRae, 3rd, Andrew T, Dellavolpe, Jeffrey D

“…Mechanical ventilation for respiratory failure due to COVID-19 is associated with significant morbidity and mortality. Veno-venous extracorporeal membrane…”
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Determinants of Surgical Outcomes in Tricuspid Valve Endocarditis by Steinhoff, Jeffrey P., Kolli, Sahiti, Mattlin, Meredith P., Schlauch, Daniel, Braisted, Andrew T., Reddy, Sreenath V., Klodell, Charles, Dewey, Todd, Fontana, Gregory P.

“…Current treatment guidelines for infective endocarditis focus on left-sided infective endocarditis. Because right-sided infective endocarditis has different…”
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Higher-order correction of persistent batch effects in correlation networks by Micheletti, Soel, Schlauch, Daniel, Quackenbush, John, Ben Guebila, Marouen

“…Systems biology analyses often use correlations in gene expression profiles to infer co-expression networks that are then used as input for gene regulatory…”
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Identification of genetic outliers due to sub-structure and cryptic relationships by Schlauch, Daniel, Fier, Heide, Lange, Christoph

“…In order to minimize the effects of genetic confounding on the analysis of high-throughput genetic association studies, e.g. (whole-genome) sequencing (WGS)…”
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911: ECMO FOR ACUTE RESPIRATORY FAILURE DUE TO COVID-19: A MULTICENTER RETROSPECTIVE STUDY by Sousse, Linda, Whitmore, Sage, Cyr, Katherine, Cohen, Elliott, Schlauch, Daniel, Gidwani, Hitesh, Sterling, Rachel, Kunavarapu, Chandra, DellaVolpe, Jeffrey

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EXTRACORPOREAL MEMBRANE OXYGENATION (ECMO) VS CONVENTIONAL MECHANICAL VENTILATION FOR SEVERE ACUTE RESPIRATORY FAILURE DUE TO COVID-19: A MULTICENTER MATCHED COHORT STUDY by WHITMORE, SAGE, CYR, KATHERINE, S COHEN, ELLIOTT, SCHLAUCH, DANIEL, L JARZEMBOWSKI, JAMIE, KUNAVARAPU, CHANDRA, STELL, OWEN, MCRAE, THOMAS, DELLAVOLPE, JEFFREY

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COVID‐19 in SOT versus non‐SOT by Allam, Sridhar R., Fisher, Arielle M., Schlauch, Daniel

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Early-onset colorectal cancer: Real-world genomic data from the community-based Sarah Cannon Cancer Centers Network by Fontana, Elisa, Jones, Carissa, Misch, Amanda, Schlauch, Daniel, Spigel, David R., Arkenau, Hendrik-Tobias, McKenzie, Andrew Jacob

“…Abstract only 198 Background: Rising incidence in early-onset colorectal cancer (EO-CRC) is a recent phenomenon observed especially in the US. We exploited…”
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De novo EGFR T790M mutations in a community-based oncology practice by Holt, Marilyn Elaine, Misch, Amanda, Rao, Smita K., Sturgill, Emma, Jones, Carissa, Schlauch, Daniel, Luckett, Daniel, Spigel, David R., Jones, Suzanne Fields, McKenzie, Andrew Jacob

“…3146 Background: With the 2018 FDA approval of osimertinib for first-line treatment in EGFR-mutated lung cancers, the prevalence of acquired EGFR T790M…”
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Estimating gene regulatory networks with pandaR by Schlauch, Daniel, Paulson, Joseph N, Young, Albert, Glass, Kimberly, Quackenbush, John

“…johnq@jimmy.harvard.edu or dschlauch@fas.harvard.edu. PandaR is provided as a Bioconductor R Package and is available at bioconductor.org/packages/pandaR…”
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Convalescent plasma associates with reduced mortality and improved clinical trajectory in patients hospitalized with COVID-19 by Arnold Egloff, Shanna A, Junglen, Angela, Restivo, Joseph Sa, Wongskhaluang, Marjorie, Martin, Casey, Doshi, Pratik, Schlauch, Daniel, Fromell, Gregg, Sears, Lindsay E, Correll, Mick, Burris, 3rd, Howard A, LeMaistre, Charles F

“…BACKGROUNDEvidence supporting convalescent plasma (CP), one of the first investigational treatments for coronavirus disease 2019 (COVID-19), has been…”
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Treatment patterns, resource utilization and clinical outcomes in patients with higher risk myelodysplastic syndromes (MDS) in United States community practices by Egloff, Shanna Arnold, Cao, Xiting, Lachs, Rebecca, Martin, Casey, Mattlin, Meredith, Fennell, Emma, Rayburn, Dillan, Schlauch, Daniel, Kurbegov, Dax, Ide, Susan, Battiwalla, Minoo

“…Management of higher-risk myelodysplastic syndromes (HR-MDS) is challenging in the real world. We studied 200 patients with HR-MDS within a large US community…”
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Adoption and utilization of NGS-based molecular profiling in community-based oncology practices: Insights from Sarah Cannon by McKenzie, Andrew, Schlauch, Daniel, Sharma, Yasha, Spigel, David R., Burris, Howard A., Jones, Suzanne Fields, Dilks, Holli Hutcheson

“…Abstract only e18064 Background: As the price of NGS-based sequencing technologies falls, adoption of those technologies is predicted to increase. To date, a…”
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An online notebook resource for reproducible inference, analysis and publication of gene regulatory networks by Ben Guebila, Marouen, Weighill, Deborah, Lopes-Ramos, Camila M., Burkholz, Rebekka, Pop, Romana T., Palepu, Kalyan, Shapoval, Mia, Fagny, Maud, Schlauch, Daniel, Glass, Kimberly, Altenbuchinger, Michael, Kuijjer, Marieke L., Platig, John, Quackenbush, John

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Estimating drivers of cell state transitions using gene regulatory network models by Schlauch, Daniel, Glass, Kimberly, Hersh, Craig P, Silverman, Edwin K, Quackenbush, John

“…Specific cellular states are often associated with distinct gene expression patterns. These states are plastic, changing during development, or in the…”
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Mutational analysis of >14,000 solid tumor NGS tests from community oncology practices: The Sarah Cannon molecular landscape by McKenzie, Andrew, Schlauch, Daniel, Sharma, Yasha, Picard, Shaita, Higgins, Connor, Misch, Amanda, Xiao, Yonghong, Lachs, Rebecca, OConnor, Niall, Correll, Mick, Spigel, David R., Burris, Howard A., Jones, Suzanne Fields, Dilks, Holli Hutcheson

“…Abstract only e18065 Background: Utilization of NGS-based testing for patients in community oncology settings continues to grow. A comprehensive analysis of…”
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Next-generation sequencing (NGS) results among hormone receptor-positive (HR+), human epidermal growth factor receptor 2-negative (HER2-) metastatic breast cancer (MBC) patients treated with a CDK4 & 6 inhibitor: A retrospective observational study based on real-world data by Hamilton, Erika Paige, Jansen, Valerie Malyvanh, Nash Smyth, Emily Nash, Schlauch, Daniel, Cuyun Carter, Gebra, Willard, Melinda D, Misch, Amanda, Bowman, Lee, Zhu, Yajun Emily, McNeely, Samuel, Lin, Aimee Bence, Picard, Shaita, Blackwell, Kimberly, Burris, Howard A., Spigel, David R.

“…Abstract only 1042 Background: Few real-world studies have characterized the frequency of genomic alterations of MBC tumors. Data characterizing alterations…”
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