Search Results - "Kahsay, Robel"

The human O-GlcNAcome database and meta-analysis by Wulff-Fuentes, Eugenia, Berendt, Rex R., Massman, Logan, Danner, Laura, Malard, Florian, Vora, Jeet, Kahsay, Robel, Olivier-Van Stichelen, Stephanie

“…Over the past 35 years, ~1700 articles have characterized protein O -GlcNAcylation. Found in almost all living organisms, this post-translational modification…”
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Identification of key differentially expressed MicroRNAs in cancer patients through pan-cancer analysis by Hu, Yu, Dingerdissen, Hayley, Gupta, Samir, Kahsay, Robel, Shanker, Vijay, Wan, Quan, Yan, Cheng, Mazumder, Raja

“…microRNAs (miRNAs) functioning in gene silencing have been associated with cancer progression. However, common abnormal miRNA expression patterns and their…”
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Overexpression of RING Domain E3 Ligase ZmXerico1 Confers Drought Tolerance through Regulation of ABA Homeostasis by Brugière, Norbert, Zhang, Wenjing, Xu, Qingzhang, Scolaro, Eric J., Lu, Cheng, Kahsay, Robel Y., Kise, Rie, Trecker, Libby, Williams, Robert W., Hakimi, Salim, Niu, Xiping, Lafitte, Renee, Habben, Jeffrey E.

“…Drought stress is one of the main environmental problems encountered by crop growers. Reduction in arable land area and reduced water availability make it…”
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Investigation of somatic single nucleotide variations in human endogenous retrovirus elements and their potential association with cancer by Chang, Ting-Chia, Goud, Santosh, Torcivia-Rodriguez, John, Hu, Yu, Pan, Qing, Kahsay, Robel, Blomberg, Jonas, Mazumder, Raja

“…Human endogenous retroviruses (HERVs) have been investigated for potential links with human cancer. However, the distribution of somatic nucleotide variations…”
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An improved hidden Markov model for transmembrane protein detection and topology prediction and its applications to complete genomes by Kahsay, Robel Y., Gao, Guang, Liao, Li

“…Motivation: Knowledge of the transmembrane helical topology can help identify binding sites and infer functions for membrane proteins. However, because…”
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Structure-guided rule-based annotation of protein functional sites in UniProt knowledgebase by Vasudevan, Sona, Vinayaka, C R, Natale, Darren A, Huang, Hongzhan, Kahsay, Robel Y, Wu, Cathy H

“…The rapid growth of protein sequence databases has necessitated the development of methods to computationally derive annotation for uncharacterized entries…”
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Quasi-consensus-based comparison of profile hidden Markov models for protein sequences by Kahsay, Robel Y., Wang, Guoli, Gao, Guang, Liao, Li, Dunbrack, Roland

“…A simple approach for the sensitive detection of distant relationships among protein families and for sequence–structure alignment via comparison of hidden…”
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Enhanced Interface for Retrieving Glycan and Glycosylation Data from GlyGen by Tiemeyer, Michael, Kulkarni, Sujeet, Kahsay, Robel, Ranzinger, Rene, Mazumder, Raja

“…Advancing our understanding of the roles that glycosylation plays in development and disease is frequently hindered by the diversity of the data that must be…”
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BioMuta and BioXpress: mutation and expression knowledgebases for cancer biomarker discovery by Dingerdissen, Hayley M, Torcivia-Rodriguez, John, Hu, Yu, Chang, Ting-Chia, Mazumder, Raja, Kahsay, Robel

“…Abstract Single-nucleotide variation and gene expression of disease samples represent important resources for biomarker discovery. Many databases have been…”
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GlyGen: Computational and Informatics Resources for Glycoscience by York, William S, Mazumder, Raja, Ranzinger, Rene, Edwards, Nathan, Kahsay, Robel, Aoki-Kinoshita, Kiyoko F, Campbell, Matthew P, Cummings, Richard D, Feizi, Ten, Martin, Maria, Natale, Darren A, Packer, Nicolle H, Woods, Robert J, Agarwal, Gaurav, Arpinar, Sena, Bhat, Sanath, Blake, Judith, Castro, Leyla Jael Garcia, Fochtman, Brian, Gildersleeve, Jeffrey, Goldman, Radoslav, Holmes, Xavier, Jain, Vinamra, Kulkarni, Sujeet, Mahadik, Rupali, Mehta, Akul, Mousavi, Reza, Nakarakommula, Sandeep, Navelkar, Rahi, Pattabiraman, Nagarajan, Pierce, Michael J, Ross, Karen, Vasudev, Preethi, Vora, Jeet, Williamson, Tatiana, Zhang, Wenjin

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The Glycan Structure Dictionary—a dictionary describing commonly used glycan structure terms by Vora, Jeet, Navelkar, Rahi, Vijay-Shanker, K, Edwards, Nathan, Martinez, Karina, Ding, Xiying, Wang, Tianyi, Su, Peng, Ross, Karen, Lisacek, Frederique, Hayes, Catherine, Kahsay, Robel, Ranzinger, Rene, Tiemeyer, Michael, Mazumder, Raja

“…Abstract Recent technological advances in glycobiology have resulted in a large influx of data and the publication of many papers describing discoveries in…”
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COVID-19 biomarkers and their overlap with comorbidities in a disease biomarker data model by Gogate, Nikhita, Lyman, Daniel, Bell, Amanda, Cauley, Edmund, Crandall, Keith A, Joseph, Ashia, Kahsay, Robel, Natale, Darren A, Schriml, Lynn M, Sen, Sabyasach, Mazumder, Raja

“…In response to the COVID-19 outbreak, scientists and medical researchers are capturing a wide range of host responses, symptoms and lingering postrecovery…”
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Modeling and integration of N-glycan biomarkers in a comprehensive biomarker data model by Lyman, Daniel F, Bell, Amanda, Black, Alyson, Dingerdissen, Hayley, Cauley, Edmund, Gogate, Nikhita, Liu, David, Joseph, Ashia, Kahsay, Robel, Crichton, Daniel J, Mehta, Anand, Mazumder, Raja

“…Abstract Molecular biomarkers measure discrete components of biological processes that can contribute to disorders when impaired. Great interest exists in…”
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Enhancing the interoperability of glycan data flow between ChEBI, PubChem and GlyGen by Navelkar, Rahi, Owen, Gareth, Mutherkrishnan, Venkatesh, Thiessen, Paul, Cheng, Tiejun, Bolton, Evan, Edwards, Nathan, Tiemeyer, Michael, Campbell, Matthew P, Martin, Maria, Vora, Jeet, Kahsay, Robel, Mazumder, Raja

“…Abstract Glycans play a vital role in health, disease, bioenergy, biomaterials and bio-therapeutics. As a result, there is keen interest to identify and…”
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CASA: a server for the critical assessment of protein sequence alignment accuracy by Kahsay, Robel Y., Wang, Guoli, Dongre, Nataraj, Gao, Guang, Dunbrack, Jr, Roland L.

“…A public server for evaluating the accuracy of protein sequence alignment methods is presented. CASA is an implementation of the alignment accuracy benchmark…”
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GlyGen data model and processing workflow by Kahsay, Robel, Vora, Jeet, Navelkar, Rahi, Mousavi, Reza, Fochtman, Brian C, Holmes, Xavier, Pattabiraman, Nagarajan, Ranzinger, Rene, Mahadik, Rupali, Williamson, Tatiana, Kulkarni, Sujeet, Agarwal, Gaurav, Martin, Maria, Vasudev, Preethi, Garcia, Leyla, Edwards, Nathan, Zhang, Wenjin, Natale, Darren A, Ross, Karen, Aoki-Kinoshita, Kiyoko F, Campbell, Matthew P, York, William S, Mazumder, Raja

“…Abstract Summary Glycoinformatics plays a major role in glycobiology research, and the development of a comprehensive glycoinformatics knowledgebase is…”
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Abstract 2463: Prototype open-access biomarker knowledgebase for genetic tests for breast cancer by Baker, Dara, Abrams, Natalie Fedorova, Bell, Amanda, Colbert, Maureen, Dingerdissen, Hayley, Holmes, Evan, Gupta, Samir, Kahsay, Robel, Kincaid, Heather, Liu, David, Mahmood, A. S. M. Ashique, Bastian, Frédéric B., Robinson-Rechavi, Marc, Schwartz, Elena, Vijay-Shanker, K., Crichton, Daniel, Mazumder, Raja

“…Abstract Cancer biomarkers have become integral components of many clinical protocols and research studies. Nonetheless there still is an urgent need for more…”
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Enabling precision medicine via standard communication of HTS provenance, analysis, and results by Alterovitz, Gil, Dean, Dennis, Goble, Carole, Crusoe, Michael R, Soiland-Reyes, Stian, Bell, Amanda, Hayes, Anais, Suresh, Anita, Purkayastha, Anjan, King, Charles H, Taylor, Dan, Johanson, Elaine, Thompson, Elaine E, Donaldson, Eric, Morizono, Hiroki, Tsang, Hsinyi, Vora, Jeet K, Goecks, Jeremy, Yao, Jianchao, Almeida, Jonas S, Keeney, Jonathon, Addepalli, KanakaDurga, Krampis, Konstantinos, Smith, Krista M, Guo, Lydia, Walderhaug, Mark, Schito, Marco, Ezewudo, Matthew, Guimera, Nuria, Walsh, Paul, Kahsay, Robel, Gottipati, Srikanth, Rodwell, Timothy C, Bloom, Toby, Lai, Yuching, Simonyan, Vahan, Mazumder, Raja

“…A personalized approach based on a patient's or pathogen's unique genomic sequence is the foundation of precision medicine. Genomic findings must be robust and…”
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Bioinformatics tools developed to support BioCompute Objects by Patel, Janisha A, Dean, Dennis A, King, Charles Hadley, Xiao, Nan, Koc, Soner, Minina, Ekaterina, Golikov, Anton, Brooks, Phillip, Kahsay, Robel, Navelkar, Rahi, Ray, Manisha, Roberson, Dave, Armstrong, Chris, Mazumder, Raja, Keeney, Jonathon

“…Developments in high-throughput sequencing (HTS) result in an exponential increase in the amount of data generated by sequencing experiments, an increase in…”
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OncoMX: A Knowledgebase for Exploring Cancer Biomarkers in the Context of Related Cancer and Healthy Data by Dingerdissen, Hayley M, Bastian, Frederic, Vijay-Shanker, K, Robinson-Rechavi, Marc, Bell, Amanda, Gogate, Nikhita, Gupta, Samir, Holmes, Evan, Kahsay, Robel, Keeney, Jonathon, Kincaid, Heather, King, Charles Hadley, Liu, David, Crichton, Daniel J, Mazumder, Raja

“…The purpose of OncoMX knowledgebase development was to integrate cancer biomarker and relevant data types into a meta-portal, enabling the research of cancer…”
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