Search Results - "Balaji, Advait"

Current progress and open challenges for applying deep learning across the biosciences by Sapoval, Nicolae, Aghazadeh, Amirali, Nute, Michael G., Antunes, Dinler A., Balaji, Advait, Baraniuk, Richard, Barberan, C. J., Dannenfelser, Ruth, Dun, Chen, Edrisi, Mohammadamin, Elworth, R. A. Leo, Kille, Bryce, Kyrillidis, Anastasios, Nakhleh, Luay, Wolfe, Cameron R., Yan, Zhi, Yao, Vicky, Treangen, Todd J.

“…Deep Learning (DL) has recently enabled unprecedented advances in one of the grand challenges in computational biology: the half-century-old problem of protein…”
Get full text

Multiple genome alignment in the telomere-to-telomere assembly era by Kille, Bryce, Balaji, Advait, Sedlazeck, Fritz J., Nute, Michael, Treangen, Todd J.

“…Abstract With the arrival of telomere-to-telomere (T2T) assemblies of the human genome comes the computational challenge of efficiently and accurately…”
Get full text

Type II diabetes mellitus and obesity: Common links, existing therapeutics and future developments by Banerjee, Subhadeep, Talukdar, Indrani, Banerjee, Arnab, Gupta, Arnav, Balaji, Advait, Aduri, Raviprasad

“…Type II diabetes mellitus (T2DM) and obesity are two common pathophysiological conditions of metabolic syndrome (MetS), a collection of similar metabolic…”
Get full text

To Petabytes and beyond: recent advances in probabilistic and signal processing algorithms and their application to metagenomics by Elworth, R A Leo, Wang, Qi, Kota, Pavan K, Barberan, C J, Coleman, Benjamin, Balaji, Advait, Gupta, Gaurav, Baraniuk, Richard G, Shrivastava, Anshumali, Treangen, Todd J

“…As computational biologists continue to be inundated by ever increasing amounts of metagenomic data, the need for data analysis approaches that keep up with…”
Get full text

SeqScreen: accurate and sensitive functional screening of pathogenic sequences via ensemble learning by Balaji, Advait, Kille, Bryce, Kappell, Anthony D, Godbold, Gene D, Diep, Madeline, Elworth, R A Leo, Qian, Zhiqin, Albin, Dreycey, Nasko, Daniel J, Shah, Nidhi, Pop, Mihai, Segarra, Santiago, Ternus, Krista L, Treangen, Todd J

“…The COVID-19 pandemic has emphasized the importance of accurate detection of known and emerging pathogens. However, robust characterization of pathogenic…”
Get full text

KOMB: K-core based de novo characterization of copy number variation in microbiomes by Balaji, Advait, Sapoval, Nicolae, Seto, Charlie, Leo Elworth, R.A., Fu, Yilei, Nute, Michael G., Savidge, Tor, Segarra, Santiago, Treangen, Todd J.

“…[Display omitted] Characterizing metagenomes via kmer-based, database-dependent taxonomic classification has yielded key insights into underlying microbiome…”
Get full text

Type II diabetes mellitus and obesity: Common links, existing therapeutics and future developments by Banerjee, Subhadeep, Talukdar, Indrani, Banerjee, Arnab, Gupta, Arnav, Balaji, Advait, Aduri, Raviprasad

Get full text

Graph-based self-supervised learning for repeat detection in metagenomic assembly by Azizpour, Ali, Balaji, Advait, Treangen, Todd J, Segarra, Santiago

“…Repetitive DNA (repeats) poses significant challenges for accurate and efficient genome assembly and sequence alignment. This is particularly true for…”
Get full text

TNF-alpha regulates alternative splicing of genes participating in pathways of crucial metabolic syndromes; a transcriptome wide study by Louis, Jiss Maria, Vaz, Candida, Balaji, Advait, Tanavde, Vivek, Talukdar, Indrani

“…[Display omitted] •Increased production of TNF-α is a major cause for various metabolic syndromes.•A transcriptome wide analysis was performed for cells…”
Get full text

The RNA secondary structural variation in the cyclization elements of the dengue genome and the possible implications in pathogenicity by Mishra, Bibhudutta, Balaji, Advait, Beesetti, Hemalatha, Swaminathan, Sathyamangalam, Aduri, Raviprasad

“…Dengue virus (DENV), the causative agent of dengue fever and severe dengue, exists as four antigenically different serotypes. These serotypes are further…”
Get full text

An international virtual hackathon to build tools for the analysis of structural variants within species ranging from coronaviruses to vertebrates [version 1; peer review: 4 approved with reservations] by Mc Cartney, Ann M, Mahmoud, Medhat, Jochum, Michael, Agustinho, Daniel Paiva, Zorman, Barry, Al Khleifat, Ahmad, Dabbaghie, Fawaz, K Kesharwani, Rupesh, Smolka, Moritz, Dawood, Moez, Albin, Dreycey, Aliyev, Elbay, Almabrazi, Hakeem, Arslan, Ahmed, Balaji, Advait, Behera, Sairam, Billingsley, Kimberley, L Cameron, Daniel, Daw, Joyjit, T. Dawson, Eric, De Coster, Wouter, Du, Haowei, Dunn, Christopher, Esteban, Rocio, Jolly, Angad, Kalra, Divya, Liao, Chunxiao, Liu, Yunxi, Lu, Tsung-Yu, M Havrilla, James, M Khayat, Michael, Marin, Maximillian, Monlong, Jean, Price, Stephen, Rafael Gener, Alejandro, Ren, Jingwen, Sagayaradj, Sagayamary, Sapoval, Nicolae, Sinner, Claude, C. Soto, Daniela, Soylev, Arda, Subramaniyan, Arun, Syed, Najeeb, Tadimeti, Neha, Tater, Pamella, Vats, Pankaj, Vaughn, Justin, Walker, Kimberly, Wang, Gaojianyong, Zeng, Qiandong, Zhang, Shangzhe, Zhao, Tingting, Kille, Bryce, Biederstedt, Evan, Chaisson, Mark, English, Adam, Kronenberg, Zev, J. Treangen, Todd, Hefferon, Timothy, Chin, Chen-Shan, Busby, Ben, J Sedlazeck, Fritz

“…In October 2020, 62 scientists from nine nations worked together remotely in the Second Baylor College of Medicine & DNAnexus hackathon, focusing on different…”
Get full text

GraSSRep: Graph-Based Self-Supervised Learning for Repeat Detection in Metagenomic Assembly by Azizpour, Ali, Balaji, Advait, Treangen, Todd J, Segarra, Santiago

“…Repetitive DNA (repeats) poses significant challenges for accurate and efficient genome assembly and sequence alignment. This is particularly true for…”
Get full text

Methods developed during the first National Center for Biotechnology Information Structural Variation Codeathon at Baylor College of Medicine [version 1; peer review: 1 approved, 1 approved with reservations] by Mahmoud, Medhat, Gener, Alejandro Rafael, Khayat, Michael M, English, Adam C, Balaji, Advait, Zhou, Anbo, Hehn, Andreas, Fungtammasan, Arkarachai, Chrisman, Brianna Sierra, Chin, Chen-Shan, Lin, Chiao-Feng, Lo, Chun-Hsuan, Liao, Chunxiao, Carvalho, Claudia M. B, Diesh, Colin, Symer, David E, Kalra, Divya, Albin, Dreycey, Aliyev, Elbay, Dawson, Eric T, Venner, Eric, Foertter, Fernanda, Bae, Gigon, Du, Haowei, Daw, Joyjit, Wang, Junzhou, Akagi, Keiko, Phan, Lon, Jochum, Michael, Edrisi, Mohammadamin, Shah, Nirav N, Wang, Qi, Fullem, Robert, Zheng, Rong, Kalla, Sara E, Mitra, Shakuntala, Treangen, Todd J, Mahaganapathy, Vaidhyanathan, Malladi, Venkat Sai, Menon, Vipin K, Fu, Yilei, Yin, Yongze, Feng, Yuanqing, Hefferon, Tim, Sedlazeck, Fritz J, Busby, Ben

“…In October 2019, 46 scientists from around the world participated in the first National Center for Biotechnology Information (NCBI) Structural Variation (SV)…”
Get full text

EEG-based classification of bilingual unspoken speech using ANN by Balaji, Advait, Haldar, Aparajita, Patil, Keshav, Ruthvik, T. Sai, Ca, Valliappan, Jartarkar, Mayur, Baths, Veeky

“…The ability to interpret unspoken or imagined speech through electroencephalography (EEG) is of therapeutic interest for people suffering from speech disorders…”
Get full text

SeqScreen: a biocuration platform for robust taxonomic and biological process characterization of nucleic acid sequences of interest by Albin, Dreycey, Muthu, Pravin, Godbold, Gene, Lindvall, Mikael, Diep, Madeline, Porter, Adam, Pop, Mihai, Ternus, Krista, Treangen, Todd J., Nasko, Dan, Elworth, R. A. Leo, Lu, Jacob, Balaji, Advait, Diaz, Christian, Shah, Nidhi, Selengut, Jeremy, Hulme-Lowe, Chris

“…Rapid advancements in synthetic biology and nucleic acid synthesis, in particular concerns about its intentional or accidental misuse, call for more…”
Get full text