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Ramana V. Davuluri
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2020 – today
- 2024
- [c5]Zhihan Zhou, Yanrong Ji, Weijian Li, Pratik Dutta, Ramana V. Davuluri, Han Liu:
DNABERT-2: Efficient Foundation Model and Benchmark For Multi-Species Genomes. ICLR 2024 - [i2]Zhihan Zhou, Weimin Wu, Harrison Ho, Jiayi Wang, Lizhen Shi, Ramana V. Davuluri, Zhong Wang, Han Liu:
DNABERT-S: Learning Species-Aware DNA Embedding with Genome Foundation Models. CoRR abs/2402.08777 (2024) - 2023
- [i1]Zhihan Zhou, Yanrong Ji, Weijian Li, Pratik Dutta, Ramana V. Davuluri, Han Liu:
DNABERT-2: Efficient Foundation Model and Benchmark For Multi-Species Genome. CoRR abs/2306.15006 (2023) - 2021
- [j19]Yanrong Ji, Zhihan Zhou, Han Liu, Ramana V. Davuluri
:
DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome. Bioinform. 37(15): 2112-2120 (2021) - [j18]Abhijit Chakraborty, Ferhat Ay
ExTraMapper: exon- and transcript-level mappings for orthologous gene pairs. Bioinform. 37(20): 3412-3420 (2021)
2010 – 2019
- 2019
- [j17]Saima Rathore, Hamed Akbari
Multivariate Analysis of Preoperative Magnetic Resonance Imaging Reveals Transcriptomic Classification of de novo Glioblastoma Patients. Frontiers Comput. Neurosci. 13: 81 (2019) - 2017
- [j16]Matthew Dapas
Comparative evaluation of isoform-level gene expression estimation algorithms for RNA-seq and exon-array platforms. Briefings Bioinform. 18(2): 260-269 (2017) - 2015
- [c4]Segun Jung, Hongjian Jin, Ramana V. Davuluri:
Identification of candidate regulatory SNPs by integrative analysis for prostate cancer genome data. BCB 2015: 278-285 - 2014
- [c3]Segun Jung, Yingtao Bi, Ramana V. Davuluri:
Comparison of data discretization methods for cross platform transfer of gene-expression based tumor subtyping classifier. ICCABS 2014: 1-2 - 2013
- [j15]Yingtao Bi, Ramana V. Davuluri:
NPEBseq: nonparametric empirical bayesian-based procedure for differential expression analysis of RNA-seq data. BMC Bioinform. 14: 262 (2013) - 2011
- [j14]Hyunsoo Kim, Yingtao Bi, Sharmistha Pal, Ravi Gupta
IsoformEx: Isoform level gene expression estimation using weighted non-negative least squares from mRNA-Seq data. BMC Bioinform. 12: 305 (2011) - [j13]Hao Sun
Genome-wide mapping of RNA Pol-II promoter usage in mouse tissues by ChIP-seq. Nucleic Acids Res. 39(1): 190-201 (2011) - [j12]Ravi Gupta
MPromDb update 2010: an integrated resource for annotation and visualization of mammalian gene promoters and ChIP-seq experimental data. Nucleic Acids Res. 39(Database-Issue): 92-97 (2011) - 2010
- [j11]Ravi Gupta
Annotation of gene promoters by integrative data-mining of ChIP-seq Pol-II enrichment data. BMC Bioinform. 11(S-1): 65 (2010) - [c2]Hyunsoo Kim, Ramana V. Davuluri:
Data mining of mRNA-Seq and small RNA-Seq data to find microRNA targets. BCB 2010: 499-501 - [c1]Hyunsoo Kim, Yingtao Bi, Ramana V. Davuluri:
Estimating the Expression of Transcript Isoforms from mRNA-Seq via Nonnegative Least Squares. BIBE 2010: 296-297
2000 – 2009
- 2009
- [j10]Huaxia Qin, Michael W. Y. Chan
An integrative ChIP-chip and gene expression profiling to model SMAD regulatory modules. BMC Syst. Biol. 3: 73 (2009) - 2006
- [j9]Lang Li, Alfred S. L. Cheng
A mixture model-based discriminate analysis for identifying ordered transcription factor binding site pairs in gene promoters directly regulated by estrogen receptor-alpha. Bioinform. 22(18): 2210-2216 (2006) - [j8]Victor X. Jin, Gregory A. Singer, Francisco J. Agosto-Perez, Sandya Liyanarachchi, Ramana V. Davuluri:
Genome-wide analysis of core promoter elements from conserved human and mouse orthologous pairs. BMC Bioinform. 7: 114 (2006) - [j7]Hao Sun
MPromDb: an integrated resource for annotation and visualization of mammalian gene promoters and ChIP-chip experimental data. Nucleic Acids Res. 34(Database-Issue): 98-103 (2006) - 2005
- [j6]Saranyan K. Palaniswamy, Victor X. Jin, Hao Sun
OMGProm: a database of orthologous mammalian gene promoters. Bioinform. 21(6): 835-836 (2005) - 2004
- [j5]Hao Sun
Java-based application framework for visualization of gene regulatory region annotations. Bioinform. 20(5): 727-734 (2004) - [j4]Twyla T. Pohar, Hao Sun
HemoPDB: Hematopoiesis Promoter Database, an information resource of transcriptional regulation in blood cell development. Nucleic Acids Res. 32(Database-Issue): 86-90 (2004) - 2003
- [j3]Ramana V. Davuluri, Hao Sun
AGRIS: Arabidopsis Gene Regulatory Information Server, an information resource of Arabidopsis cis-regulatory elements and transcription factors. BMC Bioinform. 4: 25 (2003) - 2001
- [j2]Jack E. Tabaska, Ramana V. Davuluri, Michael Q. Zhang:
Identifying the 3'-terminal exon in human DNA. Bioinform. 17(7): 602-607 (2001)
1990 – 1999
- 1999
- [j1]Nathalie Pavy, Stephane Rombauts, Patrice Déhais, Catherine Mathé, Ramana V. Davuluri, Philippe Leroy, Pierre Rouzé:
Evaluation of gene prediction software using a genomic data set: application to <$O_SSF>Arabidopsis thaliana<$C_SSF>sequences. Bioinform. 15(11): 887-899 (1999)
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