Proteogenomic analysis of Mycobacterium tuberculosis by high resolution mass spectrometry DS Kelkar, D Kumar, P Kumar, L Balakrishnan, B Muthusamy, AK Yadav, ... Molecular & cellular proteomics 10 (12), 2011 | 191 | 2011 |
Integrating transcriptome and proteome profiling: Strategies and applications D Kumar, G Bansal, A Narang, T Basak, T Abbas, D Dash Proteomics 16 (19), 2533-2544, 2016 | 171 | 2016 |
Multi-omic profiling reveals dynamics of the phased progression of pluripotency P Yang, SJ Humphrey, S Cinghu, R Pathania, AJ Oldfield, D Kumar, ... Cell Systems 8 (5), 427-445. e10, 2019 | 127 | 2019 |
Transcriptome and venom proteome of the box jellyfish Chironex fleckeri DL Brinkman, X Jia, J Potriquet, D Kumar, D Dash, D Kvaskoff, ... BMC genomics 16, 1-15, 2015 | 111 | 2015 |
A systematic analysis of eluted fraction of plasma post immunoaffinity depletion: implications in biomarker discovery AK Yadav, G Bhardwaj, T Basak, D Kumar, S Ahmad, R Priyadarshini, ... PloS one 6 (9), e24442, 2011 | 106 | 2011 |
Intragenic Enhancers Attenuate Host Gene Expression S Cinghu, P Yang, JP Kosak, AE Conway, D Kumar, AJ Oldfield, ... Molecular cell 68 (1), 2017 | 90 | 2017 |
Decoding the function of bivalent chromatin in development and cancer D Kumar, S Cinghu, AJ Oldfield, P Yang, R Jothi Genome Research, 2021 | 68 | 2021 |
NF-Y controls fidelity of transcription initiation at gene promoters through maintenance of the nucleosome-depleted region AJ Oldfield, T Henriques, D Kumar, AB Burkholder, D Paulet, S Cinghu, ... Nature Communications, 2019 | 60 | 2019 |
GLIS3 is indispensable for TSH/TSHR-dependent thyroid hormone biosynthesis and follicular cell proliferation HS Kang, D Kumar, G Liao, K Lichti-Kaiser, K Gerrish, XH Liao, S Refetoff, ... Journal of Clinical Investigation, 2017 | 59* | 2017 |
Expression profiling of lymph nodes in tuberculosis patients reveal inflammatory milieu at site of infection A Maji, R Misra, A Kumar Mondal, D Kumar, D Bajaj, A Singhal, G Arora, ... Scientific reports 5 (1), 15214, 2015 | 59 | 2015 |
MassWiz: a novel scoring algorithm with target-decoy based analysis pipeline for tandem mass spectrometry AK Yadav, D Kumar, D Dash Journal of proteome research 10 (5), 2154-2160, 2011 | 58 | 2011 |
Polyketide quinones are alternate intermediate electron carriers during mycobacterial respiration in oxygen-deficient niches A Anand, P Verma, AK Singh, S Kaushik, R Pandey, C Shi, H Kaur, ... Molecular cell 60 (4), 637-650, 2015 | 49 | 2015 |
Proteogenomic analysis of Bradyrhizobium japonicum USDA110 using GenoSuite, an automated multi-algorithmic pipeline D Kumar, AK Yadav, PK Kadimi, SH Nagaraj, SM Grimmond, D Dash Molecular & cellular proteomics 12 (11), 3388-3397, 2013 | 47 | 2013 |
Choosing an Optimal Database for Protein Identification from Tandem Mass Spectrometry Data D Kumar, AK Yadav, D Dash Methods in Molecular Biology, Proteome Bioinformatics 1549, 2016 | 42 | 2016 |
Integrated transcriptomic-proteomic analysis using a proteogenomic workflow refines rat genome annotation D Kumar, AK Yadav, X Jia, J Mulvenna, D Dash Molecular & Cellular Proteomics 15 (1), 329-339, 2016 | 39 | 2016 |
Integration host factor of Mycobacterium tuberculosis, mIHF, compacts DNA by a bending mechanism A Mishra, M Vij, D Kumar, V Taneja, AK Mondal, A Bothra, V Rao, ... PloS one 8 (7), e69985, 2013 | 30 | 2013 |
Learning from decoys to improve the sensitivity and specificity of proteomics database search results AK Yadav, D Kumar, D Dash PloS one 7 (11), e50651, 2012 | 26 | 2012 |
GLIS3 Transcriptionally Activates WNT Genes to Promote Differentiation of Human Embryonic Stem Cells into Posterior Neural Progenitors. K Jeon, D Kumar, AE Conway, K Park, R Jothi, AM Jetten Stem Cells, 2018 | 23 | 2018 |
Spectrum of large copy number variations in 26 diverse Indian populations: potential involvement in phenotypic diversity P Gautam, P Jha, D Kumar, S Tyagi, B Varma, D Dash, A Mukhopadhyay, ... Human genetics 131, 131-143, 2012 | 22 | 2012 |
False discovery rate: the Achilles’ heel of proteogenomics S Aggarwal, A Raj, D Kumar, D Dash, AK Yadav Briefings in bioinformatics 23 (5), bbac163, 2022 | 19 | 2022 |