| Integrative detection and analysis of structural variation in cancer genomes JR Dixon, J Xu, V Dileep, Y Zhan, F Song, VT Le, GG Yardımcı, ... Nature genetics 50 (10), 1388-1398, 2018 | 314 | 2018 |
| Identifying cis elements for spatiotemporal control of mammalian DNA replication J Sima, A Chakraborty, V Dileep, M Michalski, KN Klein, NP Holcomb, ... Cell 176 (4), 816-830. e18, 2019 | 163 | 2019 |
| Measuring the reproducibility and quality of Hi-C data GG Yardımcı, H Ozadam, MEG Sauria, O Ursu, KK Yan, T Yang, ... Genome biology 20, 1-19, 2019 | 103 | 2019 |
| Identification of copy number variations and translocations in cancer cells from Hi-C data A Chakraborty, F Ay Bioinformatics 34 (2), 338-345, 2018 | 88 | 2018 |
| TET enzymes augment activation-induced deaminase (AID) expression via 5-hydroxymethylcytosine modifications at the Aicda superenhancer CWJ Lio, V Shukla, D Samaniego-Castruita, E González-Avalos, ... Science immunology 4 (34), eaau7523, 2019 | 75 | 2019 |
| A transient reversal of miRNA‐mediated repression controls macrophage activation A Mazumder, M Bose, A Chakraborty, S Chakrabarti, SN Bhattacharyya EMBO reports 14 (11), 1008-1016, 2013 | 75 | 2013 |
| DBETH: a database of bacterial exotoxins for human A Chakraborty, S Ghosh, G Chowdhary, U Maulik, S Chakrabarti Nucleic acids research 40 (D1), D615-D620, 2012 | 70 | 2012 |
| The Evf2 ultraconserved enhancer lncRNA functionally and spatially organizes megabase distant genes in the developing forebrain I Cajigas, A Chakraborty, KR Swyter, H Luo, M Bastidas, M Nigro, ... Molecular cell 71 (6), 956-972. e9, 2018 | 66 | 2018 |
| A survey on prediction of specificity-determining sites in proteins A Chakraborty, S Chakrabarti Briefings in Bioinformatics 16 (1), 71-88, 2015 | 63 | 2015 |
| Functional and structural analyses of CYP1B1 variants linked to congenital and adult-onset glaucoma to investigate the molecular basis of these diseases A Banerjee, S Chakraborty, A Chakraborty, S Chakrabarti, K Ray PLoS One 11 (5), e0156252, 2016 | 34 | 2016 |
| dcHiC detects differential compartments across multiple Hi-C datasets A Chakraborty, JG Wang, F Ay Nature Communications 13 (1), 6827, 2022 | 33* | 2022 |
| The role of 3D genome organization in disease: from compartments to single nucleotides A Chakraborty, F Ay Seminars in cell & developmental biology 90, 104-113, 2019 | 32 | 2019 |
| SPEER-SERVER: a web server for prediction of protein specificity determining sites A Chakraborty, S Mandloi, CJ Lanczycki, AR Panchenko, S Chakrabarti Nucleic acids research 40 (W1), W242-W248, 2012 | 28 | 2012 |
| A Novel Role for Protein Kinase Kin2 in Regulating HAC1 mRNA Translocation, Splicing, and Translation A Anshu, MA Mannan, A Chakraborty, S Chakrabarti, M Dey Molecular and Cellular Biology 35 (1), 199-210, 2015 | 25 | 2015 |
| PresRAT: a server for identification of bacterial small-RNA sequences and their targets with probable binding region K Kumar, A Chakraborty, S Chakrabarti RNA biology 18 (8), 1152-1159, 2021 | 15 | 2021 |
| Replication timing networks reveal a link between transcription regulatory circuits and replication timing control JC Rivera-Mulia, S Kim, H Gabr, A Chakraborty, F Ay, T Kahveci, ... Genome research 29 (9), 1415-1428, 2019 | 15 | 2019 |
| Conformational Adaptation in the E. coli Sigma 32 Protein in Response to Heat Shock A Chakraborty, S Mukherjee, R Chattopadhyay, S Roy, S Chakrabarti The Journal of Physical Chemistry B 118 (18), 4793-4802, 2014 | 12 | 2014 |
| Sox2-Evf2 lncRNA-mediated mechanisms of chromosome topological control in developing forebrain I Cajigas, A Chakraborty, M Lynam, KR Swyter, M Bastidas, L Collens, ... Development 148 (6), dev197202, 2021 | 8 | 2021 |
| The cap-proximal RNA secondary structure inhibits preinitiation complex formation on HAC1 mRNA JK Uppala, L Sathe, A Chakraborty, S Bhattacharjee, AT Pulvino, M Dey Journal of Biological Chemistry 298 (3), 2022 | 7 | 2022 |
| Butyrate-Induced In Vitro Colonocyte Differentiation Network Model Identifies ITGB1, SYK, CDKN2A, CHAF1A, and LRP1 as the Prognostic Markers for Colorectal … N Dasgupta, B Kumar Thakur, A Chakraborty, S Das Nutrition and cancer 71 (2), 257-271, 2019 | 7 | 2019 |
Ferhat AyAssociate Professor, La Jolla Institute for ImmunologyVerified email at lji.org
