• Genome-wide analysis and visualization of copy number with CNVpytor in igv.js.
  Panda A, Suvakov M, Thorvaldsdottir H, Mesirov JP, Robinson JT, Abyzov A; Bioinformatics (Oxford, England), 2024
  PubMed Link


• Modeling idiopathic autism in forebrain organoids reveals an imbalance of excitatory cortical neuron subtypes during early neurogenesis.
  Jourdon A, Wu F, Mariani J, Capauto D, Norton S, Tomasini L, Amiri A, Suvakov M, Schreiner JD, Jang Y, Panda A, Nguyen CK, Cummings EM, Han G, Powell K, Szekely A, McPartland JC, Pelphrey K, Chawarska K, Ventola P, Abyzov A, Vaccarino FM; Nature neuroscience, 2023
  PubMed Link


• Clonally Selected Lines After CRISPR-Cas Editing Are Not Isogenic.
  Panda A, Suvakov M, Mariani J, Drucker KL, Park Y, Jang Y, Kollmeyer TM, Sarkar G, Bae T, Kim JJ, Yoon WH, Jenkins RB, Vaccarino FM, Abyzov A; The CRISPR journal, 2023
  PubMed Link


• A noncoding single-nucleotide polymorphism at 8q24 drives IDH1-mutant glioma formation.
  Yanchus C, Drucker KL, Kollmeyer TM, Tsai R, Winick-Ng W, Liang M, Malik A, Pawling J, De Lorenzo SB, Ali A, Decker PA, Kosel ML, Panda A, Al-Zahrani KN, Jiang L, Browning JWL, Lowden C, Geuenich M, Hernandez JJ, Gosio JT, Ahmed M, Loganathan SK, Berman J, Trcka D, Michealraj KA, Fortin J, Carson B, Hollingsworth EW, Jacinto S, Mazrooei P, Zhou L, Elia A, Lupien M, He HH, Murphy DJ, Wang L, Abyzov A, Dennis JW, Maass PG, Campbell K, Wilson MD, Lachance DH, Wrensch M, Wiencke J, Mak T, Pennacchio LA, Dickel DE, Visel A, Wrana J, Taylor MD, Zadeh G, Dirks P, Eckel-Passow JE, Attisano L, Pombo A, Ida CM, Kvon EZ, Jenkins RB, Schramek D; Science (New York, N.Y.), 2022
  PubMed Link


• Analysis of somatic mutations in 131 human brains reveals aging-associated hypermutability.
  Bae T, Fasching L, Wang Y, Shin JH, Suvakov M, Jang Y, Norton S, Dias C, Mariani J, Jourdon A, Wu F, Panda A, Pattni R, Chahine Y, Yeh R, Roberts RC, Huttner A, Kleinman JE, Hyde TM, Straub RE, Walsh CA, Urban AE, Leckman JF, Weinberger DR, Vaccarino FM, Abyzov A; Science (New York, N.Y.), 2022
  PubMed Link


• Comparative Genome Analysis Across 128 Phytophthora Isolates Reveal Species-Specific Microsatellite Distribution and Localized Evolution of Compartmentalized Genomes.
  Mandal K, Dutta S, Upadhyay A, Panda A, Tripathy S; Frontiers in microbiology, 2022
  PubMed Link


• CNVpytor: a tool for copy number variation detection and analysis from read depth and allele imbalance in whole-genome sequencing.
  Suvakov M, Panda A, Diesh C, Holmes I, Abyzov A; GigaScience, 2021
  PubMed Link


• SCELLECTOR: ranking amplification bias in single cells using shallow sequencing.
  Sarangi V, Jourdon A, Bae T, Panda A, Vaccarino F, Abyzov A; BMC bioinformatics, 2020
  PubMed Link


• Updated Assembly of Phytophthora ramorum pr102 Isolate Incorporating Long Reads from PacBio Sequencing.
  Malar C M, Yuzon JD, Panda A, Kasuga T, Tripathy S; Molecular plant-microbe interactions : MPMI, 2019
  PubMed Link


• Genome/transcriptome collection of plethora of economically important, previously unexplored organisms from India and abroad.
  Panda A, Chaudhari NM, Mukherjee M, Ghosh S, Sarangi AN, Mathu Malar C, Kant S, Sen D, Das A, Das S, Singh D, Prusty A, Tripathy S; Data in brief, 2019
  PubMed Link


• Genome Annotator Light (GAL): A Docker-based package for genome analysis and visualization.
  Panda A, Chaudhari NM, Tripathy S; Genomics, 2020
  PubMed Link


• Haplotype-Phased Genome Assembly of Virulent Phytophthora ramorum Isolate ND886 Facilitated by Long-Read Sequencing Reveals Effector Polymorphisms and Copy Number Variation.
  Malar C M, Yuzon JD, Das S, Das A, Panda A, Ghosh S, Tyler BM, Kasuga T, Tripathy S; Molecular plant-microbe interactions : MPMI, 2019
  PubMed Link


• Draft Genome Sequence for the Tree Pathogen Phytophthora plurivora.
  Vetukuri RR, Tripathy S, Malar C M, Panda A, Kushwaha SK, Chawade A, Andreasson E, Grenville-Briggs LJ, Whisson SC; Genome biology and evolution, 2018
  PubMed Link


• EumicrobeDBLite: a lightweight genomic resource and analytic platform for draft oomycete genomes.
  Panda A, Sen D, Ghosh A, Gupta A, C MM, Prakash Mishra G, Singh D, Ye W, Tyler BM, Tripathy S; Molecular plant pathology, 2018
  PubMed Link


• Tricking Arthrinium malaysianum into Producing Industrially Important Enzymes Under 2-Deoxy D-Glucose Treatment.
  Mukherjee S, Chandrababunaidu MM, Panda A, Khowala S, Tripathy S; Frontiers in microbiology, 2016
  PubMed Link


• Deciphering the Genome Sequences of the Hydrophobic Cyanobacterium Scytonema tolypothrichoides VB-61278.
  Das A, Panda A, Singh D, Chandrababunaidu MM, Mishra GP, Bhan S, Adhikary SP, Tripathy S; Genome announcements, 2015
  PubMed Link


• Draft Genome Sequence of Cyanobacterium Hassallia byssoidea Strain VB512170, Isolated from Monuments in India.
  Singh D, Chandrababunaidu MM, Panda A, Sen D, Bhattacharyya S, Adhikary SP, Tripathy S; Genome announcements, 2015
  PubMed Link


• Draft Genome Sequence of Exopolysaccharide-Producing Cyanobacterium Aphanocapsa montana BDHKU 210001.
  Bhattacharyya S, Chandrababunaidu MM, Sen D, Panda A, Ghorai A, Bhan S, Sanghi N, Tripathy S; Genome announcements, 2015
  PubMed Link