User profiles for N. Nagarajan

Niranjan Nagarajan

- Verified email at gis.a-star.edu.sg - Cited by 22107

Neeraja Nagarajan

- Verified email at jhu.edu - Cited by 2601

Sequence assembly demystified

N Nagarajan, M Pop - Nature Reviews Genetics, 2013 - nature.com
Advances in sequencing technologies and increased access to sequencing services have
led to renewed interest in sequence and genome assembly. Concurrently, new applications …

[HTML][HTML] Metagenomics-enabled microbial surveillance

KKK Ko, KR Chng, N Nagarajan - Nature Microbiology, 2022 - nature.com
Lessons learnt from the COVID-19 pandemic include increased awareness of the potential
for zoonoses and emerging infectious diseases that can adversely affect human health. …

Shared decision making and choice for elective surgical care: a systematic review

EF Boss, N Mehta, N Nagarajan… - … --head and neck …, 2016 - journals.sagepub.com
… Of the 24 studies evaluated in this review, the majority (n = 17) focused their measured
outcomes on the effectiveness of a decision aid without directly assessing doctor-patient …

[PDF][PDF] Comprehensive characterization of cancer driver genes and mutations

…, EM Liu, L Mularoni, C Rubio-Perez, N Nagarajan… - Cell, 2018 - cell.com
Identifying molecular cancer drivers is critical for precision oncology. Multiple advanced
algorithms to identify drivers now exist, but systematic attempts to combine and optimize them on …

Fast and accurate de novo genome assembly from long uncorrected reads

R Vaser, I Sović, N Nagarajan, M Šikić - Genome research, 2017 - genome.cshlp.org
… While the regular DP for pairwise alignment has time complexity of O(3nm), where n and
m are the lengths of the sequences being aligned, the sequence to graph alignment has a …

[HTML][HTML] The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus)

…, H Albert, ML Wang, YJ Zhu, M Schatz, N Nagarajan… - Nature, 2008 - nature.com
Papaya, a fruit crop cultivated in tropical and subtropical regions, is known for its nutritional
benefits and medicinal applications. Here we report a 3× draft genome sequence of ‘SunUp’ …

[HTML][HTML] Statistical methods for detecting differentially abundant features in clinical metagenomic samples

JR White, N Nagarajan, M Pop - PLoS computational biology, 2009 - journals.plos.org
Numerous studies are currently underway to characterize the microbial communities inhabiting
our world. These studies aim to dramatically expand our understanding of the microbial …

LoFreq: a sequence-quality aware, ultra-sensitive variant caller for uncovering cell-population heterogeneity from high-throughput sequencing datasets

…, R Petric, ML Hibberd, N Nagarajan - Nucleic acids …, 2012 - academic.oup.com
… for the computation of the pmf in O(N 2 ) time. As N can be large in practice, we aimed to …
to show that Pr n (X=k)=0 for k>n and that entries for n>N − K, k<K − N + n do not affect the …

[HTML][HTML] Critical assessment of metagenome interpretation—a benchmark of metagenomics software

…, D Turaev, MZ DeMaere, R Chikhi, N Nagarajan… - Nature …, 2017 - nature.com
Methods for assembly, taxonomic profiling and binning are key to interpreting metagenome
data, but a lack of consensus about benchmarking complicates performance assessment. …

A common BIM deletion polymorphism mediates intrinsic resistance and inferior responses to tyrosine kinase inhibitors in cancer

…, JWJ Huang, JC Allen Jr, XY Woo, N Nagarajan… - Nature medicine, 2012 - nature.com
Tyrosine kinase inhibitors (TKIs) elicit high response rates among individuals with kinase-driven
malignancies, including chronic myeloid leukemia (CML) and epidermal growth factor …