News

2024

Dec

• Paper accepted at RECOMB 2025 (acceptance rate: 16%)

Nov

• New preprint, Chandra et al. “Accelerating whole-genome alignment in the age of complete genome assemblies”
• New preprint, Chandra et al. “Integer programming framework for pangenome-based genome inference”
• Chirag gives invited talk at the inaugural event of Strand Life Sciences. Slides here.
• Sudhanva and Daanish present their work at the Pennsylvania State University as part of the IISc-PSU collaboration
• Chirag is serving as PC member of RECOMB, HiPC SRS

Oct

• Sudhanva’s work “Telomere-to-telomere assembly by preserving contained reads” accepted in Genome Research (Long-read special issue)
• Chirag will present at the ACM Winter School on Data Structures and Algorithms for Strings in December. Details and registration link

Sept

• Sudhanva presents his research at NITK Surathkal. Slides here

Aug

• Chirag gives invited lecture “Algorithmic challenges and solutions for genome assembly” at Ashoka University, slides here

July

• Sudhanva presents his work on genome assembly at ISMB. Slides here
• Jyotshna defends her MTech thesis titled “Sequence Alignment to Cyclic Pangenome Graphs”
• Chirag is selected for IIT Delhi Graduates of Last Decade (GOLD) Award

June

• Parvesh receives Reliance Foundation Postgraduate Scholarship (2023-24)

May

• Our lab is organizing the 2-day BDBio 2024 symposium in IISc
• Ghanshyam presents his research at RECOMB’24 conference held at MIT. Slides here and here

Apr

• Daanish’s paper “On the Coverage Required for Diploid Genome Assembly” is accepted at ISIT 2024
• Sudhanva receives Best Student Presentation Award at the EECS 2024 Symposium. Slides here

Feb

• Lab members showcase their research to the general public at IISc Open Day

Jan

• Chirag is invited speaker at Genomics India Conference. Slides here
• Chirag is awarded India Alliance Intermediate Fellowship

2023

Dec

• Ghanshyam’s paper is accepted at RECOMB (acceptance rate = 16%)
• Jyotshna presents her work at the Genome Informatics meeting in New York. Slides here
• Ajeya presents his work at HiPC conference held in Goa. Slides here
• Serving as PC member of RECOMB, RECOMB-seq and ISMB

Nov

• Preprint “Haplotype-aware sequence-to-graph alignment” is now online (project led by Ghanshyam)
• Preprint “Telomere-to-telomere assembly by preserving contained reads” is now online (project led by Sudhanva and Mehak)
• Jyotshna receives ACM-W Scholarship

Oct

• Sauma is awarded Prime Minister Research Fellowship

Sept

• Ajeya’s and Manasa’s work on compression of GenomeIndia sequencing data is accepted at HiPC’23 (acceptance rate=24%)

Aug

• Ghanshyam receives Intel Research Fellowship (2023-24)
• Parvesh Barak begins his M.Tech. research program in the lab. Welcome!

July

• Chirag gives an invited talk in Scalable Computational Genomics Session at CiE 2023. Slides here
• Co-organizing CDS Resesarch Expo

Jun

• Jyotshna’s project work on the first practical chaining algorithm for cyclic pangenome graphs is accepted at WABI

May

• Co-organizing Symposium on Big Data Algorithms for Biology (BDBIO)

Apr

• Ghanshyam and Chirag give talks at RECOMB and RECOMB-seq
• NSM awards research funding to our group
• Ghanshyam presents his work on pangenome graphs at EECS 2023 Symposium

Mar

• Vidushi, Dyotana and Jyotshna win 1st place prize at Genomics Hackathon at Centre for Brain Research IISc
• Ghanshyam receives research funding through EMPOWER program from Kotak IISc AI-ML Centre
• Chirag gives a talk on “Graph representation of human genomes” at the NTU-IISc Symposium on Health and Life Sciences. Slides here.

2022

Dec

• Kushagra wins 2nd place Best Poster Award at HiPC Student Research Symposium
• NERSC awards allocation on Perlmutter supercomputer to our group

Nov

• Ghanshyam’s first paper from PhD is accepted at RECOMB (acceptance rate = 20%)
• Extended abstracts submitted by Ghanshyam and Kushagra are accepted at HiPC SRS
• Daanish is awarded Prime Minister Research Fellowship
• Chirag receives NERSC High Performance Computing Achievement Award

Sept

• New preprint on long-read alignment algorithm to pangenome graphs
• Chirag is invited speaker at Genome Informatics 2022

Aug

• Mehak Bindra joins us as Project Associate. Welcome!
• Daanish Mahajan begins his IMI PhD program with us. He will be co-advised with Prof. Navin Kashyap. Welcome!

July

• Chirag gives a keynote talk at ISMB Microbiome COSI. Slides here

Feb

• SERB SRG research funding is awarded to our group for the project titled Algorithmic techniques for compression of population-scale sequencing data

Jan

• Chirag is invited to speak at HPC for AI & Biology symposium
• Our collaborative work with Intel Labs on accelerating long read mapping is accepted at Nature Computational Science
• Chirag serves as a PC member for ISMB’22, RECOMB-seq’22

2021

Dec

• ChainX, our co-linear chaining algorithm is accepted at RECOMB 2022
• Two lab members Ghanshyam Chandra, Sai Manasa were part of winning team at the National-HPC Hackathon

Aug

• Ghanshyam Chandra, Sudhanva Kamath and Jyotshna Rajput begin their research program in ATCG group. Welcome!

Jul

• Check out our new preprint on accelerating long-read mapping. This is collaborative work with Parallel Computing Lab at Intel.
• Oral presentations scheduled in HitSeq and VarI ISMB’21 conference tracks.

Jun

• A complete human genome reconstruction by the T2T consortium and our software contribution are highlighted in a TOI news article.

May

• Bhavay Aggarwal (CSE, IIITD) joins us as a project intern. Welcome!

Apr

• Kushagra Agarwal (CSE, IIITH) joins us as a project intern. Welcome!
• Two papers (variant selection in genome graphs and Nanopore raw signal mapper) accepted at ISMB’21.

Mar

• NSM announce funding for our project titled “Parallel algorithmic building blocks for real-time DNA and RNA sequencing”
• Two preprints that propose a variant selection framework for genome-graphs and faster algorithm for anchor chaining are posted on bioRxiv

Feb

• Chirag serves as PC member for ISMB’21, ISC’21

Jan

• Aniswar Ramalingam (IITM CS U.G. student) joins us as project intern. He’ll be co-advised with Prof. Simmhan. Welcome!

2020

Dec

• NERSC HPC allocation awarded to our group for using U.S. D.O.E. supercomputers
  
• Review of long read error correction methods published in BMC Genomics. Congrats Haowen!
  
• Chirag gives an invited seminar at IMSc Chennai. Thanks Prof. Samal for hosting
  

Nov

• Chirag presents Winnowmap2 at CSHL Biological Data Science meeting. Slides here
  
• Our new preprint improves long read mapping to repetitive genome reference sequences
  

Oct

• Chirag receives Pratiksha Trust Young Investigator Award
  
• Chirag starts ATCG (Algorithmic Techniques for Computational Genomics) lab in CDS, IISc