RawHash2: mapping raw nanopore signals using hash-based seeding and adaptive quantization von Firtina, Can, Soysal, Melina, Lindegger, Joël, Mutlu, Onur

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Scrooge: a fast and memory-frugal genomic sequence aligner for CPUs, GPUs, and ASICs von Lindegger, Joël, Senol Cali, Damla, Alser, Mohammed, Gómez-Luna, Juan, Ghiasi, Nika Mansouri, Mutlu, Onur

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RowPress Vulnerability in Modern DRAM Chips von Luo, Haocong, Olgun, Ataberk, Giray Yaglikci, Abdullah, Tugrul, Yahya Can, Rhyner, Steve, Cavlak, Meryem Banu, Lindegger, Joel, Sadrosadati, Mohammad, Mutlu, Onur

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From molecules to genomic variations: Accelerating genome analysis via intelligent algorithms and architectures von Alser, Mohammed, Lindegger, Joel, Firtina, Can, Almadhoun, Nour, Mao, Haiyu, Singh, Gagandeep, Gomez-Luna, Juan, Mutlu, Onur

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ApHMM: Accelerating Profile Hidden Markov Models for Fast and Energy-efficient Genome Analysis von Firtina, Can, Pillai, Kamlesh, Kalsi, Gurpreet S., Suresh, Bharathwaj, Cali, Damla Senol, Kim, Jeremie S., Shahroodi, Taha, Cavlak, Meryem Banu, Lindegger, Joël, Alser, Mohammed, Luna, Juan Gómez, Subramoney, Sreenivas, Mutlu, Onur

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TargetCall: eliminating the wasted computation in basecalling via pre-basecalling filtering von Cavlak, Meryem Banu, Singh, Gagandeep, Alser, Mohammed, Firtina, Can, Lindegger, Joël, Sadrosadati, Mohammad, Mansouri Ghiasi, Nika, Alkan, Can, Mutlu, Onur

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RawHash: enabling fast and accurate real-time analysis of raw nanopore signals for large genomes von Firtina, Can, Mansouri Ghiasi, Nika, Lindegger, Joel, Singh, Gagandeep, Cavlak, Meryem Banu, Mao, Haiyu, Mutlu, Onur

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RawAlign - d3_yeast_r94 von Lindegger, Joel

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SequenceLab Datasets von Rumpf, Maximilian-David, Lindegger, Joel

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An In-Memory Architecture for High-Performance Long-Read Pre-Alignment Filtering von Shahroodi, Taha, Miao, Michael, Lindegger, Joel, Wong, Stephan, Mutlu, Onur, Hamdioui, Said

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MetaTrinity: Enabling Fast Metagenomic Classification via Seed Counting and Edit Distance Approximation von Gollwitzer, Arvid E, Alser, Mohammed, Bergtholdt, Joel, Lindegger, Joel, Rumpf, Maximilian-David, Firtina, Can, Mangul, Serghei, Mutlu, Onur

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SequenceLab: A Comprehensive Benchmark of Computational Methods for Comparing Genomic Sequences von Rumpf, Maximilian-David, Alser, Mohammed, Gollwitzer, Arvid E, Lindegger, Joel, Almadhoun, Nour, Firtina, Can, Mangul, Serghei, Mutlu, Onur

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Swordfish: A Framework for Evaluating Deep Neural Network-based Basecalling using Computation-In-Memory with Non-Ideal Memristors von Shahroodi, Taha, Singh, Gagandeep, Zahedi, Mahdi, Mao, Haiyu, Lindegger, Joel, Firtina, Can, Wong, Stephan, Mutlu, Onur, Hamdioui, Said

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RawHash: Enabling Fast and Accurate Real-Time Analysis of Raw Nanopore Signals for Large Genomes von Firtina, Can, Nika Mansouri Ghiasi, Lindegger, Joel, Singh, Gagandeep, Cavlak, Meryem Banu, Mao, Haiyu, Mutlu, Onur

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Going From Molecules to Genomic Variations to Scientific Discovery: Intelligent Algorithms and Architectures for Intelligent Genome Analysis von Alser, Mohammed, Lindegger, Joel, Firtina, Can, Almadhoun, Nour, Mao, Haiyu, Singh, Gagandeep, Gomez-Luna, Juan, Mutlu, Onur

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ApHMM: Accelerating Profile Hidden Markov Models for Fast and Energy-Efficient Genome Analysis von Firtina, Can, Pillai, Kamlesh, Kalsi, Gurpreet S, Suresh, Bharathwaj, Cali, Damla Senol, Kim, Jeremie, Shahroodi, Taha, Cavlak, Meryem Banu, Lindegger, Joel, Alser, Mohammed, Luna, Juan Gómez, Subramoney, Sreenivas, Mutlu, Onur

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An In-Memory Architecture for High-Performance Long-Read Pre-Alignment Filtering von Shahroodi, Taha, Miao, Michael, Lindegger, Joel, Wong, Stephan, Mutlu, Onur, Hamdioui, Said

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RawHash2: Mapping Raw Nanopore Signals Using Hash-Based Seeding and Adaptive Quantization von Firtina, Can, Soysal, Melina, Lindegger, Joël, Mutlu, Onur

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MetaTrinity: Enabling Fast Metagenomic Classification via Seed Counting and Edit Distance Approximation von Gollwitzer, Arvid E, Alser, Mohammed, Bergtholdt, Joel, Lindegger, Joel, Maximilian-David Rumpf, Firtina, Can, Serghei Mangul, Mutlu, Onur

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SequenceLab: A Comprehensive Benchmark of Computational Methods for Comparing Genomic Sequences von Maximilian-David Rumpf, Alser, Mohammed, Gollwitzer, Arvid E, Lindegger, Joel, Almadhoun, Nour, Firtina, Can, Serghei Mangul, Mutlu, Onur

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