15 Result(s)

Article

From archive to analysis: accessing web archives at scale through a cloud-based interface

This paper introduces the Archives Unleashed Cloud, a web-based interface for working with web archives at scale. Current access paradigms, largely driven by the scope and scale of web archives, generally invo...

Nick Ruest, Samantha Fritz, Ryan Deschamps… in International Journal of Digital Humanities (2021)

Chapter and Conference Paper

From MAXSCORE to Block-Max Wand: The Story of How Lucene Significantly Improved Query Evaluation Performance

The latest major release of Lucene (version 8) in March 2019 incorporates block-max indexes and exploits the block-max variant of Wand for query evaluation, which are innovations that originated from academia. Th...

Adrien Grand, Robert Muir, Jim Ferenczi, Jimmy Lin in Advances in Information Retrieval (2020)

Chapter and Conference Paper

Which BM25 Do You Mean? A Large-Scale Reproducibility Study of Scoring Variants

When researchers speak of BM25, it is not entirely clear which variant they mean, since many tweaks to Robertson et al.’s original formulation have been proposed. When practitioners speak of BM25, they most li...

Chris Kamphuis, Arjen P. de Vries, Leonid Boytsov… in Advances in Information Retrieval (2020)

Chapter and Conference Paper

Reproducibility is a Process, Not an Achievement: The Replicability of IR Reproducibility Experiments

This paper espouses a view of reproducibility in the computational sciences as a process and not just a point-in-time “achievement”. As a concrete case study, we revisit the Open-Source IR Reproducibility Challen...

Jimmy Lin, Qian Zhang in Advances in Information Retrieval (2020)

Article

The role of index compression in score-at-a-time query evaluation

This paper explores the performance of top k document retrieval with score-at-a-time query evaluation on impact-ordered indexes in main memory. To better understand execution efficiency in the context of modern p...

Jimmy Lin, Andrew Trotman in Information Retrieval Journal (2017)

Article

Document vector representations for feature extraction in multi-stage document ranking

We consider a multi-stage retrieval architecture consisting of a fast, “cheap” candidate generation stage, a feature extraction stage, and a more “expensive” reranking stage using machine-learned models. In th...

Nima Asadi, Jimmy Lin in Information Retrieval (2013)

Article

Herpesviruses control the DNA damage response through TIP60

Renfeng Li, Jian Zhu, Zhi **e, Gangling Liao, Shaohui Hu… in Infectious Agents and Cancer (2012)

Article

Searching for SNPs with cloud computing

As DNA sequencing outpaces improvements in computer speed, there is a critical need to accelerate tasks like alignment and SNP calling. Crossbow is a cloud-computing software tool that combines the aligner Bow...

Ben Langmead, Michael C Schatz, Jimmy Lin, Mihai Pop, Steven L Salzberg in Genome Biology (2009)

Article

Modeling actions of PubMed users with n-gram language models

Transaction logs from online search engines are valuable for two reasons: First, they provide insight into human information-seeking behavior. Second, log data can be used to train user models, which can then ...

Jimmy Lin, W. John Wilbur in Information Retrieval (2009)

Article

Is searching full text more effective than searching abstracts?

With the growing availability of full-text articles online, scientists and other consumers of the life sciences literature now have the ability to go beyond searching bibliographic records (title, abstract, me...

Jimmy Lin in BMC Bioinformatics (2009)

Article

PageRank without hyperlinks: Reranking with PubMed related article networks for biomedical text retrieval

Graph analysis algorithms such as PageRank and HITS have been successful in Web environments because they are able to extract important inter-document relationships from manually-created hyperlinks. We conside...

Jimmy Lin in BMC Bioinformatics (2008)

Article

Identification of tissue-specific cis-regulatory modules based on interactions between transcription factors

Evolutionary conservation has been used successfully to help identify cis-acting DNA regions that are important in regulating tissue-specific gene expression. Motivated by increasing evidence that some DNA reg...

Xue** Yu, Jimmy Lin, Donald J Zack, Jiang Qian in BMC Bioinformatics (2007)

Article

PubMed related articles: a probabilistic topic-based model for content similarity

We present a probabilistic topic-based model for content similarity called pmra that underlies the related article search feature in PubMed. Whether or not a document is about a particular topic is computed from ...

Jimmy Lin, W John Wilbur in BMC Bioinformatics (2007)

Article

Syntactic sentence compression in the biomedical domain: facilitating access to related articles

We explore a syntactic approach to sentence compression in the biomedical domain, grounded in the context of result presentation for related article search in the PubMed search engine. By automatically trimmin...

Jimmy Lin, W. John Wilbur in Information Retrieval (2007)

Article

Methods for automatically evaluating answers to complex questions

Evaluation is a major driving force in advancing the state of the art in language technologies. In particular, methods for automatically assessing the quality of machine output is the preferred method for meas...

Jimmy Lin, Dina Demner-Fushman in Information Retrieval (2006)