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1

COVID-19 pandemic reveals the peril of ignoring metadata standards

Schriml, Lynn M., Chuvochina, Maria, Davies, Neil, Eloe-Fadrosh, Emiley A., Finn, Robert D., Hugenholtz, Philip, Hunter, Christopher I., Hurwitz, Bonnie L., Kyrpides, Nikos C., Meyer, Folker, Mizrachi

Journal:

Scientific Data

Year:

2020

File:

PDF, 1.26 MB

2020

2

Disease Ontology: a backbone for disease semantic integration

Schriml, L. M., Arze, C., Nadendla, S., Chang, Y.-W. W., Mazaitis, M., Felix, V., Feng, G., Kibbe, W. A.

Journal:

Nucleic Acids Research

Year:

2012

Language:

english

File:

PDF, 1.97 MB

english, 2012

3

An ATP-binding cassette gene (ABCG3) closely related to the multidrug transporter ABCG2 (MXR/ABCP) has an unusual ATP-binding domain

Lyn Mickley, Pawan Jain, Keisuke Miyake, Lynn M. Schriml, Konetti Rao, Tito Fojo, Susan Bates, Michael Dean

Journal:

Mammalian Genome

Year:

2001

Language:

english

File:

PDF, 293 KB

english, 2001

4

Identifying and characterizing a five-gene cluster of ATP-binding cassette transporters mapping to human chromosome 17q24: a new subgroup within the ABCA subfamily

Isabelle Arnould, Lynn M. Schriml, Catherine Prades, Marcia Lachtermacher-Triunfol, Thomas Schneider, Christelle Maintoux, Cendrine Lemoine, Delphine Debono, Catherine Devaud, Laurent Naudin, Stéphan

Journal:

Year:

2001

Language:

english

File:

PDF, 444 KB

english, 2001

5

Identification of 18 Mouse ABC Genes and Characterization of the ABC Superfamily in Mus musculus

Lynn M. Schriml, Michael Dean

Journal:

Year:

2000

Language:

english

File:

PDF, 228 KB

english, 2000

6

Dating the Origin of the CCR5-Δ32 AIDS-Resistance Allele by the Coalescence of Haplotypes

J. Claiborne Stephens, David E. Reich, David B. Goldstein, Hyoung Doo Shin, Michael W. Smith, Mary Carrington, Cheryl Winkler, Gavin A. Huttley, Rando Allikmets, Lynn Schriml, Bernard Gerrard, Michael

Journal:

The American Journal of Human Genetics

Year:

1998

Language:

english

File:

PDF, 272 KB

english, 1998

7

A model for the determination of fish species at risk based upon life-history traits and ecological data

Parent, Serge, Schriml, Lynn M.

Journal:

Canadian Journal of Fisheries and Aquatic Sciences

Year:

1995

Language:

english

File:

PDF, 758 KB

english, 1995

8

Habitat-Lite: A GSC Case Study Based on Free Text Terms for Environmental Metadata

Hirschman, Lynette, Clark, Cheryl, Cohen, K. Bretonnel, Mardis, Scott, Luciano, Joanne, Kottmann, Renzo, Cole, James, Markowitz, Victor, Kyrpides, Nikos, Morrison, Norman, Schriml, Lynn M., Field, Daw

Journal:

Omics A Journal of Integrative Biology

Year:

2008

Language:

english

File:

PDF, 189 KB

english, 2008

9

Laying the Foundation for a Genomic Rosetta Stone: Creating Information Hubs through the Use of Consensus Identifiers

Van Brabant, Bart, Gray, Tanya, Verslyppe, Bert, Kyrpides, Nikos, Dietrich, Karin, Glöckner, Frank Oliver, Cole, James, Farris, Ryan, Schriml, Lynn M., De Vos, Paul, De Baets, Bernard, Field, Dawn, Da

Journal:

Omics A Journal of Integrative Biology

Year:

2008

Language:

english

File:

PDF, 1.07 MB

english, 2008

10

GeMInA, Genomic Metadata for Infectious Agents, a geospatial surveillance pathogen database

Schriml, L. M., Arze, C., Nadendla, S., Ganapathy, A., Felix, V., Mahurkar, A., Phillippy, K., Gussman, A., Angiuoli, S., Ghedin, E., White, O., Hall, N.

Journal:

Nucleic Acids Research

Year:

2010

Language:

english

File:

PDF, 2.10 MB

english, 2010

11

Mutational Spectra of PTEN/MMAC1 Gene: a Tumor Suppressor With Lipid Phosphatase Activity

Ali, I. U., Schriml, L. M., Dean, M.

Journal:

JNCI Journal of the National Cancer Institute

Year:

1999

Language:

english

File:

PDF, 2.18 MB

english, 1999

12

Comparative analysis of the promoter structure and genomic organization of the human and mouse ABCA7 gene encoding a novel ABCA transporter

Broccardo, C., Osorio, J., Luciani, M.-F., Schriml, L.M., Prades, C., Shulenin, S., Arnould, I., Naudin, L., Lafargue, C., Rosier, M., Jordan, B., Mattei, M.G., Dean, M., Den&egrave, fle, P., Chimini,

Journal:

Cytogenetic and Genome Research

Year:

2001

Language:

english

File:

PDF, 377 KB

english, 2001

13

Disease Ontology 2015 update: an expanded and updated database of human diseases for linking biomedical knowledge through disease data

Kibbe, W. A., Arze, C., Felix, V., Mitraka, E., Bolton, E., Fu, G., Mungall, C. J., Binder, J. X., Malone, J., Vasant, D., Parkinson, H., Schriml, L. M.

Journal:

Nucleic Acids Research

Year:

2015

Language:

english

File:

PDF, 835 KB

english, 2015

14

Human Disease Genes and Their Cloned Mouse Orthologs: Exploration of the FANTOM2 cDNA Sequence Data Set

Journal:

Genome Research

Year:

2003

Language:

english

File:

PDF, 180 KB

english, 2003

15

The Human Phenotype Ontology: Semantic Unification of Common and Rare Disease

Groza, Tudor, Köhler, Sebastian, Moldenhauer, Dawid, Vasilevsky, Nicole, Baynam, Gareth, Zemojtel, Tomasz, Schriml, Lynn Marie, Kibbe, Warren Alden, Schofield, Paul N., Beck, Tim, Vasant, Drashtti, Br

Journal:

The American Journal of Human Genetics

Year:

2015

Language:

english

File:

PDF, 1.85 MB

english, 2015

16

The Disease Ontology: fostering interoperability between biological and clinical human disease-related data

Schriml, Lynn M., Mitraka, Elvira

Journal:

Mammalian Genome

Year:

2015

Language:

english

File:

PDF, 680 KB

english, 2015

17

A Camera Study of Temporal Patterns of Nest Predation in Different Habitats

Jaroslav Picman and Lynn M. Schriml

Journal:

The Wilson Bulletin

Year:

1994

Language:

english

File:

PDF, 348 KB

english, 1994

18

Metagenomics: A foundling finds its feet

Gilbert, Jack A., Meyer, Folker, Field, Dawn, Schriml, Lynn M., Garrity, George M.

Journal:

Standards in Genomic Sciences

Year:

2010

Language:

english

File:

PDF, 90 KB

english, 2010

19

Report of the 13thGenomic Standards Consortium Meeting, Shenzhen, China, March 4–7, 2012

Gilbert, Jack A., Bao, Yiming, Wang, Hui, Sansone, Susanna-Assunta, Edmunds, Scott C., Morrison, Norman, Meyer, Folker, Schriml, Lynn M., Davies, Neil, Sterk, Peter, Wilkening, Jared, Garrity, George

Journal:

Standards in Genomic Sciences

Year:

2012

Language:

english

File:

PDF, 268 KB

english, 2012

20

Meeting Report from the Genomic Standards Consortium (GSC) Workshop 10

Glass, Elizabeth, Meyer, Folker, Gilbert, Jack A, Field, Dawn, Hunter, Sarah, Kottmann, Renzo, Kyrpides, Nikos, Sansone, Susanna, Schriml, Lynn, Sterk, Peter, White, Owen, Wooley, John

Journal:

Standards in Genomic Sciences

Year:

2010

Language:

english

File:

PDF, 210 KB

english, 2010

21

Metagenomes and metatranscriptomes from the L4 long-term coastal monitoring station in the Western English Channel

Gilbert, Jack A., Meyer, Folker, Schriml, Lynn, Joint, Ian R, Mühling, Martin, Field, Dawn

Journal:

Standards in Genomic Sciences

Year:

2010

Language:

english

File:

PDF, 615 KB

english, 2010

22

The Metadata Coverage Index (MCI): A standardized metric for quantifying database metadata richness

Liolios, Konstantinos, Schriml, Lynn, Hirschman, Lynette, Pagani, Ioanna, Nosrat, Bahador, Sterk, Peter, White, Owen, Rocca-Serra, Philippe, Sansone, Susanna-Assunta, Taylor, Chris, Kyrpides, Nikos C.

Journal:

Standards in Genomic Sciences

Year:

2012

Language:

english

File:

PDF, 1.96 MB

english, 2012

23

[Methods in Cell Biology] The Zebrafish: Genetics, Genomics, and Informatics Volume 77 || Data Mining the Zebrafish Genome

Schriml, Lynn M.

Year:

2004

Language:

english

File:

PDF, 840 KB

english, 2004

24

Generating a focused view of disease ontology cancer terms for pan-cancer data integration and analysis

Wu, T.-J., Schriml, L. M., Chen, Q.-R., Colbert, M., Crichton, D. J., Finney, R., Hu, Y., Kibbe, W. A., Kincaid, H., Meerzaman, D., Mitraka, E., Pan, Y., Smith, K. M., Srivastava, S., Ward, S., Yan, C

Journal:

Year:

2015

Language:

english

File:

PDF, 1.24 MB

english, 2015

25

Wikidata as a semantic framework for the Gene Wiki initiative

Burgstaller-Muehlbacher, Sebastian, Waagmeester, Andra, Mitraka, Elvira, Turner, Julia, Putman, Tim, Leong, Justin, Naik, Chinmay, Pavlidis, Paul, Schriml, Lynn, Good, Benjamin M, Su, Andrew I

Journal:

Year:

2016

Language:

english

File:

PDF, 1.09 MB

english, 2016

26

Integrated Genomic Analysis of Diverse Induced Pluripotent Stem Cells from the Progenitor Cell Biology Consortium

Salomonis, Nathan, Dexheimer, Phillip J., Omberg, Larsson, Schroll, Robin, Bush, Stacy, Huo, Jeffrey, Schriml, Lynn, Ho Sui, Shannan, Keddache, Mehdi, Mayhew, Christopher, Shanmukhappa, Shiva Kumar, W

Journal:

Stem Cell Reports

Year:

2016

Language:

english

File:

PDF, 4.93 MB

english, 2016

27

Molecular, phenotypic, and sample-associated data to describe pluripotent stem cell lines and derivatives

Daily, Kenneth, Ho Sui, Shannan J., Schriml, Lynn M., Dexheimer, Phillip J., Salomonis, Nathan, Schroll, Robin, Bush, Stacy, Keddache, Mehdi, Mayhew, Christopher, Lotia, Samad, Perumal, Thanneer M., D

Journal:

Scientific Data

Year:

2017

Language:

english

File:

PDF, 929 KB

english, 2017

28

The 15th Genomic Standards Consortium meeting

Lynn Schriml,Ilene Mizrachi,Peter Sterk,Dawn Field…

Journal:

Standards in Genomic Sciences

Year:

2013

Language:

english

File:

PDF, 1.27 MB

english, 2013

29

An ATP-binding cassette gene (ABCG5) from the ABCG (White) gene subfamily maps to human chromosome 2p21 in the region of the Sitosterolemia locus

Shulenin, S., Schriml, L.M., Remaley, A.T., Fojo, S., Brewer, B., Allikmets, R., Dean, M.

Journal:

Cytogenetic and Genome Research

Year:

2001

Language:

english

File:

PDF, 482 KB

english, 2001

30

Disease Ontology: improving and unifying disease annotations across species

Bello, Susan M., Shimoyama, Mary, Mitraka, Elvira, Laulederkind, Stanley J. F., Smith, Cynthia L., Eppig, Janan T., Schriml, Lynn M.

Journal:

Disease Models & Mechanisms

Year:

2018

Language:

english

File:

PDF, 373 KB

english, 2018

31

Standardized Metadata for Human Pathogen/Vector Genomic Sequences

Dugan, Vivien G., Emrich, Scott J., Giraldo-Calderón, Gloria I., Harb, Omar S., Newman, Ruchi M., Pickett, Brett E., Schriml, Lynn M., Stockwell, Timothy B., Stoeckert, Christian J., Sullivan, Dan E.,

Journal:

Year:

2014

Language:

english

File:

PDF, 868 KB

english, 2014

32

Human Disease Ontology 2018 update: classification, content and workflow expansion

Schriml, Lynn M, Mitraka, Elvira, Munro, James, Tauber, Becky, Schor, Mike, Nickle, Lance, Felix, Victor, Jeng, Linda, Bearer, Cynthia, Lichenstein, Richard, Bisordi, Katharine, Campion, Nicole, Hyman

Journal:

Nucleic Acids Research

Year:

2018

Language:

english

File:

PDF, 2.18 MB

english, 2018

33

ECO, the Evidence & Conclusion Ontology: community standard for evidence information

Giglio, Michelle, Tauber, Rebecca, Nadendla, Suvarna, Munro, James, Olley, Dustin, Ball, Shoshannah, Mitraka, Elvira, Schriml, Lynn M, Gaudet, Pascale, Hobbs, Elizabeth T, Erill, Ivan, Siegele, Debora

Journal:

Nucleic Acids Research

Year:

2018

Language:

english

File:

PDF, 1.95 MB

english, 2018

34

Tyramide Signal Amplification (TSA)-FISH Applied to Mapping PCR-Labeled Probes Less than 1 kb in Size

Schriml, L.M., Padilla-Nash, H.M., Coleman, A., Moen, P., Nash, W.G., Menninger, J., Jones, G., Ried, T., Dean, M.

Journal:

Year:

1999

Language:

english

File:

PDF, 94 KB

english, 1999

35

Creating a Translational Medicine Ontology

Denney, Christine, Batchelor, Colin, Bodenreider, Olivier, Cheng, Sam, Hart, John, Hill, John, Madden, John, Musen, Mark, Pichler, Elgar, Samwald, Matthias, Szalma, Sándor, Schriml, Lynn, Sedlock, Dav

Journal:

Bioentrepreneur

Year:

2009

Language:

english

File:

PDF, 277 KB

english, 2009

36

Creating a Translational Medicine Ontology

Denney, Christine, Batchelor, Colin, Bodenreider, Olivier, Cheng, Sam, Hart, John, Hill, John, Madden, John, Musen, Mark, Pichler, Elgar, Samwald, Matthias, Szalma, Sándor, Schriml, Lynn, Sedlock, Dav

Journal:

Bioentrepreneur

Year:

2009

File:

PDF, 277 KB

2009

37

Community-Driven Metadata Standards for Agricultural Microbiome Research

Dundore-Arias, J. P., Eloe-Fadrosh, E. A., Schriml, L. M., Beattie, G. A., Brennan, F. P., Busby, P. E., Calderon, R. B., Castle, S. C., Emerson, J. B., Everhart, S. E., Eversole, K., Frost, K. E., He

Journal:

Year:

2020

File:

PDF, 540 KB

2020