Work with academic experts in genetics

Other Research Interests (2)

Bioinformatics

Genomics

Michael Paxhia

NSF GRFP Fellow in Microbiology, graduating in Spring 2021. Has expertise in microbial physiology and is interested in applying this to solve problems in synthetic biology.

Most Relevant Research Interests

Other Research Interests (3)

Microbiology

Biochemistry

Physiology

About

Sally Irwin

Professor of Genetics and the Microbiome at the University of Hawaii

Most Relevant Research Interests

Other Research Interests (6)

Most Relevant Publications (1+)

3 total publications

Identification of PCR-based markers flanking the recessive LMV resistance gene mo1 in an intraspecific cross in lettuce

Genome / Oct 01, 1999

Irwin, S. V., Kesseli, R. V., Waycott, W., Ryder, E. J., Cho, J. J., & Michelmore, R. W. (1999). Identification of PCR-based markers flanking the recessive LMV resistance gene mo1 in an intraspecific cross in lettuce. Genome, 42(5), 982–986. https://doi.org/10.1139/g99-055

Artemis Louyakis

I am a bioinformatician with expertise in high level analysis of high throughput sequencing data and experimental design to best leverage data output.

Most Relevant Research Interests

Other Research Interests (4)

About

Jeffrey Townsend

About

Most Relevant Publications (64+)

207 total publications

The Ascomycota Tree of Life: A Phylum-wide Phylogeny Clarifies the Origin and Evolution of Fundamental Reproductive and Ecological Traits

Systematic Biology / Apr 01, 2009

Schoch, C. L., Sung, G.-H., López-Giráldez, F., Townsend, J. P., Miadlikowska, J., Hofstetter, V., Robbertse, B., Matheny, P. B., Kauff, F., Wang, Z., Gueidan, C., Andrie, R. M., Trippe, K., Ciufetti, L. M., Wynns, A., Fraker, E., Hodkinson, B. P., Bonito, G., Groenewald, J. Z., … Spatafora, J. W. (2009). The Ascomycota Tree of Life: A Phylum-wide Phylogeny Clarifies the Origin and Evolution of Fundamental Reproductive and Ecological Traits. Systematic Biology, 58(2), 224–239. https://doi.org/10.1093/sysbio/syp020

Profiling Phylogenetic Informativeness

Systematic Biology / Apr 01, 2007

Townsend, J. P. (2007). Profiling Phylogenetic Informativeness. Systematic Biology, 56(2), 222–231. https://doi.org/10.1080/10635150701311362

Phylogenetic and phylogenomic overview of the Polyporales

Mycologia / Nov 01, 2013

Binder, M., Justo, A., Riley, R., Salamov, A., Lopez-Giraldez, F., Sjökvist, E., Copeland, A., Foster, B., Sun, H., Larsson, E., Larsson, K.-H., Townsend, J., Grigoriev, I. V., & Hibbett, D. S. (2013). Phylogenetic and phylogenomic overview of the Polyporales. Mycologia, 105(6), 1350–1373. https://doi.org/10.3852/13-003

Multifactorial experimental design and the transitivity of ratios with spotted DNA microarrays

BMC Genomics / Oct 02, 2003

Townsend, J. P. (2003). Multifactorial experimental design and the transitivity of ratios with spotted DNA microarrays. BMC Genomics, 4(1). https://doi.org/10.1186/1471-2164-4-41

Gene expression profiling of mouse postnatal cerebellar development using cDNA microarrays

Gene / May 01, 2004

Lim, C. R., Fukakusa, A., & Matsubara, K. (2004). Gene expression profiling of mouse postnatal cerebellar development using cDNA microarrays. Gene, 333, 3–13. https://doi.org/10.1016/j.gene.2004.02.026

Horizontal Acquisition of Divergent Chromosomal DNA in Bacteria: Effects of Mutator Phenotypes

Genetics / May 01, 2003

Townsend, J. P., Nielsen, K. M., Fisher, D. S., & Hartl, D. L. (2003). Horizontal Acquisition of Divergent Chromosomal DNA in Bacteria: Effects of Mutator Phenotypes. Genetics, 164(1), 13–21. https://doi.org/10.1093/genetics/164.1.13

Secondary Metabolism Gene Clusters Exhibit Increasingly Dynamic and Differential Expression during Asexual Growth, Conidiation, and Sexual Development in Neurospora crassa

mSystems / Jun 28, 2022

Wang, Z., Lopez-Giraldez, F., Slot, J., Yarden, O., Trail, F., & Townsend, J. P. (2022). Secondary Metabolism Gene Clusters Exhibit Increasingly Dynamic and Differential Expression during Asexual Growth, Conidiation, and Sexual Development in Neurospora crassa. MSystems, 7(3). https://doi.org/10.1128/msystems.00232-22

Attribution of Cancer Origins to Endogenous, Exogenous, and Preventable Mutational Processes

Molecular Biology and Evolution / Apr 26, 2022

Cannataro, V. L., Mandell, J. D., & Townsend, J. P. (2022). Attribution of Cancer Origins to Endogenous, Exogenous, and Preventable Mutational Processes. Molecular Biology and Evolution, 39(5). https://doi.org/10.1093/molbev/msac084

Sequencing and Analysis of the Entire Genome of the Mycoparasitic Bioeffector Fungus Trichoderma asperelloides Strain T 203 (Hypocreales)

Microbiology Resource Announcements / Feb 17, 2022

Gortikov, M., Wang, Z., Steindorff, A. S., Grigoriev, I. V., Druzhinina, I. S., Townsend, J. P., & Yarden, O. (2022). Sequencing and Analysis of the Entire Genome of the Mycoparasitic Bioeffector Fungus Trichoderma asperelloides Strain T 203 (Hypocreales). Microbiology Resource Announcements, 11(2). https://doi.org/10.1128/mra.00995-21

Mechanistic basis of post-treatment control of SIV after anti-α4β7 antibody therapy

PLOS Computational Biology / Jun 09, 2021

Wells, C. R., Cao, Y., Durham, D. P., Byrareddy, S. N., Ansari, A. A., Ruddle, N. H., Townsend, J. P., Galvani, A. P., & Perelson, A. S. (2021). Mechanistic basis of post-treatment control of SIV after anti-α4β7 antibody therapy. PLOS Computational Biology, 17(6), e1009031. https://doi.org/10.1371/journal.pcbi.1009031

Comparative Genomics within and across Bilaterians Illuminates the Evolutionary History of ALK and LTK Proto-Oncogene Origination and Diversification

Genome Biology and Evolution / Nov 16, 2020

Dornburg, A., Wang, Z., Wang, J., Mo, E. S., López-Giráldez, F., & Townsend, J. P. (2020). Comparative Genomics within and across Bilaterians Illuminates the Evolutionary History of ALK and LTK Proto-Oncogene Origination and Diversification. Genome Biology and Evolution, 13(1). https://doi.org/10.1093/gbe/evaa228

Unmatched Level of Molecular Convergence among Deeply Divergent Complex Multicellular Fungi

Molecular Biology and Evolution / Mar 19, 2020

Merényi, Z., Prasanna, A. N., Wang, Z., Kovács, K., Hegedüs, B., Bálint, B., Papp, B., Townsend, J. P., & Nagy, L. G. (2020). Unmatched Level of Molecular Convergence among Deeply Divergent Complex Multicellular Fungi. Molecular Biology and Evolution, 37(8), 2228–2240. https://doi.org/10.1093/molbev/msaa077

Inferring Tumor Proliferative Organization from Phylogenetic Tree Measures in a Computational Model

Systematic Biology / Oct 29, 2019

Scott, J. G., Maini, P. K., Anderson, A. R. A., & Fletcher, A. G. (2019). Inferring Tumor Proliferative Organization from Phylogenetic Tree Measures in a Computational Model. Systematic Biology, 69(4), 623–637. https://doi.org/10.1093/sysbio/syz070

Molecular Biology and Evolution of Cancer: From Discovery to Action

Molecular Biology and Evolution / Oct 23, 2019

Somarelli, J. A., Gardner, H., Cannataro, V. L., Gunady, E. F., Boddy, A. M., Johnson, N. A., Fisk, J. N., Gaffney, S. G., Chuang, J. H., Li, S., Ciccarelli, F. D., Panchenko, A. R., Megquier, K., Kumar, S., Dornburg, A., DeGregori, J., & Townsend, J. P. (2019). Molecular Biology and Evolution of Cancer: From Discovery to Action. Molecular Biology and Evolution, 37(2), 320–326. https://doi.org/10.1093/molbev/msz242

Modelling microbial infection to address global health challenges

Nature Microbiology / Sep 20, 2019

Fitzpatrick, M. C., Bauch, C. T., Townsend, J. P., & Galvani, A. P. (2019). Modelling microbial infection to address global health challenges. Nature Microbiology, 4(10), 1612–1619. https://doi.org/10.1038/s41564-019-0565-8

APOBEC-induced mutations and their cancer effect size in head and neck squamous cell carcinoma

Oncogene / Jan 15, 2019

Cannataro, V. L., Gaffney, S. G., Sasaki, T., Issaeva, N., Grewal, N. K. S., Grandis, J. R., Yarbrough, W. G., Burtness, B., Anderson, K. S., & Townsend, J. P. (2019). APOBEC-induced mutations and their cancer effect size in head and neck squamous cell carcinoma. Oncogene, 38(18), 3475–3487. https://doi.org/10.1038/s41388-018-0657-6

Wagging the long tail of drivers of prostate cancer

PLOS Genetics / Jan 17, 2019

Cannataro, V. L., & Townsend, J. P. (2019). Wagging the long tail of drivers of prostate cancer. PLOS Genetics, 15(1), e1007820. https://doi.org/10.1371/journal.pgen.1007820

Optimal Rates for Phylogenetic Inference and Experimental Design in the Era of Genome-Scale Data Sets

Systematic Biology / Jun 25, 2018

Dornburg, A., Su, Z., & Townsend, J. P. (2018). Optimal Rates for Phylogenetic Inference and Experimental Design in the Era of Genome-Scale Data Sets. Systematic Biology, 68(1), 145–156. https://doi.org/10.1093/sysbio/syy047

Somatic evolutionary timings of driver mutations

BMC Cancer / Jan 18, 2018

Gomez, K., Miura, S., Huuki, L. A., Spell, B. S., Townsend, J. P., & Kumar, S. (2018). Somatic evolutionary timings of driver mutations. BMC Cancer, 18(1). https://doi.org/10.1186/s12885-017-3977-y

Neutral Theory and the Somatic Evolution of Cancer

Molecular Biology and Evolution / Apr 19, 2018

Cannataro, V. L., & Townsend, J. P. (2018). Neutral Theory and the Somatic Evolution of Cancer. Molecular Biology and Evolution, 35(6), 1308–1315. https://doi.org/10.1093/molbev/msy079

Heterogeneity and mutation in KRAS and associated oncogenes: evaluating the potential for the evolution of resistance to targeting of KRAS G12C

Oncogene / Feb 16, 2018

Cannataro, V. L., Gaffney, S. G., Stender, C., Zhao, Z.-M., Philips, M., Greenstein, A. E., & Townsend, J. P. (2018). Heterogeneity and mutation in KRAS and associated oncogenes: evaluating the potential for the evolution of resistance to targeting of KRAS G12C. Oncogene, 37(18), 2444–2455. https://doi.org/10.1038/s41388-017-0105-z

Light sensing by opsins and fungal ecology: NOP‐1 modulates entry into sexual reproduction in response to environmental cues

Molecular Ecology / Dec 12, 2017

Wang, Z., Wang, J., Li, N., Li, J., Trail, F., Dunlap, J. C., & Townsend, J. P. (2017). Light sensing by opsins and fungal ecology: NOP‐1 modulates entry into sexual reproduction in response to environmental cues. Molecular Ecology, 27(1), 216–232. Portico. https://doi.org/10.1111/mec.14425

Neutral Theory and the Somatic Evolution of Cancer

Molecular Biology and Evolution / May 14, 2018

Neutral Theory and the Somatic Evolution of Cancer. (2018). Molecular Biology and Evolution, 35(6), 1561–1561. https://doi.org/10.1093/molbev/msy100

Detection of Regional Variation in Selection Intensity within Protein-Coding Genes Using DNA Sequence Polymorphism and Divergence

Molecular Biology and Evolution / Jul 28, 2017

Zhao, Z.-M., Campbell, M. C., Li, N., Lee, D. S. W., Zhang, Z., & Townsend, J. P. (2017). Detection of Regional Variation in Selection Intensity within Protein-Coding Genes Using DNA Sequence Polymorphism and Divergence. Molecular Biology and Evolution, 34(11), 3006–3022. https://doi.org/10.1093/molbev/msx213

Distributions of Mutational Effects and the Estimation of Directional Selection in Divergent Lineages of Arabidopsis thaliana

Genetics / Aug 01, 2017

Park, B., Rutter, M. T., Fenster, C. B., Symonds, V. V., Ungerer, M. C., & Townsend, J. P. (2017). Distributions of Mutational Effects and the Estimation of Directional Selection in Divergent Lineages of Arabidopsis thaliana. Genetics, 206(4), 2105–2117. https://doi.org/10.1534/genetics.116.199190

The ancestral levels of transcription and the evolution of sexual phenotypes in filamentous fungi

PLOS Genetics / Jul 13, 2017

Trail, F., Wang, Z., Stefanko, K., Cubba, C., & Townsend, J. P. (2017). The ancestral levels of transcription and the evolution of sexual phenotypes in filamentous fungi. PLOS Genetics, 13(7), e1006867. https://doi.org/10.1371/journal.pgen.1006867

New insights on the sister lineage of percomorph fishes with an anchored hybrid enrichment dataset

Molecular Phylogenetics and Evolution / May 01, 2017

Dornburg, A., Townsend, J. P., Brooks, W., Spriggs, E., Eytan, R. I., Moore, J. A., Wainwright, P. C., Lemmon, A., Lemmon, E. M., & Near, T. J. (2017). New insights on the sister lineage of percomorph fishes with an anchored hybrid enrichment dataset. Molecular Phylogenetics and Evolution, 110, 27–38. https://doi.org/10.1016/j.ympev.2017.02.017

PhyloOncology: Understanding cancer through phylogenetic analysis

Biochimica et Biophysica Acta (BBA) - Reviews on Cancer / Apr 01, 2017

Somarelli, J. A., Ware, K. E., Kostadinov, R., Robinson, J. M., Amri, H., Abu-Asab, M., Fourie, N., Diogo, R., Swofford, D., & Townsend, J. P. (2017). PhyloOncology: Understanding cancer through phylogenetic analysis. Biochimica et Biophysica Acta (BBA) - Reviews on Cancer, 1867(2), 101–108. https://doi.org/10.1016/j.bbcan.2016.10.006

A working model of the deep relationships of diverse modern human genetic lineages outside of Africa

Molecular Biology and Evolution / Jan 10, 2017

Lipson, M., & Reich, D. (2017). A working model of the deep relationships of diverse modern human genetic lineages outside of Africa. Molecular Biology and Evolution, msw293. https://doi.org/10.1093/molbev/msw293

Oncogenes without a neighboring tumor-suppressor gene are more prone to amplification

Molecular Biology and Evolution / Jan 12, 2017

Wu, W. K. K., Li, X., Wang, X., Dai, R. Z. W., Cheng, A. S. L., Wang, M. H. T., Kwong, T., Chow, T. C., Yu, J., Chan, M. T. V., & Wong, S. H. (2017). Oncogenes without a neighboring tumor-suppressor gene are more prone to amplification. Molecular Biology and Evolution, msw295. https://doi.org/10.1093/molbev/msw295

Gene Expression Evolves under a House-of-Cards Model of Stabilizing Selection

Molecular Biology and Evolution / Apr 20, 2015

Hodgins-Davis, A., Rice, D. P., & Townsend, J. P. (2015). Gene Expression Evolves under a House-of-Cards Model of Stabilizing Selection. Molecular Biology and Evolution, 32(8), 2130–2140. https://doi.org/10.1093/molbev/msv094

H-CLAP: hierarchical clustering within a linear array with an application in genetics

Statistical Applications in Genetics and Molecular Biology / Jan 01, 2015

Ghosh, S., & Townsend, J. P. (2015). H-CLAP: hierarchical clustering within a linear array with an application in genetics. Statistical Applications in Genetics and Molecular Biology, 14(2). https://doi.org/10.1515/sagmb-2013-0076

The peopling of the African continent and the diaspora into the new world

Current Opinion in Genetics & Development / Dec 01, 2014

Campbell, M. C., Hirbo, J. B., Townsend, J. P., & Tishkoff, S. A. (2014). The peopling of the African continent and the diaspora into the new world. Current Opinion in Genetics & Development, 29, 120–132. https://doi.org/10.1016/j.gde.2014.09.003

Genome-Wide Characterization of Light-Regulated Genes inNeurospora crassa

G3 Genes|Genomes|Genetics / Sep 01, 2014

Wu, C., Yang, F., Smith, K. M., Peterson, M., Dekhang, R., Zhang, Y., Zucker, J., Bredeweg, E. L., Mallappa, C., Zhou, X., Lyubetskaya, A., Townsend, J. P., Galagan, J. E., Freitag, M., Dunlap, J. C., Bell-Pedersen, D., & Sachs, M. S. (2014). Genome-Wide Characterization of Light-Regulated Genes inNeurospora crassa. G3 Genes|Genomes|Genetics, 4(9), 1731–1745. https://doi.org/10.1534/g3.114.012617

Cellular Superspreaders: An Epidemiological Perspective on HIV Infection inside the Body

PLoS Pathogens / May 08, 2014

Talbert-Slagle, K., Atkins, K. E., Yan, K.-K., Khurana, E., Gerstein, M., Bradley, E. H., Berg, D., Galvani, A. P., & Townsend, J. P. (2014). Cellular Superspreaders: An Epidemiological Perspective on HIV Infection inside the Body. PLoS Pathogens, 10(5), e1004092. https://doi.org/10.1371/journal.ppat.1004092

Response to: The relative utility of sequence divergence and phylogenetic informativeness profiling in phylogenetic study design

Molecular Phylogenetics and Evolution / Jan 01, 2013

Moeller, A. H., & Townsend, J. P. (2013). Response to: The relative utility of sequence divergence and phylogenetic informativeness profiling in phylogenetic study design. Molecular Phylogenetics and Evolution, 66(1), 436. https://doi.org/10.1016/j.ympev.2012.09.035

Phylogenetic Signal and Noise: Predicting the Power of a Data Set to Resolve Phylogeny

Systematic Biology / Mar 03, 2012

Townsend, J. P., Su, Z., & Tekle, Y. I. (2012). Phylogenetic Signal and Noise: Predicting the Power of a Data Set to Resolve Phylogeny. Systematic Biology, 61(5), 835. https://doi.org/10.1093/sysbio/sys036

Resampling QTL Effects in the QTL Sign Test Leads to Incongruous Sensitivity to Variance in Effect Size

G3 Genes|Genomes|Genetics / Aug 01, 2012

Rice, D. P., & Townsend, J. P. (2012). Resampling QTL Effects in the QTL Sign Test Leads to Incongruous Sensitivity to Variance in Effect Size. G3 Genes|Genomes|Genetics, 2(8), 905–911. https://doi.org/10.1534/g3.112.003228

Transcriptome analyses during fruiting body formation in Fusarium graminearum and Fusarium verticillioides reflect species life history and ecology

Fungal Genetics and Biology / Aug 01, 2012

Sikhakolli, U. R., López-Giráldez, F., Li, N., Common, R., Townsend, J. P., & Trail, F. (2012). Transcriptome analyses during fruiting body formation in Fusarium graminearum and Fusarium verticillioides reflect species life history and ecology. Fungal Genetics and Biology, 49(8), 663–673. https://doi.org/10.1016/j.fgb.2012.05.009

Sex-specific gene expression during asexual development of Neurospora crassa

Fungal Genetics and Biology / Jul 01, 2012

Wang, Z., Kin, K., López-Giráldez, F., Johannesson, H., & Townsend, J. P. (2012). Sex-specific gene expression during asexual development of Neurospora crassa. Fungal Genetics and Biology, 49(7), 533–543. https://doi.org/10.1016/j.fgb.2012.05.004

Differential impact of nutrition on developmental and metabolic gene expression during fruiting body development in Neurospora crassa

Fungal Genetics and Biology / May 01, 2012

Wang, Z., Lehr, N., Trail, F., & Townsend, J. P. (2012). Differential impact of nutrition on developmental and metabolic gene expression during fruiting body development in Neurospora crassa. Fungal Genetics and Biology, 49(5), 405–413. https://doi.org/10.1016/j.fgb.2012.03.004

A Test for Selection Employing Quantitative Trait Locus and Mutation Accumulation Data

Genetics / Apr 01, 2012

Rice, D. P., & Townsend, J. P. (2012). A Test for Selection Employing Quantitative Trait Locus and Mutation Accumulation Data. Genetics, 190(4), 1533–1545. https://doi.org/10.1534/genetics.111.137075

Abundant Gene-by-Environment Interactions in Gene Expression Reaction Norms to Copper within Saccharomyces cerevisiae

Genome Biology and Evolution / Jan 01, 2012

Hodgins-Davis, A., Adomas, A. B., Warringer, J., & Townsend, J. P. (2012). Abundant Gene-by-Environment Interactions in Gene Expression Reaction Norms to Copper within Saccharomyces cerevisiae. Genome Biology and Evolution, 4(11), 1061–1079. https://doi.org/10.1093/gbe/evs084

Phylogenetic informativeness profiling of 12 genes for 28 vertebrate taxa without divergence dates

Molecular Phylogenetics and Evolution / Aug 01, 2011

Moeller, A. H., & Townsend, J. P. (2011). Phylogenetic informativeness profiling of 12 genes for 28 vertebrate taxa without divergence dates. Molecular Phylogenetics and Evolution, 60(2), 271–272. https://doi.org/10.1016/j.ympev.2011.04.023

Taxon Sampling and the Optimal Rates of Evolution for Phylogenetic Inference

Systematic Biology / Feb 08, 2011

Townsend, J. P., & Leuenberger, C. (2011). Taxon Sampling and the Optimal Rates of Evolution for Phylogenetic Inference. Systematic Biology, 60(3), 358–365. https://doi.org/10.1093/sysbio/syq097

Northern species of earth tongue genus Thuemenidium revisited, considering morphology, ecology and molecular phylogeny

Mycologia / Sep 01, 2010

Ohenoja, E., Wang, Z., Townsend, J. P., Mitchel, D., & Voitk, A. (2010). Northern species of earth tongue genus Thuemenidium revisited, considering morphology, ecology and molecular phylogeny. Mycologia, 102(5), 1089–1095. https://doi.org/10.3852/09-317

Optimal Selection of Gene and Ingroup Taxon Sampling for Resolving Phylogenetic Relationships

Systematic Biology / May 19, 2010

Townsend, J. P., & Lopez-Giraldez, F. (2010). Optimal Selection of Gene and Ingroup Taxon Sampling for Resolving Phylogenetic Relationships. Systematic Biology, 59(4), 446–457. https://doi.org/10.1093/sysbio/syq025

Identification of new molecular markers for assembling the eukaryotic tree of life

Molecular Phylogenetics and Evolution / Jun 01, 2010

Tekle, Y. I., Grant, J. R., Kovner, A. M., Townsend, J. P., & Katz, L. A. (2010). Identification of new molecular markers for assembling the eukaryotic tree of life. Molecular Phylogenetics and Evolution, 55(3), 1177–1182. https://doi.org/10.1016/j.ympev.2010.03.010

The filamentous fungal gene expression database (FFGED)

Fungal Genetics and Biology / Mar 01, 2010

Zhang, Z., & Townsend, J. P. (2010). The filamentous fungal gene expression database (FFGED). Fungal Genetics and Biology, 47(3), 199–204. https://doi.org/10.1016/j.fgb.2009.12.001

Multi-targeted priming for genome-wide gene expression assays

BMC Genomics / Aug 17, 2010

Adomas, A. B., Lopez-Giraldez, F., Clark, T. A., Wang, Z., & Townsend, J. P. (2010). Multi-targeted priming for genome-wide gene expression assays. BMC Genomics, 11(1). https://doi.org/10.1186/1471-2164-11-477

Maximum-Likelihood Model Averaging To Profile Clustering of Site Types across Discrete Linear Sequences

PLoS Computational Biology / Jun 26, 2009

Zhang, Z., & Townsend, J. P. (2009). Maximum-Likelihood Model Averaging To Profile Clustering of Site Types across Discrete Linear Sequences. PLoS Computational Biology, 5(6), e1000421. https://doi.org/10.1371/journal.pcbi.1000421

Measuring Transcription Factor–Binding Site Turnover: A Maximum Likelihood Approach Using Phylogenies

Genome Biology and Evolution / Jan 01, 2009

Otto, W., Stadler, P. F., López-Giraldéz, F., Townsend, J. P., Lynch, V. J., & Wagner, G. P. (2009). Measuring Transcription Factor–Binding Site Turnover: A Maximum Likelihood Approach Using Phylogenies. Genome Biology and Evolution, 1, 85–98. https://doi.org/10.1093/gbe/evp010

Article Commentary: Snapshots of Tree Space

Evolutionary Bioinformatics / Jan 01, 2009

Wang, Z., López-Giréidez, F., & Townsend, J. P. (2009). Article Commentary: Snapshots of Tree Space. Evolutionary Bioinformatics, 5, EBO.S3416. https://doi.org/10.4137/ebo.s3416

The Phylogenetic Informativeness of Nucleotide and Amino Acid Sequences for Reconstructing the Vertebrate Tree

Journal of Molecular Evolution / Aug 12, 2008

Townsend, J. P., López-Giráldez, F., & Friedman, R. (2008). The Phylogenetic Informativeness of Nucleotide and Amino Acid Sequences for Reconstructing the Vertebrate Tree. Journal of Molecular Evolution, 67(5), 437–447. https://doi.org/10.1007/s00239-008-9142-0

Sleuthing the difference a nucleotide can make

Molecular Ecology / Jun 01, 2008

TOWNSEND, J. P. (2008). Sleuthing the difference a nucleotide can make. Molecular Ecology, 17(12), 2793–2795. https://doi.org/10.1111/j.1365-294x.2008.03824.x

Quantifying variation in gene expression

Molecular Ecology / Jul 01, 2007

CLARK, T. A., & TOWNSEND, J. P. (2007). Quantifying variation in gene expression. Molecular Ecology, 16(13), 2613–2616. https://doi.org/10.1111/j.1365-294x.2007.03354.x

Phase-specific gene expression underlying morphological adaptations of the dimorphic human pathogenic fungus, Coccidioides posadasii

Fungal Genetics and Biology / Aug 01, 2006

Johannesson, H., Kasuga, T., Schaller, R. A., Good, B., Gardner, M. J., Townsend, J. P., Cole, G. T., & Taylor, J. W. (2006). Phase-specific gene expression underlying morphological adaptations of the dimorphic human pathogenic fungus, Coccidioides posadasii. Fungal Genetics and Biology, 43(8), 545–559. https://doi.org/10.1016/j.fgb.2006.02.003

Ecological and evolutionary genomics of Saccharomyces cerevisiae

Molecular Ecology / Feb 23, 2006

LANDRY, C. R., TOWNSEND, J. P., HARTL, D. L., & CAVALIERI, D. (2006). Ecological and evolutionary genomics of Saccharomyces cerevisiae. Molecular Ecology, 15(3), 575–591. https://doi.org/10.1111/j.1365-294x.2006.02778.x

Long-oligomer microarray profiling in Neurospora crassa reveals the transcriptional program underlying biochemical and physiological events of conidial germination

Nucleic Acids Research / Nov 27, 2005

Kasuga, T. (2005). Long-oligomer microarray profiling in Neurospora crassa reveals the transcriptional program underlying biochemical and physiological events of conidial germination. Nucleic Acids Research, 33(20), 6469–6485. https://doi.org/10.1093/nar/gki953

Concerted Evolution in the Repeats of an Immunomodulating Cell Surface Protein, SOWgp, of the Human Pathogenic Fungi Coccidioides immitis and C. posadasii

Genetics / Sep 01, 2005

Johannesson, H., Townsend, J. P., Hung, C.-Y., Cole, G. T., & Taylor, J. W. (2005). Concerted Evolution in the Repeats of an Immunomodulating Cell Surface Protein, SOWgp, of the Human Pathogenic Fungi Coccidioides immitis and C. posadasii. Genetics, 171(1), 109–117. https://doi.org/10.1534/genetics.105.040923

Mitochondrial genome size variation in New World and Old World populations of Drosophila melanogaster

Heredity / May 12, 2004

Townsend, J. P., & Rand, D. M. (2004). Mitochondrial genome size variation in New World and Old World populations of Drosophila melanogaster. Heredity, 93(1), 98–103. https://doi.org/10.1038/sj.hdy.6800484

Population Genetic Variation in Genome-Wide Gene Expression

Molecular Biology and Evolution / Apr 25, 2003

Townsend, J. P. (2003). Population Genetic Variation in Genome-Wide Gene Expression. Molecular Biology and Evolution, 20(6), 955–963. https://doi.org/10.1093/molbev/msg106

`Pathway Processor`: A Tool for Integrating Whole-Genome Expression Results into Metabolic Networks

Genome Research / Jul 01, 2002

Grosu, P., Townsend, J. P., Hartl, D. L., & Cavalieri, D. (2002). <tt>Pathway Processor</tt>: A Tool for Integrating Whole-Genome Expression Results into Metabolic Networks. Genome Research, 12(7), 1121–1126. https://doi.org/10.1101/gr.226602

Solvent Accessibility and Purifying Selection Within Proteins of Escherichia coli and Salmonella enterica

Molecular Biology and Evolution / Feb 01, 2000

Bustamante, C. D., Townsend, J. P., & Hartl, D. L. (2000). Solvent Accessibility and Purifying Selection Within Proteins of Escherichia coli and Salmonella enterica. Molecular Biology and Evolution, 17(2), 301–308. https://doi.org/10.1093/oxfordjournals.molbev.a026310

Diane Imburgio

Most Relevant Research Interests

Other Research Interests (2)

cell biology

microbiology

Diane Imburgio

Most Relevant Research Interests

Other Research Interests (2)

cell biology

microbiology

Edoardo Airoldi

Professor of Statistics & Data Science Temple University & PI, Harvard University

Most Relevant Research Interests

Statistical Machine Learning

Other Research Interests (63)

Statistics

Causal Inference

Network Science

Computational Biology

And 58 more

About

Most Relevant Publications (6+)

106 total publications

Post-transcriptional regulation across human tissues

PLOS Computational Biology / May 08, 2017

Franks, A., Airoldi, E., & Slavov, N. (2017). Post-transcriptional regulation across human tissues. PLOS Computational Biology, 13(5), e1005535. https://doi.org/10.1371/journal.pcbi.1005535

Estimating Selection on Synonymous Codon Usage from Noisy Experimental Data

Molecular Biology and Evolution / Mar 14, 2013

Wallace, E. W. J., Airoldi, E. M., & Drummond, D. A. (2013). Estimating Selection on Synonymous Codon Usage from Noisy Experimental Data. Molecular Biology and Evolution, 30(6), 1438–1453. https://doi.org/10.1093/molbev/mst051

Mapping Dynamic Histone Acetylation Patterns to Gene Expression in Nanog-Depleted Murine Embryonic Stem Cells

PLoS Computational Biology / Dec 16, 2010

Markowetz, F., Mulder, K. W., Airoldi, E. M., Lemischka, I. R., & Troyanskaya, O. G. (2010). Mapping Dynamic Histone Acetylation Patterns to Gene Expression in Nanog-Depleted Murine Embryonic Stem Cells. PLoS Computational Biology, 6(12), e1001034. https://doi.org/10.1371/journal.pcbi.1001034

Accounting for Experimental Noise Reveals That mRNA Levels, Amplified by Post-Transcriptional Processes, Largely Determine Steady-State Protein Levels in Yeast

PLOS Genetics / May 07, 2015

Csárdi, G., Franks, A., Choi, D. S., Airoldi, E. M., & Drummond, D. A. (2015). Accounting for Experimental Noise Reveals That mRNA Levels, Amplified by Post-Transcriptional Processes, Largely Determine Steady-State Protein Levels in Yeast. PLOS Genetics, 11(5), e1005206. https://doi.org/10.1371/journal.pgen.1005206

Predicting Cellular Growth from Gene Expression Signatures

PLoS Computational Biology / Jan 02, 2009

Airoldi, E. M., Huttenhower, C., Gresham, D., Lu, C., Caudy, A. A., Dunham, M. J., Broach, J. R., Botstein, D., & Troyanskaya, O. G. (2009). Predicting Cellular Growth from Gene Expression Signatures. PLoS Computational Biology, 5(1), e1000257. https://doi.org/10.1371/journal.pcbi.1000257

Getting Started in Probabilistic Graphical Models

PLoS Computational Biology / Dec 07, 2007

Airoldi, E. M. (2007). Getting Started in Probabilistic Graphical Models. PLoS Computational Biology, 3(12), e252. https://doi.org/10.1371/journal.pcbi.0030252

Peter Reich

Director of the Institute for Global Change Biology (IGCB)

Most Relevant Research Interests

Other Research Interests (44)

General Earth and Planetary Sciences

Ecology

Ecology, Evolution, Behavior and Systematics

General Environmental Science

And 39 more

About

Most Relevant Publications (7+)

509 total publications

Ectomycorrhizal fungal diversity and saprotrophic fungal diversity are linked to different tree community attributes in a field-based tree experiment

Molecular Ecology / Jul 29, 2016

Nguyen, N. H., Williams, L. J., Vincent, J. B., Stefanski, A., Cavender-Bares, J., Messier, C., Paquette, A., Gravel, D., Reich, P. B., & Kennedy, P. G. (2016). Ectomycorrhizal fungal diversity and saprotrophic fungal diversity are linked to different tree community attributes in a field-based tree experiment. Molecular Ecology, 25(16), 4032–4046. Portico. https://doi.org/10.1111/mec.13719

Responses of two understory herbs,Maianthemum canadenseandEurybia macrophylla, to experimental forest warming: Early emergence is the key to enhanced reproductive output

American Journal of Botany / Oct 01, 2015

Jacques, M.-H., Lapointe, L., Rice, K., Montgomery, R. A., Stefanski, A., & Reich, P. B. (2015). Responses of two understory herbs,Maianthemum canadenseandEurybia macrophylla, to experimental forest warming: Early emergence is the key to enhanced reproductive output. American Journal of Botany, 102(10), 1610–1624. Portico. https://doi.org/10.3732/ajb.1500046

Ectomycorrhizal fungal communities of oak savanna are distinct from forest communities

Mycologia / Jul 01, 2009

Dickie, I. A., Dentinger, B. T. M., Avis, P. G., McLaughlin, D. J., & Reich, P. B. (2009). Ectomycorrhizal fungal communities of oak savanna are distinct from forest communities. Mycologia, 101(4), 473–483. https://doi.org/10.3852/08-178

Interaction of elevated CO2 and O3 on growth, photosynthesis and respiration of three perennial species grown in low and high nitrogen

Physiologia Plantarum / Aug 01, 1996

Volin, J. C., & Reich, P. B. (1996). Interaction of elevated CO2 and O3 on growth, photosynthesis and respiration of three perennial species grown in low and high nitrogen. Physiologia Plantarum, 97(4), 674–684. https://doi.org/10.1034/j.1399-3054.1996.970407.x

Coppicing affects growth, root:shoot relations and ecophysiology of potted Quercus rubra seedlings

Physiologia Plantarum / Dec 01, 1993

Kruger, E. L., & Reich, P. B. (1993). Coppicing affects growth, root:shoot relations and ecophysiology of potted Quercus rubra seedlings. Physiologia Plantarum, 89(4), 751–760. https://doi.org/10.1111/j.1399-3054.1993.tb05281.x

Effects of low concentrations of O3, leaf age and water stress on leaf diffusive conductance and water use efficiency in soybean

Physiologia Plantarum / Jan 01, 1985

Reich, P. B., Schoettle, A. W., & Amundson, R. G. (1985). Effects of low concentrations of O3, leaf age and water stress on leaf diffusive conductance and water use efficiency in soybean. Physiologia Plantarum, 63(1), 58–64. https://doi.org/10.1111/j.1399-3054.1985.tb02818.x

Oscillations in stomatal conductance of hybrid poplar leaves in the light and dark

Physiologia Plantarum / Aug 01, 1984

Reich, P. B. (1984). Oscillations in stomatal conductance of hybrid poplar leaves in the light and dark. Physiologia Plantarum, 61(4), 541–548. https://doi.org/10.1111/j.1399-3054.1984.tb05167.x

Boris Leibovitch

Experienced wet lab and in teaching Molecular Cell biologist, geneticist, cancer biologist in Academia

New York, New York, United States of America

Most Relevant Research Interests

Other Research Interests (11)

Cancer Research

Cell Biology

Developmental Biology

Molecular Biology

And 6 more

About

Most Relevant Publications (9+)

22 total publications

Analyzing Heterochromatin Formation Using Chromosome 4 of Drosophila melanogaster

Cold Spring Harbor Symposia on Quantitative Biology / Jan 01, 2004

HAYNES, K. A., LEIBOVITCH, B. A., RANGWALA, S. H., CRAIG, C., & ELGIN, S. C. R. (2004). Analyzing Heterochromatin Formation Using Chromosome 4 of Drosophila melanogaster. Cold Spring Harbor Symposia on Quantitative Biology, 69(0), 267–272. https://doi.org/10.1101/sqb.2004.69.267

A heat-shock-activated cDNA encoding GAGA factor rescues some lethal mutations in the Drosophila melanogaster Trithorax-like gene

Genetical Research / Aug 01, 2001

GRANOK, H., LEIBOVITCH, B. A., & ELGIN, S. C. R. (2001). A heat-shock-activated cDNA encoding GAGA factor rescues some lethal mutations in the Drosophila melanogaster Trithorax-like gene. Genetical Research, 78(1), 13–21. https://doi.org/10.1017/s0016672301005122

Chromatin organization and transcriptional control of gene expression in Drosophila

Gene / Aug 01, 2000

Farkas, G., Leibovitch, B. A., & Elgin, S. C. R. (2000). Chromatin organization and transcriptional control of gene expression in Drosophila. Gene, 253(2), 117–136. https://doi.org/10.1016/s0378-1119(00)00240-7

Mutations That Affect Ion Channels Change the Sensitivity ofDrosophila Melanogasterto Volatile Anesthetics

Journal of Neurogenetics / Jan 01, 1995

Leibovitch, B. A., Campbell, D. B., Krishnan, K. S., & Nash, H. A. (1995). Mutations That Affect Ion Channels Change the Sensitivity ofDrosophila Melanogasterto Volatile Anesthetics. Journal of Neurogenetics, 10(1), 1–13. https://doi.org/10.3109/01677069509083455

Telomeres and P-element of Drosophila melanogaster contain sequences that replicate autonomously in Saccharomyces cerevisiae

Molecular and General Genetics MGG / Nov 01, 1984

Danilevskaya, O. N., Kurenova, E. V., Leibovitch, B. A., Shevelev, A. Ya., Bass, I. A., & Khesin, R. B. (1984). Telomeres and P-element of Drosophila melanogaster contain sequences that replicate autonomously in Saccharomyces cerevisiae. Molecular and General Genetics MGG, 197(2), 342–344. https://doi.org/10.1007/bf00330983

Increase in the number of histone genes in case of their deficiency in Drosophila melanogaster

Molecular and General Genetics MGG / Jul 01, 1980

Chernyshev, A. I., Bashkirov, V. N., Leibovitch, B. A., & Khesin, R. B. (1980). Increase in the number of histone genes in case of their deficiency in Drosophila melanogaster. Molecular and General Genetics MGG, 178(3), 663–668. https://doi.org/10.1007/bf00337876

Influence of deficiency of the histone gene-containing 38B-40 region on X-chromosome template activity and the White gene position effect variegation in Drosophila melanogaster

Molecular and General Genetics MGG / Jan 01, 1978

Khesin, R. B., & Leibovitch, B. A. (1978). Influence of deficiency of the histone gene-containing 38B-40 region on X-chromosome template activity and the White gene position effect variegation in Drosophila melanogaster. Molecular and General Genetics MGG, 162(3), 323–328. https://doi.org/10.1007/bf00268858

Comparison of in vivo and in vitro RNA synthesis on polytene chromosomes of Drosophila

Chromosoma / Jan 01, 1976

Leibovitch, B. A., Belyaeva, E. S., Zhimulev, I. F., & Khesin, R. B. (1976). Comparison of in vivo and in vitro RNA synthesis on polytene chromosomes of Drosophila. Chromosoma, 54(4), 349–362. https://doi.org/10.1007/bf00292815

Synthesis of RNA by Escherichia coli RNA polymerase on the chromosomes of Drosophila melanogaster

Chromosoma / Jan 01, 1974

Khesin, R. B., & Leibovitch, B. A. (1974). Synthesis of RNA by Escherichia coli RNA polymerase on the chromosomes of Drosophila melanogaster. Chromosoma, 46(2), 161–172. https://doi.org/10.1007/bf00332514

Dona SLEIMAN

After completing my BS in Biochemistry in Beirut, I pursued a master’s degree in Genetics followed by a Master 2 degree in Molecular Engineering. I received my PhD in Biochemistry and Biophysics in 2013 at Paris Descartes University with the highest honors & Committee Praise. Throughout my thesis and post-doctoral experience, I have studied different aspects of protein/nucleic acid interactions using several biophysical techniques.

Paris

Most Relevant Research Interests

synthetic biology, Protein design, Biochemistry

Other Research Interests (8)

Most Relevant Publications (1+)

4 total publications

Cyclic di-AMP regulation of osmotic homeostasis is essential in Group B Streptococcus

PLOS Genetics / Apr 16, 2018

Devaux, L., Sleiman, D., Mazzuoli, M.-V., Gominet, M., Lanotte, P., Trieu-Cuot, P., Kaminski, P.-A., & Firon, A. (2018). Cyclic di-AMP regulation of osmotic homeostasis is essential in Group B Streptococcus. PLOS Genetics, 14(4), e1007342. https://doi.org/10.1371/journal.pgen.1007342

Michael W Harman

Distinguished Subject Matter Expert & Leader in Medical Technologies.

East Greenwich, RI, Rhode Island, United States of America

Most Relevant Research Interests

Bacteria & Cell Bio-Physics

Other Research Interests (16)

About

Most Relevant Publications (2+)

15 total publications

The induction of endoreduplication and polyploidy by elevated expression of 14-3-3γ

Genes & Cancer / Dec 24, 2017

Gomes, C. J., Centuori, S. M., Harman, M. W., Putnam, C. W., Wolgemuth, C. W., & Martinez, J. D. (2017). The induction of endoreduplication and polyploidy by elevated expression of 14-3-3γ. Genes & Cancer, 8(11–12), 771–783. https://doi.org/10.18632/genesandcancer.161

Vinculin in Neutrophil Adhesion, Motility and Trafficking

The FASEB Journal / Apr 01, 2018

Wilson, Z., Harman, M., Hazlett, L., Odzer, J., Witt, H., Franck, C., Reichner, J., & Lefort, C. (2018). Vinculin in Neutrophil Adhesion, Motility and Trafficking. The FASEB Journal, 32(S1). Portico. https://doi.org/10.1096/fasebj.2018.32.1_supplement.280.11

Jennifer Aaker

General Atlantic Professor, Stanford University

Most Relevant Research Interests

Economics and Econometrics

Other Research Interests (38)

The psychology of time

money

and happiness

Marketing

And 33 more

About

Most Relevant Publications (1+)

79 total publications

SPECIAL SYMPOSIUM LECTURE: SIR HANS L. KORNBERG

Advances in Enzyme Regulation / Jan 01, 2002

SPECIAL SYMPOSIUM LECTURE: SIR HANS L. KORNBERG. (2002). Advances in Enzyme Regulation, 42, EX17. https://doi.org/10.1016/s0065-2571(01)00055-3

Dr. Susanne Ressl

Biochemist & Structural Biologist | Project & Team Leader | Creative & Translational Thinker | Problem Solver | Mentor | Educator | Consultant | Innovator | Science Communicator & Writer | Relationship Builder | Collaborator

Most Relevant Research Interests

Structural Neuroscience of Synapse Organizing Molecules

Other Research Interests (43)

Most Relevant Publications (2+)

20 total publications

Loss of Pseudouridine Synthases in the RluA Family Causes Hypersensitive Nociception inDrosophila

G3 Genes|Genomes|Genetics / Dec 01, 2020

Song, W., Ressl, S., & Tracey, W. D. (2020). Loss of Pseudouridine Synthases in the RluA Family Causes Hypersensitive Nociception inDrosophila. G3 Genes|Genomes|Genetics, 10(12), 4425–4438. https://doi.org/10.1534/g3.120.401767

C1QL3 promotes cell‐cell adhesion by mediating complex formation between ADGRB3/BAI3 and neuronal pentraxins

The FASEB Journal / Dec 18, 2020

Sticco, M. J., Peña Palomino, P. A., Lukacsovich, D., Thompson, B. L., Földy, C., Ressl, S., & Martinelli, D. C. (2020). C1QL3 promotes cell‐cell adhesion by mediating complex formation between ADGRB3/BAI3 and neuronal pentraxins. The FASEB Journal, 35(1). Portico. https://doi.org/10.1096/fj.202000351rr

Katelyn Katelyn Masiuk

Co-Founder and CSO at Immunovec

Most Relevant Research Interests

Other Research Interests (23)

About

Most Relevant Publications (5+)

13 total publications

Editing the Sickle Cell Disease Mutation in Human Hematopoietic Stem Cells: Comparison of Endonucleases and Homologous Donor Templates

Molecular Therapy / Aug 01, 2019

Romero, Z., Lomova, A., Said, S., Miggelbrink, A., Kuo, C. Y., Campo-Fernandez, B., Hoban, M. D., Masiuk, K. E., Clark, D. N., Long, J., Sanchez, J. M., Velez, M., Miyahira, E., Zhang, R., Brown, D., Wang, X., Kurmangaliyev, Y. Z., Hollis, R. P., & Kohn, D. B. (2019). Editing the Sickle Cell Disease Mutation in Human Hematopoietic Stem Cells: Comparison of Endonucleases and Homologous Donor Templates. Molecular Therapy, 27(8), 1389–1406. https://doi.org/10.1016/j.ymthe.2019.05.014

Lentiviral Gene Therapy in HSCs Restores Lineage-Specific Foxp3 Expression and Suppresses Autoimmunity in a Mouse Model of IPEX Syndrome

Cell Stem Cell / Feb 01, 2019

Masiuk, K. E., Laborada, J., Roncarolo, M. G., Hollis, R. P., & Kohn, D. B. (2019). Lentiviral Gene Therapy in HSCs Restores Lineage-Specific Foxp3 Expression and Suppresses Autoimmunity in a Mouse Model of IPEX Syndrome. Cell Stem Cell, 24(2), 309-317.e7. https://doi.org/10.1016/j.stem.2018.12.003

PGE2 and Poloxamer Synperonic F108 Enhance Transduction of Human HSPCs with a β-Globin Lentiviral Vector

Molecular Therapy - Methods & Clinical Development / Jun 01, 2019

Masiuk, K. E., Zhang, R., Osborne, K., Hollis, R. P., Campo-Fernandez, B., & Kohn, D. B. (2019). PGE2 and Poloxamer Synperonic F108 Enhance Transduction of Human HSPCs with a β-Globin Lentiviral Vector. Molecular Therapy - Methods & Clinical Development, 13, 390–398. https://doi.org/10.1016/j.omtm.2019.03.005

Improving Gene Therapy Efficiency through the Enrichment of Human Hematopoietic Stem Cells

Molecular Therapy / Sep 01, 2017

Masiuk, K. E., Brown, D., Laborada, J., Hollis, R. P., Urbinati, F., & Kohn, D. B. (2017). Improving Gene Therapy Efficiency through the Enrichment of Human Hematopoietic Stem Cells. Molecular Therapy, 25(9), 2163–2175. https://doi.org/10.1016/j.ymthe.2017.05.023

Gene Therapy for Sickle Cell Disease:A Lentiviral Vector Comparison Study

Human Gene Therapy / Oct 01, 2018

Urbinati, F., Campo Fernandez, B., Masiuk, K. E., Poletti, V., Hollis, R. P., Koziol, C., Kaufman, M. L., Brown, D., Mavilio, F., & Kohn, D. B. (2018). Gene Therapy for Sickle Cell Disease:A Lentiviral Vector Comparison Study. Human Gene Therapy, 29(10), 1153–1166. https://doi.org/10.1089/hum.2018.061

John Joe

Faculty of Health and Medical Sciences, University of Surrey, Guildford, UK

Most Relevant Research Interests

Management of Technology and Innovation

Other Research Interests (72)

microbiology

systems biology

quantum biology

General Medicine

And 67 more

Most Relevant Publications (4+)

95 total publications

Sequence and characteristics or IS900, an insertion element identified in a human Crohn's disease isolate orMycobacterium paratuberculosis

Nucleic Acids Research / Jan 01, 1989

Green, E. P., Tizard, M. L. V., Moss, M. T., Thompson, J., Winterbourne, D. J., McFadden, J. J., & Hermon-Taylor, J. (1989). Sequence and characteristics or IS900, an insertion element identified in a human Crohn’s disease isolate orMycobacterium paratuberculosis. Nucleic Acids Research, 17(22), 9063–9073. https://doi.org/10.1093/nar/17.22.9063

13C Metabolic Flux Analysis Identifies an Unusual Route for Pyruvate Dissimilation in Mycobacteria which Requires Isocitrate Lyase and Carbon Dioxide Fixation

PLoS Pathogens / Jul 21, 2011

Beste, D. J. V., Bonde, B., Hawkins, N., Ward, J. L., Beale, M. H., Noack, S., Nöh, K., Kruger, N. J., Ratcliffe, R. G., & McFadden, J. (2011). 13C Metabolic Flux Analysis Identifies an Unusual Route for Pyruvate Dissimilation in Mycobacteria which Requires Isocitrate Lyase and Carbon Dioxide Fixation. PLoS Pathogens, 7(7), e1002091. https://doi.org/10.1371/journal.ppat.1002091

Differential Producibility Analysis (DPA) of Transcriptomic Data with Metabolic Networks: Deconstructing the Metabolic Response of M. tuberculosis

PLoS Computational Biology / Jun 30, 2011

Bonde, B. K., Beste, D. J. V., Laing, E., Kierzek, A. M., & McFadden, J. (2011). Differential Producibility Analysis (DPA) of Transcriptomic Data with Metabolic Networks: Deconstructing the Metabolic Response of M. tuberculosis. PLoS Computational Biology, 7(6), e1002060. https://doi.org/10.1371/journal.pcbi.1002060

Transposon libraries identify novel Mycobacterium bovis BCG genes involved in the dynamic interactions required for BCG to persist during in vivo passage in cattle

BMC Genomics / May 28, 2019

Mendum, T. A., Chandran, A., Williams, K., Vordermeier, H. M., Villarreal-Ramos, B., Wu, H., Singh, A., Smith, A. A., Butler, R. E., Prasad, A., Bharti, N., Banerjee, R., Kasibhatla, S. M., Bhatt, A., Stewart, G. R., & McFadden, J. (2019). Transposon libraries identify novel Mycobacterium bovis BCG genes involved in the dynamic interactions required for BCG to persist during in vivo passage in cattle. BMC Genomics, 20(1). https://doi.org/10.1186/s12864-019-5791-1

Anna Koster

Most Relevant Research Interests

Other Research Interests (11)

Computational Theory and Mathematics

Cellular and Molecular Neuroscience

Molecular Biology

And 6 more

Most Relevant Publications (1+)

4 total publications

Dynamical model of the CLC-2 ion channel reveals conformational changes associated with selectivity-filter gating

PLOS Computational Biology / Mar 30, 2020

McKiernan, K. A., Koster, A. K., Maduke, M., & Pande, V. S. (2020). Dynamical model of the CLC-2 ion channel reveals conformational changes associated with selectivity-filter gating. PLOS Computational Biology, 16(3), e1007530. https://doi.org/10.1371/journal.pcbi.1007530

Marina Baretti

I am a clinical translational researcher in gastrointestinal (GI) oncology, collaborating closely with laboratory-based researchers to move laboratory findings into patients and to answer important clinical questions.

Baltimore, Maryland, United States of America

Most Relevant Research Interests

Other Research Interests (19)

Oncology

Pharmacology (medical)

About

Most Relevant Publications (1+)

57 total publications

A randomized, phase II trial of oral azacitidine (CC-486) in patients with resected pancreatic adenocarcinoma at high risk for recurrence

Clinical Epigenetics / Dec 01, 2022

Heumann, T. R., Baretti, M., Sugar, E. A., Durham, J. N., Linden, S., Lopez-Vidal, T. Y., Leatherman, J., Cope, L., Sharma, A., Weekes, C. D., O’Dwyer, P. J., Reiss, K. A., Monga, D. K., Ahuja, N., & Azad, N. S. (2022). A randomized, phase II trial of oral azacitidine (CC-486) in patients with resected pancreatic adenocarcinoma at high risk for recurrence. Clinical Epigenetics, 14(1). https://doi.org/10.1186/s13148-022-01367-8

Mehrdad Sheikhvatan

Iran University of Medical Sciences

Most Relevant Research Interests

Obstetrics and Gynecology

Other Research Interests (58)

Molecular Cardiogenetic

Most Relevant Publications (1+)

90 total publications

Integrin Beta-3 Gene Polymorphism and Risk for Myocardial Infarction in Premature Coronary Disease

Iranian Journal of Biotechnology / Jun 01, 2019

Sheikhvatan, M., boroumand, M. A., Behmanesh, M., Ziaee, S., & Cheraghee, S. (2019). Integrin Beta-3 Gene Polymorphism and Risk for Myocardial Infarction in Premature Coronary Disease. Iranian Journal of Biotechnology, 17(2), 79–88. https://doi.org/10.21859/ijb.1921

Daniel Milej, Ph.D.

Ph.D. in biomedical engineering

London, Ontario, Canada

Most Relevant Research Interests

Diffuse Correlation Spectroscopy

Other Research Interests (40)

Biomedical Optics

NIRS

fNIRS

CBF

And 35 more

About

Most Relevant Publications (1+)

91 total publications

Assessment by Multi‐Distance Hyperspectral NIRS of Changes in the Oxidation State of Cytochrome C Oxidase (oxCCO) to Carotid Artery Compressions

The FASEB Journal / May 01, 2022

Shoemaker, L., Suwalski, M., Milej, D., Shoemaker, J. K., Chui, J., & St. Lawrence, K. (2022). Assessment by Multi‐Distance Hyperspectral NIRS of Changes in the Oxidation State of Cytochrome C Oxidase (oxCCO) to Carotid Artery Compressions. The FASEB Journal, 36(S1). Portico. https://doi.org/10.1096/fasebj.2022.36.s1.r3459

Patrick G. Grant, Ph.D.

Multi Discipline Experience with Multiple Open Inovation Solutions

California

Most Relevant Research Interests

Other Research Interests (42)