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Showing 1 to 12 of 51 entries
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Corrigendum: Classification and characterization of microsatellite instability across 18 cancer types.

Nature medicine

Hause RJ, Pritchard CC, Shendure J, Salipante SJ.
PMID: 28985213
Nat Med. 2017 Oct 06;23(10):1241. doi: 10.1038/nm1017-1241a.

This corrects the article DOI: 10.1038/nm.4191.

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Hause RJ, Pritchard CC, Shendure J, et al. Corrigendum: Classification and characterization of microsatellite instability across 18 cancer types. Nat Med. 2017;23(10):1241doi: 10.1038/nm1017-1241a.
Hause, R. J., Pritchard, C. C., Shendure, J., & Salipante, S. J. (2017). Corrigendum: Classification and characterization of microsatellite instability across 18 cancer types. Nature medicine, 23(10), 1241. https://doi.org/10.1038/nm1017-1241a
Hause, Ronald J, et al. "Corrigendum: Classification and characterization of microsatellite instability across 18 cancer types." Nature medicine vol. 23,10 (2017): 1241. doi: https://doi.org/10.1038/nm1017-1241a
Hause RJ, Pritchard CC, Shendure J, Salipante SJ. Corrigendum: Classification and characterization of microsatellite instability across 18 cancer types. Nat Med. 2017 Oct 06;23(10):1241. doi: 10.1038/nm1017-1241a. PMID: 28985213.
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Jetting of a shear banding fluid in rectangular ducts.

Physical review fluids

Salipante PF, Little CAE, Hudson SD.
PMID: 28691108
Phys Rev Fluids. 2017 Mar;2(3). doi: 10.1103/PhysRevFluids.2.033302. Epub 2017 Mar 14.

Non-Newtonian fluids are susceptible to flow instabilities such as shear banding, in which the fluid may exhibit a markedly discontinuous viscosity at a critical stress. Here we report the characteristics and causes of a jetting flow instability of shear...

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Salipante PF, Little CAE, Hudson SD. Jetting of a shear banding fluid in rectangular ducts. Phys Rev Fluids. 2017;2(3)doi: 10.1103/PhysRevFluids.2.033302.
Salipante, P. F., Little, C. A. E., & Hudson, S. D. (2017). Jetting of a shear banding fluid in rectangular ducts. Physical review fluids, 2(3), . https://doi.org/10.1103/PhysRevFluids.2.033302
Salipante, Paul F, et al. "Jetting of a shear banding fluid in rectangular ducts." Physical review fluids vol. 2,3 (2017). doi: https://doi.org/10.1103/PhysRevFluids.2.033302
Salipante PF, Little CAE, Hudson SD. Jetting of a shear banding fluid in rectangular ducts. Phys Rev Fluids. 2017 Mar;2(3). doi: 10.1103/PhysRevFluids.2.033302. Epub 2017 Mar 14. PMID: 28691108; PMCID: PMC5497526.
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Flow Resistance and Structures in Viscoelastic Channel Flows at Low Re.

Physical review letters

Qin B, Salipante PF, Hudson SD, Arratia PE.
PMID: 31765176
Phys Rev Lett. 2019 Nov 08;123(19):194501. doi: 10.1103/PhysRevLett.123.194501.

The flow of viscoelastic fluids in channels and pipes remains poorly understood, particularly at low Reynolds numbers. Here, we investigate the flow of polymeric solutions in straight channels using pressure measurements and particle tracking. The flow friction factor f_{η}...

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Qin B, Salipante PF, Hudson SD, et al. Flow Resistance and Structures in Viscoelastic Channel Flows at Low Re. Phys Rev Lett. 2019;123(19):194501doi: 10.1103/PhysRevLett.123.194501.
Qin, B., Salipante, P. F., Hudson, S. D., & Arratia, P. E. (2019). Flow Resistance and Structures in Viscoelastic Channel Flows at Low Re. Physical review letters, 123(19), 194501. https://doi.org/10.1103/PhysRevLett.123.194501
Qin, Boyang, et al. "Flow Resistance and Structures in Viscoelastic Channel Flows at Low Re." Physical review letters vol. 123,19 (2019): 194501. doi: https://doi.org/10.1103/PhysRevLett.123.194501
Qin B, Salipante PF, Hudson SD, Arratia PE. Flow Resistance and Structures in Viscoelastic Channel Flows at Low Re. Phys Rev Lett. 2019 Nov 08;123(19):194501. doi: 10.1103/PhysRevLett.123.194501. PMID: 31765176; PMCID: PMC7020605.
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Blood vessel-on-a-chip examines the biomechanics of microvasculature.

Soft matter

Salipante PF, Hudson SD, Alimperti S.
PMID: 34816867
Soft Matter. 2021 Nov 24; doi: 10.1039/d1sm01312b. Epub 2021 Nov 24.

We use a three-dimensional (3D) microvascular platform to measure the elasticity and membrane permeability of the endothelial cell layer. The microfluidic platform is connected with a pneumatic pressure controller to apply hydrostatic pressure. The deformation is measured by tracking...

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Salipante PF, Hudson SD, Alimperti S. Blood vessel-on-a-chip examines the biomechanics of microvasculature. Soft Matter. 2021;doi: 10.1039/d1sm01312b.
Salipante, P. F., Hudson, S. D., & Alimperti, S. (2021). Blood vessel-on-a-chip examines the biomechanics of microvasculature. Soft matter, . https://doi.org/10.1039/d1sm01312b
Salipante, Paul F, et al. "Blood vessel-on-a-chip examines the biomechanics of microvasculature." Soft matter vol. (2021). doi: https://doi.org/10.1039/d1sm01312b
Salipante PF, Hudson SD, Alimperti S. Blood vessel-on-a-chip examines the biomechanics of microvasculature. Soft Matter. 2021 Nov 24; doi: 10.1039/d1sm01312b. Epub 2021 Nov 24. PMID: 34816867.
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Genomic attributes of homology-directed DNA repair deficiency in metastatic prostate cancer.

JCI insight

De Sarkar N, Dasgupta S, Chatterjee P, Coleman I, Ha G, Ang LS, Kohlbrenner EA, Frank SB, Nunez TA, Salipante SJ, Corey E, Morrissey C, Van Allen E, Schweizer MT, Haffner MC, Patel R, Hanratty B, Lucas JM, Dumpit RF, Pritchard CC, Montgomery RB, Nelson PS.
PMID: 34877933
JCI Insight. 2021 Dec 08;6(23). doi: 10.1172/jci.insight.152789.

Cancers with homology-directed DNA repair (HRR) deficiency exhibit high response rates to poly(ADP-ribose) polymerase inhibitors (PARPi) and platinum chemotherapy. Though mutations disrupting BRCA1 and BRCA2 associate with HRR deficiency (HRRd), patterns of genomic aberrations and mutation signatures may be...

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De Sarkar N, Dasgupta S, Chatterjee P, et al. Genomic attributes of homology-directed DNA repair deficiency in metastatic prostate cancer. JCI Insight. 2021;6(23)doi: 10.1172/jci.insight.152789.
De Sarkar, N., Dasgupta, S., Chatterjee, P., Coleman, I., Ha, G., Ang, L. S., Kohlbrenner, E. A., Frank, S. B., Nunez, T. A., Salipante, S. J., Corey, E., Morrissey, C., Van Allen, E., Schweizer, M. T., Haffner, M. C., Patel, R., Hanratty, B., Lucas, J. M., Dumpit, R. F., Pritchard, C. C., Montgomery, R. B., & Nelson, P. S. (2021). Genomic attributes of homology-directed DNA repair deficiency in metastatic prostate cancer. JCI insight, 6(23), . https://doi.org/10.1172/jci.insight.152789
De Sarkar, Navonil, et al. "Genomic attributes of homology-directed DNA repair deficiency in metastatic prostate cancer." JCI insight vol. 6,23 (2021). doi: https://doi.org/10.1172/jci.insight.152789
De Sarkar N, Dasgupta S, Chatterjee P, Coleman I, Ha G, Ang LS, Kohlbrenner EA, Frank SB, Nunez TA, Salipante SJ, Corey E, Morrissey C, Van Allen E, Schweizer MT, Haffner MC, Patel R, Hanratty B, Lucas JM, Dumpit RF, Pritchard CC, Montgomery RB, Nelson PS. Genomic attributes of homology-directed DNA repair deficiency in metastatic prostate cancer. JCI Insight. 2021 Dec 08;6(23). doi: 10.1172/jci.insight.152789. PMID: 34877933.
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Characterizing the molecular composition and diagnostic potential of Mycobacterium tuberculosis urinary cell-free DNA using next-generation sequencing.

International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases

Oreskovic A, Waalkes A, Holmes EA, Rosenthal CA, Wilson DPK, Shapiro AE, Drain PK, Lutz BR, Salipante SJ.
PMID: 34562627
Int J Infect Dis. 2021 Nov;112:330-337. doi: 10.1016/j.ijid.2021.09.042. Epub 2021 Sep 22.

BACKGROUND: Urine cell-free DNA (cfDNA) is an attractive target for diagnosing pulmonary Mycobacterium tuberculosis (MTB) infection, but has not been thoroughly characterized as a biomarker.METHODS: This study was performed to investigate the size and composition of urine cfDNA from...

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Oreskovic A, Waalkes A, Holmes EA, et al. Characterizing the molecular composition and diagnostic potential of Mycobacterium tuberculosis urinary cell-free DNA using next-generation sequencing. Int J Infect Dis. 2021;112:330-337doi: 10.1016/j.ijid.2021.09.042.
Oreskovic, A., Waalkes, A., Holmes, E. A., Rosenthal, C. A., Wilson, D. P. K., Shapiro, A. E., Drain, P. K., Lutz, B. R., & Salipante, S. J. (2021). Characterizing the molecular composition and diagnostic potential of Mycobacterium tuberculosis urinary cell-free DNA using next-generation sequencing. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases, 112330-337. https://doi.org/10.1016/j.ijid.2021.09.042
Oreskovic, Amy, et al. "Characterizing the molecular composition and diagnostic potential of Mycobacterium tuberculosis urinary cell-free DNA using next-generation sequencing." International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases vol. 112 (2021): 330-337. doi: https://doi.org/10.1016/j.ijid.2021.09.042
Oreskovic A, Waalkes A, Holmes EA, Rosenthal CA, Wilson DPK, Shapiro AE, Drain PK, Lutz BR, Salipante SJ. Characterizing the molecular composition and diagnostic potential of Mycobacterium tuberculosis urinary cell-free DNA using next-generation sequencing. Int J Infect Dis. 2021 Nov;112:330-337. doi: 10.1016/j.ijid.2021.09.042. Epub 2021 Sep 22. PMID: 34562627; PMCID: PMC8627387.
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Erratum for Penewit et al., "Efficient and Scalable Precision Genome Editing in Staphylococcus aureus through Conditional Recombineering and CRISPR/Cas9-Mediated Counterselection".

mBio

Penewit K, Holmes EA, McLean K, Ren M, Waalkes A, Salipante SJ.
PMID: 30647160
mBio. 2019 Jan 15;10(1). doi: 10.1128/mBio.02698-18.

No abstract available.

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Penewit K, Holmes EA, McLean K, et al. Erratum for Penewit et al., "Efficient and Scalable Precision Genome Editing in Staphylococcus aureus through Conditional Recombineering and CRISPR/Cas9-Mediated Counterselection". mBio. 2019;10(1)doi: 10.1128/mBio.02698-18.
Penewit, K., Holmes, E. A., McLean, K., Ren, M., Waalkes, A., & Salipante, S. J. (2019). Erratum for Penewit et al., "Efficient and Scalable Precision Genome Editing in Staphylococcus aureus through Conditional Recombineering and CRISPR/Cas9-Mediated Counterselection". mBio, 10(1), . https://doi.org/10.1128/mBio.02698-18
Penewit, Kelsi, et al. "Erratum for Penewit et al., "Efficient and Scalable Precision Genome Editing in Staphylococcus aureus through Conditional Recombineering and CRISPR/Cas9-Mediated Counterselection"." mBio vol. 10,1 (2019). doi: https://doi.org/10.1128/mBio.02698-18
Penewit K, Holmes EA, McLean K, Ren M, Waalkes A, Salipante SJ. Erratum for Penewit et al., "Efficient and Scalable Precision Genome Editing in Staphylococcus aureus through Conditional Recombineering and CRISPR/Cas9-Mediated Counterselection". mBio. 2019 Jan 15;10(1). doi: 10.1128/mBio.02698-18. PMID: 30647160; PMCID: PMC6336427.
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Whole Genome Sequencing of Peruvian .

Open forum infectious diseases

Roach D, Waalkes A, Abanto J, Zunt J, Cucho C, Soria J, Salipante SJ.
PMID: 32760750
Open Forum Infect Dis. 2020 Jul 02;7(8):ofaa266. doi: 10.1093/ofid/ofaa266. eCollection 2020 Aug.

METHODS: In this study, using whole genome sequencing, we show that 3 distinct lineages encompass almost all CRKP identified in the hospital where it was first reported in Peru.RESULTS: The most prevalent lineage, ST348, has not been described outside...

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Roach D, Waalkes A, Abanto J, et al. Whole Genome Sequencing of Peruvian . Open Forum Infect Dis. 2020;7(8):ofaa266doi: 10.1093/ofid/ofaa266.
Roach, D., Waalkes, A., Abanto, J., Zunt, J., Cucho, C., Soria, J., & Salipante, S. J. (2020). Whole Genome Sequencing of Peruvian . Open forum infectious diseases, 7(8), ofaa266. https://doi.org/10.1093/ofid/ofaa266
Roach, David, et al. "Whole Genome Sequencing of Peruvian ." Open forum infectious diseases vol. 7,8 (2020): ofaa266. doi: https://doi.org/10.1093/ofid/ofaa266
Roach D, Waalkes A, Abanto J, Zunt J, Cucho C, Soria J, Salipante SJ. Whole Genome Sequencing of Peruvian . Open Forum Infect Dis. 2020 Jul 02;7(8):ofaa266. doi: 10.1093/ofid/ofaa266. eCollection 2020 Aug. PMID: 32760750; PMCID: PMC7395672.
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Three-dimensional structures and symmetry breaking in viscoelastic cross-channel flow.

Soft matter

Qin B, Ran R, Salipante PF, Hudson SD, Arratia PE.
PMID: 32525504
Soft Matter. 2020 Aug 14;16(30):6969-6974. doi: 10.1039/d0sm00555j. Epub 2020 Jun 11.

Using holographic particle tracking, we report the three-dimensional flow structure organizing the viscoelastic instability in cross-channel flow. Beyond a critical Wi, the advective core flow undergoes an out-of-plane instability marked by the emergence of tertiary flow, resembling that of...

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Qin B, Ran R, Salipante PF, et al. Three-dimensional structures and symmetry breaking in viscoelastic cross-channel flow. Soft Matter. 2020;16(30):6969-6974doi: 10.1039/d0sm00555j.
Qin, B., Ran, R., Salipante, P. F., Hudson, S. D., & Arratia, P. E. (2020). Three-dimensional structures and symmetry breaking in viscoelastic cross-channel flow. Soft matter, 16(30), 6969-6974. https://doi.org/10.1039/d0sm00555j
Qin, Boyang, et al. "Three-dimensional structures and symmetry breaking in viscoelastic cross-channel flow." Soft matter vol. 16,30 (2020): 6969-6974. doi: https://doi.org/10.1039/d0sm00555j
Qin B, Ran R, Salipante PF, Hudson SD, Arratia PE. Three-dimensional structures and symmetry breaking in viscoelastic cross-channel flow. Soft Matter. 2020 Aug 14;16(30):6969-6974. doi: 10.1039/d0sm00555j. Epub 2020 Jun 11. PMID: 32525504; PMCID: PMC7799373.
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Neutrophilic inflammation in gallbladder carcinoma correlates with patient survival: A case-control study.

Annals of diagnostic pathology

Bosch DE, Salipante SJ, Schmidt RA, Swanson PE, Bryan A, SenGupta DJ, Truong CD, Yeh MM.
PMID: 34763224
Ann Diagn Pathol. 2021 Oct 30;56:151845. doi: 10.1016/j.anndiagpath.2021.151845. Epub 2021 Oct 30.

Gallbladder carcinoma is an uncommon malignancy with an overall 5-year survival of less than 5%. Gallbladder carcinoma has been strongly linked with cholelithiasis and chronic inflammation. Case reports and series have described cholecystitis with acute (neutrophilic) inflammation in association...

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Bosch DE, Salipante SJ, Schmidt RA, et al. Neutrophilic inflammation in gallbladder carcinoma correlates with patient survival: A case-control study. Ann Diagn Pathol. 2021;56:151845doi: 10.1016/j.anndiagpath.2021.151845.
Bosch, D. E., Salipante, S. J., Schmidt, R. A., Swanson, P. E., Bryan, A., SenGupta, D. J., Truong, C. D., & Yeh, M. M. (2021). Neutrophilic inflammation in gallbladder carcinoma correlates with patient survival: A case-control study. Annals of diagnostic pathology, 56151845. https://doi.org/10.1016/j.anndiagpath.2021.151845
Bosch, Dustin E, et al. "Neutrophilic inflammation in gallbladder carcinoma correlates with patient survival: A case-control study." Annals of diagnostic pathology vol. 56 (2021): 151845. doi: https://doi.org/10.1016/j.anndiagpath.2021.151845
Bosch DE, Salipante SJ, Schmidt RA, Swanson PE, Bryan A, SenGupta DJ, Truong CD, Yeh MM. Neutrophilic inflammation in gallbladder carcinoma correlates with patient survival: A case-control study. Ann Diagn Pathol. 2021 Oct 30;56:151845. doi: 10.1016/j.anndiagpath.2021.151845. Epub 2021 Oct 30. PMID: 34763224.
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A population-level strain genotyping method to study pathogen strain dynamics in human infections.

JCI insight

Morgan SJ, Durfey SL, Ravishankar S, Jorth P, Ni W, Skerrett DT, Aitken ML, McKone EF, Salipante SJ, Radey MC, Singh PK.
PMID: 34935640
JCI Insight. 2021 Dec 22;6(24). doi: 10.1172/jci.insight.152472.

A hallmark of chronic bacterial infections is the long-term persistence of 1 or more pathogen species at the compromised site. Repeated detection of the same bacterial species can suggest that a single strain or lineage is continually present. However,...

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Morgan SJ, Durfey SL, Ravishankar S, et al. A population-level strain genotyping method to study pathogen strain dynamics in human infections. JCI Insight. 2021;6(24)doi: 10.1172/jci.insight.152472.
Morgan, S. J., Durfey, S. L., Ravishankar, S., Jorth, P., Ni, W., Skerrett, D. T., Aitken, M. L., McKone, E. F., Salipante, S. J., Radey, M. C., & Singh, P. K. (2021). A population-level strain genotyping method to study pathogen strain dynamics in human infections. JCI insight, 6(24), . https://doi.org/10.1172/jci.insight.152472
Morgan, Sarah J, et al. "A population-level strain genotyping method to study pathogen strain dynamics in human infections." JCI insight vol. 6,24 (2021). doi: https://doi.org/10.1172/jci.insight.152472
Morgan SJ, Durfey SL, Ravishankar S, Jorth P, Ni W, Skerrett DT, Aitken ML, McKone EF, Salipante SJ, Radey MC, Singh PK. A population-level strain genotyping method to study pathogen strain dynamics in human infections. JCI Insight. 2021 Dec 22;6(24). doi: 10.1172/jci.insight.152472. PMID: 34935640.
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Entrance effects and high shear rate rheology of shear banding wormlike micelle fluids in a microcapillary flow.

Journal of rheology

Salipante PF, Dharmaraj V, Hudson SD.
PMID: 33071392
J Rheol (N Y N Y). 2020;64(3).

The viscosity of a shear-banding wormlike micelle solution at high shear rates is investigated using capillary rheology and particle streak velocimetry. Measurements of the flow profile and pressure gradient show an extended entrance region, which exceeds a length to...

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Salipante PF, Dharmaraj V, Hudson SD. Entrance effects and high shear rate rheology of shear banding wormlike micelle fluids in a microcapillary flow. J Rheol (N Y N Y). 2020;64(3)
Salipante, P. F., Dharmaraj, V., & Hudson, S. D. (2020). Entrance effects and high shear rate rheology of shear banding wormlike micelle fluids in a microcapillary flow. Journal of rheology, 64(3), .
Salipante, Paul F, et al. "Entrance effects and high shear rate rheology of shear banding wormlike micelle fluids in a microcapillary flow." Journal of rheology vol. 64,3 (2020).
Salipante PF, Dharmaraj V, Hudson SD. Entrance effects and high shear rate rheology of shear banding wormlike micelle fluids in a microcapillary flow. J Rheol (N Y N Y). 2020;64(3). PMID: 33071392; PMCID: PMC7558433.
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Showing 1 to 12 of 51 entries