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The Nesvizhskii Lab

Advancing Proteomics, one spectrum at a time. Proteomics and Integrative Bioinformatics Lab. Alexey I. Nesvizhskii, Ph.D. Department of Computational Medicine and Bioinformatics. Director, Proteomics Resource Facility. University of Michigan, Ann Arbor, Michigan. More information about the lab: ABOUT THE LAB. Bioinformatics tools and resources we developed: SOFTWARE. Proteomics Resource Facility: PRF. Current and former lab members: MEMBERS. News in the lab or about the lab: NEWS. For more news see: NEWS.

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CONTACTS AT NESVILAB.ORG

Alexey Nesvizhskii

1301 ●●●●●erine

Ann●●●bor , MI, 48109

US

1.73●●●●3516
an●●●●@yahoo.com

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Alexey Nesvizhskii

1301 ●●●●●erine

Ann●●●bor , MI, 48109

US

1.73●●●●3516
an●●●●@yahoo.com

View this contact

Alexey Nesvizhskii

1301 ●●●●●erine

Ann●●●bor , MI, 48109

US

1.73●●●●3516
an●●●●@yahoo.com

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The Nesvizhskii Lab | nesvilab.org Reviews
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Advancing Proteomics, one spectrum at a time. Proteomics and Integrative Bioinformatics Lab. Alexey I. Nesvizhskii, Ph.D. Department of Computational Medicine and Bioinformatics. Director, Proteomics Resource Facility. University of Michigan, Ann Arbor, Michigan. More information about the lab: ABOUT THE LAB. Bioinformatics tools and resources we developed: SOFTWARE. Proteomics Resource Facility: PRF. Current and former lab members: MEMBERS. News in the lab or about the lab: NEWS. For more news see: NEWS.
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5 research
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The Nesvizhskii Lab | nesvilab.org Reviews

https://nesvilab.org

Advancing Proteomics, one spectrum at a time. Proteomics and Integrative Bioinformatics Lab. Alexey I. Nesvizhskii, Ph.D. Department of Computational Medicine and Bioinformatics. Director, Proteomics Resource Facility. University of Michigan, Ann Arbor, Michigan. More information about the lab: ABOUT THE LAB. Bioinformatics tools and resources we developed: SOFTWARE. Proteomics Resource Facility: PRF. Current and former lab members: MEMBERS. News in the lab or about the lab: NEWS. For more news see: NEWS.

INTERNAL PAGES

nesvilab.org nesvilab.org
1

The Nesvizhskii Lab

http://www.nesvilab.org/news.html

Advancing Proteomics, one spectrum at a time. News in the lab. Welcome to new post-doctoral fellow Felipe Leprevost. Felipe joins us from the Oswaldo Cruz Foundation (known as Fiocruz) in Curitiba, Brazil. Felipe received his Ph.D. in Bioinformatics and Computational Biology working in P$. Congratulations to Andy Kong and Dattatreya Mellacheruvu, who received travel awards to attend the US HUPO Conference. You can find links to this and all other computational tools on our SOFTWARE. Congratulations to Av...

2

The Nesvizhskii Lab

http://www.nesvilab.org/software.html

Advancing Proteomics, one spectrum at a time. This page describes the computational tools and software developed by Nesvizhskii lab. You can learn more about our tools at the following courses:. CSHL Course on Proteomics. July 2015, Cold Spring Harbor Laboratory (CSHL), New York. We contribute a workshop (lecture, hands-on tutorial) on the analysis of AP-MS protein-protein interaction data. US HUPO short course: Stable and Transient Protein-Protein Interactions: Discovery, Quantification and Validation.

3

The Nesvizhskii Lab

http://www.nesvilab.org/joinLab.html

Advancing Proteomics, one spectrum at a time. Nesvizhskii lab is affiliated with several academic programs at the University of Michigan, including Bioinformatics. And Molecular and Cellular Pathology. In the past, we also had graduate students from the Department of Biostatistics. Students can join the lab through the graduate program in Bioinformatics. Or Molecular and Cellular Pathology. The admission to both programs is coordinated through the University's Program in Biomedical Sciences (PIBS). Stude...

4

The Nesvizhskii Lab

http://www.nesvilab.org/positions.html

Advancing Proteomics, one spectrum at a time. Positions available (posted December 2014). Post-doctoral positions in Computational Proteomics and Multi-Omics Data Integration:. Representative recent publications from the lab in these areas:. O A Balbin et al. Reconstructing targetable pathways in lung cancer by integrating diverse omics data, Nature Communications 4:2617 (2013). The University of Michigan, Ann Arbor is internationally renowned for its excellent academics, and has been ranked consistently...

5

QSpec Spectral Counter

http://www.nesvilab.org/qspec.php

This page is best viewed using Firefox. As of September 2012. QSpec is released as a component of QPROT. To obtain a free copy of the software, please email Dr. Hyung Won Choi at:. If you would like to obtain a copy of the original QSpec software please go the Sourceforge download site here. We are currently using version 1.2.2. Please follow these instructions exactly as described. The text file must be tab-delimited. And have a header line that looks like this:. Protid protLen 0 0 0 1 1.

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SCH9 (YHR205W) | YeastKinome.org

https://yeastkinome.org/yeast-kinase/SCH9.html

Saccharomyces cerevisiae Kinase and Phosphatase Interactome (KPI) Resource. Aliases: YHR205W, SCH9, KOM1. Protein kinase involved in transcriptional activation of osmostress-responsive genes; regulates G1 progression, cAPK activity, nitrogen activation of the FGM pathway; involved in life span regulation; homologous to mammalian Akt/PKB. On Cytoscape figures, arrows represent only bait-prey directionality, not functional directionality.

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PFind Studio: a computational solution for mass spectrometry-based proteomics. Key Labs and Related Researchers. Key Labs and Related Researchers. B·Beijing Proteome Research Center:. B·Beijing Institute of Genomics, Chinese Academy of Sciences:. D·Dalian Institute of Chemical Physics, Chinese Academy of Sciences:. I·Institute of Biophysics, Chinese Academy of Sciences:. I·Institute of Genetics and Developmental Biology, Chinese Academy of Sciences:. C·Cornell University, USA:. Steven P. Gygi. F·F...

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Links

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PFind Studio: a computational solution for mass spectrometry-based proteomics. Key Labs and Related Researchers. Key Labs and Related Researchers. B·Beijing Proteome Research Center:. B·Beijing Institute of Genomics, Chinese Academy of Sciences:. D·Dalian Institute of Chemical Physics, Chinese Academy of Sciences:. I·Institute of Biophysics, Chinese Academy of Sciences:. I·Institute of Genetics and Developmental Biology, Chinese Academy of Sciences:. C·Cornell University, USA:. Steven P. Gygi. F·F...

gingraslab.lunenfeld.ca gingraslab.lunenfeld.ca

the Gingras Laboratory | Resources

http://gingraslab.lunenfeld.ca/resources.php?cateName=Software

The Lunenfeld-Tanenbaum Research Institute. ProHits 4.0: Ready for DIA analysis. Guomin (Frank Liu) and colleagues in the Gingras, Nesvizhskii. Labs release a major update to the ProHits LIMS. In ProHits 4.0, Data Independent Acquisition (DIA) is handled through DIA-Umpire. ProHits 4.0 also facilitates data deposition in public repositories such as MassIVE and the transfer of data to new visualization tools we have developed. DIA-Umpire: Integrated solution for Data Independent Acquisition. Developed in ...

yeastkinome.org yeastkinome.org

TPK3 (YKL166C) | YeastKinome.org

https://yeastkinome.org/yeast-kinase/TPK3.html

Saccharomyces cerevisiae Kinase and Phosphatase Interactome (KPI) Resource. Aliases: YKL166C, TPK3. CAMP-dependent protein kinase catalytic subunit; promotes vegetative growth in response to nutrients via the Ras-cAMP signaling pathway; inhibited by regulatory subunit Bcy1p in the absence of cAMP; partially redundant with Tpk1p and Tpk2p. On Cytoscape figures, arrows represent only bait-prey directionality, not functional directionality.

yeastkinome.org yeastkinome.org

YPK1 (YKL126W) | YeastKinome.org

https://yeastkinome.org/yeast-kinase/YPK1.html

Saccharomyces cerevisiae Kinase and Phosphatase Interactome (KPI) Resource. Aliases: YKL126W, YPK1, SLI2. Serine/threonine protein kinase required for receptor-mediated endocytosis; involved in sphingolipid-mediated and cell integrity signaling pathways; localized to the bud neck, cytosol and plasma membrane; homolog of mammalian kinase SGK. On Cytoscape figures, arrows represent only bait-prey directionality, not functional directionality.

yeastkinome.org yeastkinome.org

KIN82 (YCR091W) | YeastKinome.org

https://yeastkinome.org/yeast-kinase/KIN82.html

Saccharomyces cerevisiae Kinase and Phosphatase Interactome (KPI) Resource. Aliases: YCR091W, KIN82. Putative serine/threonine protein kinase, most similar to cyclic nucleotide-dependent protein kinase subfamily and the protein kinase C subfamily. On Cytoscape figures, arrows represent only bait-prey directionality, not functional directionality.

yeastkinome.org yeastkinome.org

DBF20 (YPR111W) | YeastKinome.org

https://yeastkinome.org/yeast-kinase/DBF20.html

Saccharomyces cerevisiae Kinase and Phosphatase Interactome (KPI) Resource. Aliases: YPR111W, DBF20. Ser/Thr kinase involved in late nuclear division, one of the mitotic exit network (MEN) proteins; necessary for the execution of cytokinesis. On Cytoscape figures, arrows represent only bait-prey directionality, not functional directionality.

yeastkinome.org yeastkinome.org

PKH1 (YDR490C) | YeastKinome.org

https://yeastkinome.org/yeast-kinase/PKH1.html

Saccharomyces cerevisiae Kinase and Phosphatase Interactome (KPI) Resource. Aliases: YDR490C, PKH1. Serine/threonine protein kinase involved in sphingolipid-mediated signaling pathway that controls endocytosis; activates Ypk1p and Ykr2p, components of signaling cascade required for maintenance of cell wall integrity; redundant with Pkh2p. On Cytoscape figures, arrows represent only bait-prey directionality, not functional directionality.

yeastkinome.org yeastkinome.org

TPK1 (YJL164C) | YeastKinome.org

https://yeastkinome.org/yeast-kinase/TPK1.html

Saccharomyces cerevisiae Kinase and Phosphatase Interactome (KPI) Resource. Aliases: YJL164C, TPK1, PKA1, SRA3. CAMP-dependent protein kinase catalytic subunit; promotes vegetative growth in response to nutrients via the Ras-cAMP signaling pathway; inhibited by regulatory subunit Bcy1p in the absence of cAMP; partially redundant with Tpk2p and Tpk3p. On Cytoscape figures, arrows represent only bait-prey directionality, not functional directionality.

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The Nesvizhskii Lab

Advancing Proteomics, one spectrum at a time. Proteomics and Integrative Bioinformatics Lab. Alexey I. Nesvizhskii, Ph.D. Department of Computational Medicine and Bioinformatics. Director, Proteomics Resource Facility. University of Michigan, Ann Arbor, Michigan. More information about the lab: ABOUT THE LAB. Bioinformatics tools and resources we developed: SOFTWARE. Proteomics Resource Facility: PRF. Current and former lab members: MEMBERS. News in the lab or about the lab: NEWS. For more news see: NEWS.

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