Novel gene and gene model detection using a whole genome open reading frame analysis in proteomics (Q30477869)

13 October 2017

Novel gene and gene model detection using a whole genome open reading frame analysis in proteomics (English)

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13 October 2017

whole genome sequencing

1 reference

8

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22 June 2017

Damian Fermin

1

1 reference

13 October 2017

Baxter B Allen

2

1 reference

13 October 2017

Thomas W Blackwell

3

1 reference

13 October 2017

Rajasree Menon

4

1 reference

13 October 2017

Marcin Adamski

5

1 reference

13 October 2017

Yin Xu

6

1 reference

13 October 2017

Peter Ulintz

7

1 reference

13 October 2017

David J States

9

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13 October 2017

28 April 2006

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13 October 2017

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13 October 2017

7

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13 October 2017

R35

1 reference

13 October 2017

4

1 reference

describes a project that uses

13 October 2017

SQL

1 reference

26 June 2022

https://europepmc.org/article/PMC/PMC1557991

based on heuristic

inferred from PubMed Central ID database lookup

exact match

https://scigraph.springernature.com/pub.10.1186/gb-2006-7-4-r35

0 references

cites work

Challenges in deriving high-confidence protein identifications from data gathered by a HUPO plasma proteome collaborative study

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Data management and preliminary data analysis in the pilot phase of the HUPO Plasma Proteome Project

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Integration with the human genome of peptide sequences obtained by high-throughput mass spectrometry

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

The Universal Protein Resource (UniProt)

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Combining phylogenetic and hidden Markov models in biosequence analysis

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

The International Protein Index: an integrated database for proteomics experiments

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Recent advances in gene structure prediction

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Accurate identification of novel human genes through simultaneous gene prediction in human, mouse, and rat.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

TANDEM: matching proteins with tandem mass spectra

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

A hypergeometric probability model for protein identification and validation using tandem mass spectral data and protein sequence databases

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Comparison of mouse and human genomes followed by experimental verification yields an estimated 1,019 additional genes

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Leveraging the mouse genome for gene prediction in human: from whole-genome shotgun reads to a global synteny map.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

PROSITE: a documented database using patterns and profiles as motif descriptors

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Interrogating the human genome using uninterpreted mass spectrometry data

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Mass spectrometry allows direct identification of proteins in large genomes

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Identification of human chromosome 22 transcribed sequences with ORF expressed sequence tags

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Probability-based protein identification by searching sequence databases using mass spectrometry data

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Receiver-operating characteristic (ROC) plots: a fundamental evaluation tool in clinical medicine.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

The SIR2 gene family, conserved from bacteria to humans, functions in silencing, cell cycle progression, and chromosome stability

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Basic local alignment search tool

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Characterization of the human blood plasma proteome

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Potential for false positive identifications from large databases through tandem mass spectrometry.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

The need for guidelines in publication of peptide and protein identification data: Working Group on Publication Guidelines for Peptide and Protein Identification Data.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1557991

Mining genomes: correlating tandem mass spectra of modified and unmodified peptides to sequences in nucleotide databases

26 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16646984

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

HUPO (Human Proteome Organization) 3rd Annual World Congress. Beijing, China, October 25-27, 2004

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16646984

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/GB-2006-7-4-R35

1 reference

Dimensions Publication ID

13 October 2017

0 references

1 reference

13 October 2017

1 reference