31 to 40 of 11,758 Results
ZIP Archive - 20.0 GB -
MD5: b74511615010607270b9a8f42025ebe8
FASTA Files of MW-filtered canonical and expanded reference databases. The zip file contains two FASTA files of target and decoy peptide sequences for canonical and expanded databases. Decoy sequences are indicated by the label “rev_” in the FASTA header. |
ZIP Archive - 7.3 GB -
MD5: 45447fd1fec537a575ee6ba49189da98
FASTA Files of MW-RT-filtered canonical and expanded reference databases. The zip file contains two FASTA files of target and decoy peptide sequences for canonical and expanded databases. Decoy sequences are indicated by the label “rev_” in the FASTA header. |
ZIP Archive - 260.0 MB -
MD5: ab5ae2c2969311bc6123d094dfdd5de1
FASTA Files of MW-RT-affinity-filtered canonical and expanded reference databases. The zip file contains two FASTA files of target and decoy peptide sequences for canonical and expanded databases. Decoy sequences are indicated by the label “rev_” in the FASTA header. |
ZIP Archive - 292.9 MB -
MD5: 441e90e56b3dd8c54590ea305a756c25
MSFragger original search engine outputs. The zip file contains subfolders each containing ‘pepXML’ output files from MSFragger for the MS raw files which were searched. Folder titles indicate the model system, whether the search results come from the canonical or expanded reference database search and which SPIsnake filters were applied. |
ZIP Archive - 400.6 KB -
MD5: 102b0e8fe7483141efd70b33139578c1
Peptide sequences identified with the naïve strategy. This file contains .csv files of peptide sequences filtered for 1% FDR identified with the naïve strategy canonical and expanded reference databases using MW-filters, MW-RT-filters or MW-RT-HLA-I binding filters. Furthermore, peptide sequences identified with MSFragger at 1% FDR and subsequently... |
ZIP Archive - 329.3 KB -
MD5: 970f392d5f0984ec9b1e17a9fc124f7e
Peptide sequences identified with the combined strategy. This file contains .csv files of peptide sequences filtered for 1% FDR identified with the combined strategy using either MW filtered, MW-RT filtered or MW-RT-HLA-I binding filtered reference databases, respectively. Furthermore, peptide sequences identified with MSFragger at 1%FDR and subseq... |
ZIP Archive - 1.4 GB -
MD5: 9f0fc5f535d92409036abcf20d4e426d
SPIsnake user parameter settings. This file contains a list of folders with pre-set SPIsnake job inputs, with all corresponding settings and hyperparameters used in this study. |
ZIP Archive - 314.4 KB -
MD5: a5614357a2aa2f915298e1b113aecd8a
Peptide sequences identified with the group specific FDR estimation. This file contains .csv files of peptide sequences filtered for 1% FDR identified with the group specific FDR estimation combined strategy using either MW filtered, MW-RT filtered or MW-RT-HLA-I binding filtered reference databases, respectively. Furthermore, peptide sequences ide... |
MS Excel Spreadsheet - 54.9 KB -
MD5: 07ac6d02e874305e8dfb21f439a72ff1
Ratios of nonspecific/tryptic peptides in K562 cell line. An .xlsx table, reporting the numbers of unique peptides in GENCODE-informed and RNA-seq informed strata, across filtering steps. Includes the ratios of nonspecific/tryptic peptide counts. |
MS Excel Spreadsheet - 206.1 KB -
MD5: 6c277adf5086dcd71eca9728509e657a
Gene fusion detection in K562 cell line. An .xlsx table, derived from the Arriba gene fusion detection tool, reporting the identified gene fusions and corresponding biological replicates of K562 cells. |
