Dataset Open Access
Gupta, Namita; Laserson, Uri; Vander Heiden, Jason
Processed sequencing data from BioProject PRJNA349143.
Samples were collected from human volunteers as described in Laserson and Vigneault et al, 2014 (1). Briefly, blood samples were collected from three individuals both pre- and post-vaccination for seasonal influenza. Samples were collected for sequencing at time points -8 days, -2 days, -1 hour, +1 hour, +1 day, +3 days, +7 days, +14 days, +21 days and +28 days relative to injection with seasonal influenza vaccine.
Library Preparation and Sequencing
The original samples from Laserson and Vigneault et al, 2014 (1) were re-sequenced as described in Gupta et al, 2017 (2). Briefly, sequencing libraries were prepared from mRNA using 5'RACE with addition of 17-nucleotide unique molecular identifiers (UMIs). Amplification was performed using constant region primers specific to IGHA, IGHD, IGHE, IGHG, IGHM, IGKC and IGLC. Sequencing was conducted on the Illumina MiSeq platform using the 600 cycle kit with 325 cycles for read 1 and 275 cycles for read 2. A 10% PhiX spike-in was added for sequencing.
Sequences were processed using the pRESTO (3) and Change-O (4) toolkits as described in Gupta et al, 2017 (2).
Note, the provided data has been filtered significantly, including the removal of sequences that fail V(D)J alignment and the exclusion of non-functional sequences.
Processed sequences are provided in FASTA format annotated using the pRESTO scheme.
Annotations included are as follows: