Cell

Raw data for Figures 1-7

Behavior across development of C. elegans individuals of the following genotypes: -N2 -tph-1 -cat-2 -tdc-1 -daf-7 -mod-5 -ser-1 -ser-4 -ser-5 -ser-7 -mod-1 Each genotype population is a Matlab cell array, each cell shows the center of mass XY positions of a single individual (3fps) across development time. 1's in XY positions indicate that the animal was not detected .

Clustering of complexes according to stability and abundance across the cell cycle and all supplementary tables.

Table M1. The raw dataset of metabolites Table M2. Transcriptome related analyses Table M3. mGWAS singals for all the metabolites Table M4. The sweeps caused by domestication or improvement selections Table M5. Changed metabolites between groups and pools Table M6. Metabolites study for fw11.3 Table M7. Domestication analyses of SGAs Table M8. Metabolites and genes subjected to SlMYB12 Table M9. Changed metabolites between PIM and Tm-2a-free BIG as well two pools

RNA-seq in iPSC-derived ECs with editing at rs9349379.

Please refer the manuscript for methods https://www.cell.com/cell/abstract/S0092-8674(17)31492-7. Each file contains description for the data obtained.

Savitski et al Figure 2.zip Description: mPDP of THP1 cells treated with JQ1-VHL PROTAC Content: - Figure 2.pdf - Figure S2.pdf - Supplementary dataset 1_mPDP JQ1-VHL PROTAC.xlsx Savitski et al Figure 3.zip Description: 2-dimensional Thermal proteome profiling (2D-TPP) of THP1 cells treated with JQ1 Content: - Figure 3.pdf - Figure S3.pdf - Supplementary dataset 1_mPDP JQ1-VHL PROTAC.xlsx Savitski et al Figure 4.zip Description: mPDP of estrogen signaling and selective estrogen receptor modulators (SERMs) Content: - Figure 4.pdf - Figure S4.pdf - Supplementary Dataset 3_Estrogen.xlsx Savitski et al Figure 5.zip Description: mPDP of HSP inhibitor 17-AAG in Jurkat and MCF7 cells Content: - Figure 5.pdf - Figure S5.pdf - Supplementary Dataset 3_Estrogen.xlsx - Supplementary Dataset 4_17AAG.xlsx - Supplementary Dataset 5_HSP90 dep etc.xlsx - Supplementary Dataset 6_reference_melting curves.xlsx - Supplementary Dataset 7_kinobeads_activatedLysate.xlsx Savitski et al Figure 6-7.zip Description: mPDP of HSP inhibitor 17-AAG in primary T-cells Content: - Figure 6.pdf - Figure S6.pdf - Figure 7.pdf - Figure S7.pdf - Supplementary Dataset 5_HSP90 dep etc.xlsx - Supplementary Dataset 6_reference_melting curves.xlsx - Supplementary Dataset 8_Tcells.xlsx

This data-set represents a genome-scale metabolomic map about amino acid metabolism in gene deletion strains as determined in Saccharomyces cerevisiae.

Original unprocessed gels, western blots, microscopy images and movies

Pathogenic Germline Variants in 10,389 Adult Cancers We conducted the largest investigation of predispo- sition variants in cancer to date, discovering 853 pathogenic or likely pathogenic variants in 8% of 10,389 cases from 33 cancer types. Twenty-one genes showed single or cross-cancer associations, including novel associations of SDHA in melanoma and PALB2 in stomach adenocarcinoma. The 659 predisposition variants and 18 additional large dele- tions in tumor suppressors, including ATM, BRCA1, and NF1, showed low gene expression and frequent (43%) loss of heterozygosity or biallelic two-hit events. We also discovered 33 such variants in oncogenes, including missenses in MET, RET, and PTPN11 associated with high gene expression. We nominated 47 additional predisposition variants from prioritized VUSs supported by multiple evi- dences involving case-control frequency, loss of het- erozygosity, expression effect, and co-localization with mutations and modified residues. Our integra- tive approach links rare predisposition variants to functional consequences, informing future guide- lines of variant classification and germline genetic testing in cancer.