TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv0872c/PE_PGRS15:

update plot	correlation	link to info on gene
Rv1981c/nrdF1	(cc=0.5792)	info on Rv1981c/nrdF1
Rv3738c/PPE66	(cc=0.5147)	info on Rv3738c/PPE66
Rv3784/-	(cc=0.4699)	info on Rv3784/-
Rv1862/adhA	(cc=0.4596)	info on Rv1862/adhA
Rv3389c/htdY	(cc=0.452)	info on Rv3389c/htdY
Rv1847/-	(cc=0.4498)	info on Rv1847/-
Rv1808/PPE32	(cc=0.4491)	info on Rv1808/PPE32
Rv3487c/lipF	(cc=0.449)	info on Rv3487c/lipF
Rv0834c/PE_PGRS14	(cc=0.4483)	info on Rv0834c/PE_PGRS14
Rv2675c/-	(cc=0.4446)	info on Rv2675c/-

Correlation of Rv0872c/PE_PGRS15 with Rv1981c/nrdF1

Normalized LFCs for Rv0872c/PE_PGRS15:
(description and provenance of datasets)

	Rv0872c/PE_PGRS15	Rv1981c/nrdF1
Fe_supp_jason_reseq	0.14	0.204
low_pH_jason_reseq	-1.631	-1.022
NO_jason_reseq	-0.32	-0.417
B6_jason_reseq	0.24	0.31
MHCII_jason_reseq	0.762	0.087
Isoniazid02	-0.473	-0.639
Rifampicin4	0.671	0.143
Ethambutol3	-0.406	0.064
Meropenem3	0.059	-0.466
Vancomycin16	-0.194	-0.456
Rv2680_day32	0.061	0.742
H37Rv_KO_MarP	-0.045	-0.333
hypoxia_3wks	-0.175	-0.646
hypoxia_6wks	-0.76	-1.297
glycerol	0.581	0.089
cholesterol	0.441	-0.384
AJ	0.197	-0.012
Bibs02	0.228	0.468
Bibs02c	0.782	0.473
BL6	0.332	0.25
BL6a	0.74	0.443
BXD01	0.276	0.283
BXD010	-0.058	0.295
BXD011	-0.107	0.653
BXD03	0.133	0.455
BXD04	-0.047	0.492
BXD05	0.468	0.397
BXD06	-0.06	0.536
BXD07	0.117	0.277
BXD08	0.412	-0.029
BXD09	0.148	0.417
CAST	0.637	-0.012
CCcont	0.106	0.321
DS01	-0.161	0.301
DS02	0.17	-0.028
DS04	0.447	0.025
DS0c	-0.218	0.542
GP01	0.25	0.421
GP02	0.146	0.603
GP0c	-0.039	0.365
NOD	0.236	0.667
NZO	-0.201	-0.39
PWK	-0.104	0.036
H37Rv_KO_CtpC	0.265	0.101
H37Rv_KO_CtpD	0.351	0.44
H37Rv_KO_Rv1272	0.952	0.588
H37Rv_KO_SugABC	0.895	1.0
H37Rv_KO_MbtN	0.369	0.046
Trans05	0.419	0.555
macrophage_unactivated	1.004	0.174
IL1	0.225	0.294
Rapamycin	0.847	-0.157
Tcell	0.534	0.111
GMCSF	0.069	0.269
IFNab	0.378	0.166
IFNg	0.313	0.059
IFNg_GMCSF1	0.214	0.273
Rv1432_day32	0.272	-0.155
Rv1565c_day32	-0.351	-0.878
secA2_input	0.094	-0.427
delta_Rv3594	-0.162	-0.049
delta_Rv3717	-0.646	-0.31
delta_Rv3811	-0.47	0.012
delta_Rv0954	-0.885	0.231
PonA1	-0.247	0.359
EccD1_KO	0.02	0.066
EspI_KO	-0.128	0.103
PE35_KO	-0.248	-0.108
PPE68_KO	-0.294	0.032
glycerol2	1.338	0.965
lignocerate	1.169	0.958
oleate	1.262	1.048
phosphatidylcholine	1.195	0.957
acetate	0.281	0.258
glucAc	0.554	0.183
Rv0950ko	0.208	0.663
Rv1096ko	0.208	0.118
Rv3684ko	0.226	-0.331
delta_otsA_trehalose	-0.152	0.71