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 Rv3389c/htdY

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

	Rv0872c/PE_PGRS15	Rv3389c/htdY
Fe_supp_jason_reseq	0.14	-0.699
low_pH_jason_reseq	-1.631	-0.965
NO_jason_reseq	-0.32	-0.396
B6_jason_reseq	0.24	-1.175
MHCII_jason_reseq	0.762	-1.29
Isoniazid02	-0.473	-1.947
Rifampicin4	0.671	0.577
Ethambutol3	-0.406	-1.544
Meropenem3	0.059	-1.27
Vancomycin16	-0.194	-1.112
Rv2680_day32	0.061	0.894
H37Rv_KO_MarP	-0.045	0.686
hypoxia_3wks	-0.175	-0.909
hypoxia_6wks	-0.76	-0.163
glycerol	0.581	0.158
cholesterol	0.441	-0.35
AJ	0.197	-0.064
Bibs02	0.228	0.632
Bibs02c	0.782	0.875
BL6	0.332	0.353
BL6a	0.74	0.659
BXD01	0.276	0.085
BXD010	-0.058	0.959
BXD011	-0.107	-0.158
BXD03	0.133	0.315
BXD04	-0.047	0.117
BXD05	0.468	-0.134
BXD06	-0.06	-0.346
BXD07	0.117	-0.083
BXD08	0.412	0.216
BXD09	0.148	-0.271
CAST	0.637	-0.444
CCcont	0.106	0.826
DS01	-0.161	0.559
DS02	0.17	-0.361
DS04	0.447	-0.072
DS0c	-0.218	0.459
GP01	0.25	1.487
GP02	0.146	0.458
GP0c	-0.039	0.845
NOD	0.236	-0.662
NZO	-0.201	0.444
PWK	-0.104	-0.225
H37Rv_KO_CtpC	0.265	0.134
H37Rv_KO_CtpD	0.351	0.525
H37Rv_KO_Rv1272	0.952	1.195
H37Rv_KO_SugABC	0.895	0.38
H37Rv_KO_MbtN	0.369	-1.147
Trans05	0.419	0.448
macrophage_unactivated	1.004	0.316
IL1	0.225	0.219
Rapamycin	0.847	0.954
Tcell	0.534	-0.368
GMCSF	0.069	0.248
IFNab	0.378	0.378
IFNg	0.313	0.059
IFNg_GMCSF1	0.214	0.839
Rv1432_day32	0.272	0.505
Rv1565c_day32	-0.351	-0.114
secA2_input	0.094	0.327
delta_Rv3594	-0.162	-1.286
delta_Rv3717	-0.646	-1.315
delta_Rv3811	-0.47	-0.907
delta_Rv0954	-0.885	-0.499
PonA1	-0.247	-0.811
EccD1_KO	0.02	0.25
EspI_KO	-0.128	0.756
PE35_KO	-0.248	-0.233
PPE68_KO	-0.294	0.077
glycerol2	1.338	1.199
lignocerate	1.169	0.938
oleate	1.262	-0.184
phosphatidylcholine	1.195	0.896
acetate	0.281	0.49
glucAc	0.554	0.392
Rv0950ko	0.208	0.504
Rv1096ko	0.208	0.365
Rv3684ko	0.226	0.242
delta_otsA_trehalose	-0.152	-2.225