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 Rv1527c/pks5:

update plot	correlation	link to info on gene
Rv1838c/vapC13	(cc=0.5927)	info on Rv1838c/vapC13
Rv2123/PPE37	(cc=0.534)	info on Rv2123/PPE37
Rv0278c/PE_PGRS3	(cc=0.5279)	info on Rv0278c/PE_PGRS3
Rv0969/ctpV	(cc=0.5033)	info on Rv0969/ctpV
Rv1834/lipZ	(cc=0.5007)	info on Rv1834/lipZ
Rv1760/-	(cc=0.4985)	info on Rv1760/-
Rv2177c/-	(cc=0.4975)	info on Rv2177c/-
Rv1625c/cya	(cc=0.4968)	info on Rv1625c/cya
Rv1263/amiB2	(cc=0.4927)	info on Rv1263/amiB2
Rv2025c/-	(cc=0.4908)	info on Rv2025c/-

Correlation of Rv1527c/pks5 with Rv2123/PPE37

Normalized LFCs for Rv1527c/pks5:
(description and provenance of datasets)

	Rv1527c/pks5	Rv2123/PPE37
Fe_supp_jason_reseq	0.175	-0.702
low_pH_jason_reseq	-0.587	-0.51
NO_jason_reseq	-0.155	0.05
B6_jason_reseq	0.181	-0.184
MHCII_jason_reseq	0.229	0.434
Isoniazid02	-0.015	-0.3
Rifampicin4	-0.057	0.333
Ethambutol3	0.225	-0.531
Meropenem3	0.915	1.005
Vancomycin16	-0.056	-0.334
Rv2680_day32	-0.199	0.916
H37Rv_KO_MarP	0.189	-0.241
hypoxia_3wks	0.159	-0.056
hypoxia_6wks	0.294	0.535
glycerol	0.196	0.083
cholesterol	0.013	-0.583
AJ	0.622	0.24
Bibs02	0.15	-0.951
Bibs02c	0.477	0.685
BL6	0.251	-0.332
BL6a	0.066	0.485
BXD01	-0.215	-0.102
BXD010	0.021	-0.795
BXD011	-0.262	-0.31
BXD03	-0.108	0.044
BXD04	-0.508	-0.825
BXD05	0.022	-0.218
BXD06	-0.39	-0.116
BXD07	-0.036	-0.146
BXD08	0.022	-0.045
BXD09	-0.304	-0.149
CAST	-0.12	0.39
CCcont	0.025	-0.601
DS01	0.554	0.209
DS02	0.126	0.274
DS04	0.455	1.183
DS0c	0.325	0.071
GP01	1.712	0.921
GP02	0.477	0.723
GP0c	0.555	0.618
NOD	0.304	0.444
NZO	0.314	0.129
PWK	-0.017	-0.189
H37Rv_KO_CtpC	0.314	-0.201
H37Rv_KO_CtpD	0.143	-0.406
H37Rv_KO_Rv1272	0.415	0.546
H37Rv_KO_SugABC	0.611	0.492
H37Rv_KO_MbtN	-0.13	-0.428
Trans05	0.289	0.404
macrophage_unactivated	-0.158	-0.48
IL1	-0.074	-0.581
Rapamycin	-0.114	-0.792
Tcell	-0.081	-0.544
GMCSF	0.19	0.333
IFNab	-0.151	-0.121
IFNg	-0.134	-0.732
IFNg_GMCSF1	0.189	-0.082
Rv1432_day32	0.216	0.145
Rv1565c_day32	-0.104	0.021
secA2_input	0.523	0.614
delta_Rv3594	0.021	0.6
delta_Rv3717	-0.374	0.401
delta_Rv3811	0.312	0.134
delta_Rv0954	-0.172	0.05
PonA1	0.492	1.192
EccD1_KO	0.089	1.131
EspI_KO	0.262	0.428
PE35_KO	0.23	0.306
PPE68_KO	0.378	0.41
glycerol2	0.46	0.195
lignocerate	0.673	0.404
oleate	0.373	0.238
phosphatidylcholine	0.696	0.373
acetate	0.845	0.027
glucAc	0.441	0.188
Rv0950ko	0.422	1.04
Rv1096ko	0.311	1.074
Rv3684ko	0.498	0.095
delta_otsA_trehalose	0.551	0.596