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 Rv0530/-:

update plot	correlation	link to info on gene
Rv1057/-	(cc=0.5674)	info on Rv1057/-
Rv0536/galE3	(cc=0.5137)	info on Rv0536/galE3
Rv2402/-	(cc=0.5029)	info on Rv2402/-
Rv0493c/-	(cc=0.496)	info on Rv0493c/-
Rv0113/gmhA	(cc=0.4933)	info on Rv0113/gmhA
Rv2748c/ftsK	(cc=0.4922)	info on Rv2748c/ftsK
Rv3294c/-	(cc=0.4876)	info on Rv3294c/-
Rv3786c/-	(cc=0.4871)	info on Rv3786c/-
Rv0134/ephF	(cc=0.4818)	info on Rv0134/ephF
Rv0442c/PPE10	(cc=0.4707)	info on Rv0442c/PPE10

Correlation of Rv0530/- with Rv1057/-

Normalized LFCs for Rv0530/-:
(description and provenance of datasets)

	Rv0530/-	Rv1057/-
Fe_supp_jason_reseq	-0.276	-0.014
low_pH_jason_reseq	-0.321	0.186
NO_jason_reseq	0.236	0.423
B6_jason_reseq	0.625	0.318
MHCII_jason_reseq	0.96	0.133
Isoniazid02	0.292	0.026
Rifampicin4	-0.222	-0.777
Ethambutol3	0.582	1.098
Meropenem3	0.265	-0.067
Vancomycin16	-0.838	-0.424
Rv2680_day32	-0.954	-1.83
H37Rv_KO_MarP	0.12	0.752
hypoxia_3wks	-0.57	-0.941
hypoxia_6wks	-0.23	-0.382
glycerol	-0.044	0.161
cholesterol	-0.614	0.434
AJ	0.309	-0.049
Bibs02	0.351	0.419
Bibs02c	0.333	-0.062
BL6	-0.4	-0.023
BL6a	0.042	-0.281
BXD01	-0.154	-0.522
BXD010	-0.646	-0.647
BXD011	-0.259	-0.057
BXD03	-0.672	-0.429
BXD04	0.031	-0.154
BXD05	-0.544	-0.879
BXD06	-0.618	-0.575
BXD07	-0.137	-0.423
BXD08	-0.277	-0.162
BXD09	-0.568	-0.43
CAST	0.864	0.287
CCcont	-0.12	-0.427
DS01	1.025	0.027
DS02	-0.154	0.038
DS04	0.309	-0.006
DS0c	0.787	0.167
GP01	0.37	0.624
GP02	1.026	0.614
GP0c	0.212	-0.275
NOD	0.029	0.129
NZO	0.026	-0.121
PWK	0.742	-0.053
H37Rv_KO_CtpC	-0.435	-0.51
H37Rv_KO_CtpD	0.327	0.223
H37Rv_KO_Rv1272	-1.102	-0.795
H37Rv_KO_SugABC	0.252	-0.825
H37Rv_KO_MbtN	0.125	-0.332
Trans05	-0.813	-0.736
macrophage_unactivated	-0.331	0.35
IL1	0.208	0.062
Rapamycin	0.675	0.488
Tcell	-0.469	-0.485
GMCSF	0.364	0.356
IFNab	-0.46	-0.33
IFNg	-0.059	-0.086
IFNg_GMCSF1	1.345	0.066
Rv1432_day32	0.849	0.521
Rv1565c_day32	-0.518	0.118
secA2_input	0.333	0.41
delta_Rv3594	-0.393	-0.109
delta_Rv3717	0.345	-0.31
delta_Rv3811	-0.256	-0.644
delta_Rv0954	0.224	0.271
PonA1	0.391	0.105
EccD1_KO	-0.444	0.585
EspI_KO	-0.536	0.838
PE35_KO	-0.099	0.163
PPE68_KO	-0.55	0.336
glycerol2	0.015	0.645
lignocerate	0.961	1.097
oleate	-0.472	-0.265
phosphatidylcholine	0.353	0.873
acetate	0.251	0.397
glucAc	0.367	0.369
Rv0950ko	0.244	-0.045
Rv1096ko	0.29	0.0
Rv3684ko	0.39	0.295
delta_otsA_trehalose	0.888	1.013