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 Rv1522c/mmpL12:

update plot	correlation	link to info on gene
Rv0743c/-	(cc=0.6213)	info on Rv0743c/-
Rv0473/-	(cc=0.5856)	info on Rv0473/-
Rv1431/-	(cc=0.5518)	info on Rv1431/-
Rv2044c/-	(cc=0.5196)	info on Rv2044c/-
Rv3823c/mmpL8	(cc=0.487)	info on Rv3823c/mmpL8
Rv3050c/-	(cc=0.4746)	info on Rv3050c/-
Rv0645c/mmaA1	(cc=0.4718)	info on Rv0645c/mmaA1
Rv0148/-	(cc=0.4671)	info on Rv0148/-
Rv1399c/nlhH	(cc=0.4664)	info on Rv1399c/nlhH
Rv0932c/pstS2	(cc=0.4654)	info on Rv0932c/pstS2

Correlation of Rv1522c/mmpL12 with Rv0743c/-

Normalized LFCs for Rv1522c/mmpL12:
(description and provenance of datasets)

	Rv1522c/mmpL12	Rv0743c/-
Fe_supp_jason_reseq	0.155	-0.605
low_pH_jason_reseq	-0.094	-0.734
NO_jason_reseq	0.142	-0.102
B6_jason_reseq	-0.722	-0.357
MHCII_jason_reseq	-0.391	-0.135
Isoniazid02	-0.998	-2.117
Rifampicin4	-0.617	-0.512
Ethambutol3	-0.761	-0.535
Meropenem3	-0.375	0.467
Vancomycin16	-0.621	-1.409
Rv2680_day32	0.562	-0.269
H37Rv_KO_MarP	0.102	0.182
hypoxia_3wks	0.112	0.12
hypoxia_6wks	0.115	0.123
glycerol	-0.527	0.521
cholesterol	-0.503	-0.153
AJ	-0.245	0.363
Bibs02	0.152	0.736
Bibs02c	0.045	0.144
BL6	0.062	-0.468
BL6a	0.402	0.161
BXD01	0.241	-0.184
BXD010	0.157	-0.298
BXD011	0.139	-0.076
BXD03	0.029	-0.195
BXD04	0.103	-0.355
BXD05	0.409	0.261
BXD06	0.434	-0.076
BXD07	0.495	-0.106
BXD08	0.137	-0.014
BXD09	0.078	-0.083
CAST	0.0	0.302
CCcont	0.221	-0.382
DS01	0.051	0.11
DS02	-0.08	0.09
DS04	0.162	0.756
DS0c	-0.162	-0.069
GP01	0.594	1.725
GP02	0.705	-0.447
GP0c	-0.138	0.347
NOD	0.648	1.53
NZO	-0.133	0.406
PWK	-0.178	0.49
H37Rv_KO_CtpC	0.405	0.663
H37Rv_KO_CtpD	0.945	1.198
H37Rv_KO_Rv1272	1.056	0.271
H37Rv_KO_SugABC	0.413	-0.875
H37Rv_KO_MbtN	0.515	0.491
Trans05	0.717	0.608
macrophage_unactivated	0.051	0.527
IL1	-0.098	0.077
Rapamycin	0.049	0.068
Tcell	-0.218	-0.362
GMCSF	0.209	0.702
IFNab	-0.305	0.112
IFNg	-0.021	-0.04
IFNg_GMCSF1	-0.182	0.047
Rv1432_day32	3.323	4.237
Rv1565c_day32	0.439	0.434
secA2_input	0.204	0.07
delta_Rv3594	0.171	-0.028
delta_Rv3717	-0.024	0.303
delta_Rv3811	0.406	-0.065
delta_Rv0954	-0.116	0.041
PonA1	-0.128	0.095
EccD1_KO	0.589	0.431
EspI_KO	-0.165	1.075
PE35_KO	0.4	-0.064
PPE68_KO	0.438	0.058
glycerol2	-0.13	0.852
lignocerate	0.054	0.632
oleate	-0.286	1.034
phosphatidylcholine	0.049	0.908
acetate	-0.123	0.138
glucAc	0.232	0.108
Rv0950ko	0.0	0.344
Rv1096ko	-0.893	-0.018
Rv3684ko	-0.54	-0.059
delta_otsA_trehalose	-0.397	1.259