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 Rv1977/-:

update plot	correlation	link to info on gene
Rv2961/-	(cc=0.4584)	info on Rv2961/-
Rv2329c/narK1	(cc=0.4524)	info on Rv2329c/narK1
Rv2327/-	(cc=0.4454)	info on Rv2327/-
Rv3135/PPE50	(cc=0.4136)	info on Rv3135/PPE50
Rv1030/kdpB	(cc=0.4133)	info on Rv1030/kdpB
Rv2627c/-	(cc=0.3919)	info on Rv2627c/-
Rv2018/-	(cc=0.3851)	info on Rv2018/-
Rv1132/-	(cc=0.3846)	info on Rv1132/-
Rv1185c/fadD21	(cc=0.3805)	info on Rv1185c/fadD21
Rv0071/-	(cc=0.3792)	info on Rv0071/-

Correlation of Rv1977/- with Rv0071/-

Normalized LFCs for Rv1977/-:
(description and provenance of datasets)

	Rv1977/-	Rv0071/-
Fe_supp_jason_reseq	0.316	0.624
low_pH_jason_reseq	0.027	-0.139
NO_jason_reseq	0.281	0.517
B6_jason_reseq	0.913	1.764
MHCII_jason_reseq	1.289	1.675
Isoniazid02	-0.221	0.073
Rifampicin4	-0.046	0.75
Ethambutol3	0.444	1.131
Meropenem3	0.232	0.694
Vancomycin16	-0.287	0.218
Rv2680_day32	2.328	1.537
H37Rv_KO_MarP	-0.085	0.059
hypoxia_3wks	-0.152	-0.152
hypoxia_6wks	-0.568	-0.182
glycerol	0.477	1.16
cholesterol	0.184	1.207
AJ	-0.018	-0.504
Bibs02	0.564	0.474
Bibs02c	-0.061	0.887
BL6	0.108	0.441
BL6a	-0.564	-0.265
BXD01	-0.316	-0.919
BXD010	-0.075	-0.781
BXD011	0.11	-0.745
BXD03	-0.4	-1.044
BXD04	-0.521	-0.664
BXD05	-0.535	-0.091
BXD06	-0.096	-0.636
BXD07	-0.372	-0.722
BXD08	-0.497	-0.8
BXD09	-0.21	-0.69
CAST	0.199	0.235
CCcont	-0.141	-0.342
DS01	-0.058	0.301
DS02	0.137	0.767
DS04	0.308	0.51
DS0c	0.596	-0.093
GP01	-0.723	-2.601
GP02	-0.237	-2.703
GP0c	-0.525	-1.661
NOD	0.53	1.694
NZO	0.231	0.027
PWK	-0.406	0.443
H37Rv_KO_CtpC	0.14	0.0
H37Rv_KO_CtpD	0.674	0.247
H37Rv_KO_Rv1272	0.127	-0.757
H37Rv_KO_SugABC	-0.43	-0.655
H37Rv_KO_MbtN	0.108	-0.546
Trans05	-0.559	-0.911
macrophage_unactivated	0.398	0.085
IL1	1.528	0.181
Rapamycin	0.813	0.779
Tcell	0.642	-0.088
GMCSF	0.114	0.671
IFNab	0.538	-0.366
IFNg	0.82	-0.171
IFNg_GMCSF1	0.814	0.776
Rv1432_day32	2.198	0.426
Rv1565c_day32	0.218	1.978
secA2_input	-0.982	1.85
delta_Rv3594	0.193	-0.136
delta_Rv3717	0.604	-0.409
delta_Rv3811	0.549	-0.201
delta_Rv0954	0.258	0.828
PonA1	0.287	0.177
EccD1_KO	-0.122	-1.727
EspI_KO	0.202	-1.931
PE35_KO	-0.128	-1.248
PPE68_KO	0.022	-1.017
glycerol2	0.723	0.422
lignocerate	0.303	0.559
oleate	0.184	-0.903
phosphatidylcholine	0.342	0.172
acetate	0.71	0.321
glucAc	-0.062	0.587
Rv0950ko	-0.648	0.066
Rv1096ko	-0.446	0.709
Rv3684ko	-0.301	-0.072
delta_otsA_trehalose	-0.879	1.156