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 Rv2817c/-:

update plot	correlation	link to info on gene
Rv2818c/-	(cc=0.6446)	info on Rv2818c/-
Rv1225c/-	(cc=0.6111)	info on Rv1225c/-
Rv0505c/serB1	(cc=0.5354)	info on Rv0505c/serB1
Rv1059/-	(cc=0.527)	info on Rv1059/-
Rv1984c/cfp21	(cc=0.526)	info on Rv1984c/cfp21
Rv2929/-	(cc=0.5259)	info on Rv2929/-
Rv1752/-	(cc=0.5161)	info on Rv1752/-
Rv2717c/-	(cc=0.4912)	info on Rv2717c/-
Rv2809/-	(cc=0.4873)	info on Rv2809/-
Rv3116/moeB2	(cc=0.4868)	info on Rv3116/moeB2

Correlation of Rv2817c/- with Rv2809/-

Normalized LFCs for Rv2817c/-:
(description and provenance of datasets)

	Rv2817c/-	Rv2809/-
Fe_supp_jason_reseq	0.212	0.592
low_pH_jason_reseq	1.256	-0.236
NO_jason_reseq	0.092	0.62
B6_jason_reseq	-0.04	0.436
MHCII_jason_reseq	0.067	1.042
Isoniazid02	0.735	-0.825
Rifampicin4	0.244	0.246
Ethambutol3	0.839	1.547
Meropenem3	0.259	-0.146
Vancomycin16	0.0	-0.032
Rv2680_day32	-2.793	-2.243
H37Rv_KO_MarP	-0.467	-0.476
hypoxia_3wks	0.255	-0.271
hypoxia_6wks	0.0	0.098
glycerol	-1.306	-2.478
cholesterol	-0.614	-0.07
AJ	0.698	0.087
Bibs02	-0.566	-0.126
Bibs02c	1.216	-1.253
BL6	0.473	1.036
BL6a	1.73	-0.019
BXD01	1.077	1.196
BXD010	1.274	1.083
BXD011	0.923	0.899
BXD03	1.691	0.735
BXD04	2.51	1.117
BXD05	0.901	1.149
BXD06	1.3	0.414
BXD07	0.739	0.936
BXD08	1.116	1.493
BXD09	1.26	0.747
CAST	-0.552	-0.022
CCcont	0.821	1.331
DS01	-1.198	-0.186
DS02	0.113	0.414
DS04	-0.533	-0.946
DS0c	0.168	-0.585
GP01	0.147	0.667
GP02	0.688	1.361
GP0c	0.194	0.599
NOD	-0.06	0.895
NZO	0.678	0.618
PWK	-0.222	-0.301
H37Rv_KO_CtpC	1.087	1.032
H37Rv_KO_CtpD	1.509	-1.764
H37Rv_KO_Rv1272	0.73	1.858
H37Rv_KO_SugABC	1.353	-0.048
H37Rv_KO_MbtN	0.583	0.196
Trans05	-0.359	1.384
macrophage_unactivated	1.966	0.552
IL1	0.492	-1.48
Rapamycin	0.509	-0.509
Tcell	0.248	0.57
GMCSF	0.702	-0.71
IFNab	-0.181	-1.345
IFNg	0.152	0.0
IFNg_GMCSF1	0.0	0.355
Rv1432_day32	1.274	-0.729
Rv1565c_day32	-0.461	-0.667
secA2_input	-0.989	-0.883
delta_Rv3594	1.175	0.125
delta_Rv3717	0.315	0.045
delta_Rv3811	0.559	0.439
delta_Rv0954	1.215	-0.562
PonA1	0.434	-2.086
EccD1_KO	0.51	0.414
EspI_KO	0.371	0.964
PE35_KO	1.838	1.219
PPE68_KO	2.125	1.494
glycerol2	0.235	0.247
lignocerate	0.175	0.933
oleate	0.675	-0.072
phosphatidylcholine	0.27	0.569
acetate	0.176	0.702
glucAc	-0.029	0.594
Rv0950ko	-0.54	-0.914
Rv1096ko	-1.743	-2.015
Rv3684ko	-1.759	-1.385
delta_otsA_trehalose	-0.888	0.0