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 Rv2717c/-

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

	Rv2817c/-	Rv2717c/-
Fe_supp_jason_reseq	0.212	0.474
low_pH_jason_reseq	1.256	-0.611
NO_jason_reseq	0.092	-0.081
B6_jason_reseq	-0.04	-0.14
MHCII_jason_reseq	0.067	-1.399
Isoniazid02	0.735	0.1
Rifampicin4	0.244	-0.097
Ethambutol3	0.839	0.103
Meropenem3	0.259	1.193
Vancomycin16	0.0	0.0
Rv2680_day32	-2.793	-1.824
H37Rv_KO_MarP	-0.467	-0.409
hypoxia_3wks	0.255	0.08
hypoxia_6wks	0.0	-0.33
glycerol	-1.306	-0.774
cholesterol	-0.614	-0.055
AJ	0.698	1.276
Bibs02	-0.566	0.093
Bibs02c	1.216	-0.265
BL6	0.473	1.014
BL6a	1.73	0.917
BXD01	1.077	1.27
BXD010	1.274	-0.217
BXD011	0.923	0.448
BXD03	1.691	0.291
BXD04	2.51	0.905
BXD05	0.901	0.509
BXD06	1.3	1.179
BXD07	0.739	1.029
BXD08	1.116	0.702
BXD09	1.26	0.32
CAST	-0.552	1.131
CCcont	0.821	0.879
DS01	-1.198	0.702
DS02	0.113	0.441
DS04	-0.533	0.576
DS0c	0.168	-0.63
GP01	0.147	-0.177
GP02	0.688	1.036
GP0c	0.194	0.215
NOD	-0.06	1.019
NZO	0.678	-0.107
PWK	-0.222	0.209
H37Rv_KO_CtpC	1.087	-0.139
H37Rv_KO_CtpD	1.509	0.28
H37Rv_KO_Rv1272	0.73	0.775
H37Rv_KO_SugABC	1.353	0.571
H37Rv_KO_MbtN	0.583	-0.362
Trans05	-0.359	0.803
macrophage_unactivated	1.966	1.382
IL1	0.492	0.285
Rapamycin	0.509	-0.209
Tcell	0.248	0.235
GMCSF	0.702	0.747
IFNab	-0.181	0.517
IFNg	0.152	-0.321
IFNg_GMCSF1	0.0	0.716
Rv1432_day32	1.274	0.253
Rv1565c_day32	-0.461	0.344
secA2_input	-0.989	-0.571
delta_Rv3594	1.175	0.564
delta_Rv3717	0.315	-0.028
delta_Rv3811	0.559	0.094
delta_Rv0954	1.215	-0.269
PonA1	0.434	0.555
EccD1_KO	0.51	-0.299
EspI_KO	0.371	-0.505
PE35_KO	1.838	0.685
PPE68_KO	2.125	0.477
glycerol2	0.235	0.713
lignocerate	0.175	0.684
oleate	0.675	0.301
phosphatidylcholine	0.27	0.927
acetate	0.176	0.46
glucAc	-0.029	0.4
Rv0950ko	-0.54	-0.95
Rv1096ko	-1.743	-1.134
Rv3684ko	-1.759	-1.411
delta_otsA_trehalose	-0.888	0.26