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 Rv2717c/-:

update plot	correlation	link to info on gene
Rv2430c/PPE41	(cc=0.572)	info on Rv2430c/PPE41
Rv1088/PE9	(cc=0.5658)	info on Rv1088/PE9
Rv2823c/-	(cc=0.5032)	info on Rv2823c/-
Rv2928/tesA	(cc=0.4982)	info on Rv2928/tesA
Rv1500/-	(cc=0.4957)	info on Rv1500/-
Rv2067c/-	(cc=0.4956)	info on Rv2067c/-
Rv2817c/-	(cc=0.4912)	info on Rv2817c/-
Rv1059/-	(cc=0.4866)	info on Rv1059/-
Rv0260c/-	(cc=0.4781)	info on Rv0260c/-
Rv1526c/-	(cc=0.4763)	info on Rv1526c/-

Correlation of Rv2717c/- with Rv2817c/-

Normalized LFCs for Rv2717c/-:
(description and provenance of datasets)

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